Compare commits
No commits in common. "root6" and "v1.9.7" have entirely different histories.
@ -1,7 +1,7 @@
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# - musrfit
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cmake_minimum_required(VERSION 3.17)
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project(musrfit VERSION 1.9.9 LANGUAGES C CXX)
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project(musrfit VERSION 1.9.7 LANGUAGES C CXX)
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#--- musrfit specific options -------------------------------------------------
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option(nexus "build optional NeXus support. Needed for ISIS" OFF)
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@ -200,10 +200,8 @@ endif (qt_based_tools)
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#--- if NeXus check also for HDF4, HDF5, and MXML -----------------------------
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if (nexus)
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find_package(HDF5 COMPONENTS CXX REQUIRED)
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if (HAVE_HDF4)
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find_package(HDF4 REQUIRED)
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endif (HAVE_HDF4)
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find_package(HDF5 COMPONENTS CXX REQUIRED )
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find_package(HDF4 REQUIRED)
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find_package(NEXUS REQUIRED)
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add_definitions(-DPNEXUS_ENABLED)
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endif (nexus)
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@ -224,19 +222,6 @@ else ()
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set(IS_GIT_REPO 0)
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endif ()
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#--- start create git-revision.h ----------------------------------------------
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if (IS_GIT_REPO)
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execute_process(COMMAND sh ${CMAKE_SOURCE_DIR}/src/git_revision.sh)
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set(HAVE_GIT_REV_H "-DHAVE_GIT_REV_H")
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set(GIT_REV_H "git-revision.h")
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else (IS_GIT_REPO)
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set(HAVE_GIT_REV_H "")
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set(GIT_REV_H "")
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endif (IS_GIT_REPO)
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#--- end create git-revision.h ------------------------------------------------
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#--- rpath related things -----------------------------------------------------
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# use, i.e. don't skip the full RPATH for the build tree
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set(CMAKE_SKIP_BUILD_RPATH FALSE)
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@ -301,11 +286,7 @@ endif (OpenMP_FOUND)
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if (nexus)
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message("")
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if (HAVE_HDF4)
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message(" HDF4 found in ${HDF4_INCLUDE_DIRS}")
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else (HAVE_HDF4)
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message(" HDF4 not present.")
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endif (HAVE_HDF4)
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message(" HDF4 found in ${HDF4_INCLUDE_DIRS}")
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message(" HDF5 found in ${HDF5_INCLUDE_DIRS}, Version: ${HDF5_VERSION}")
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message(" NeXus found in ${NEXUS_INCLUDE_DIR}, Version: ${NEXUS_VERSION_STRING}")
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endif (nexus)
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10
ChangeLog
10
ChangeLog
@ -12,16 +12,6 @@ or
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https://bitbucket.org/muonspin/musrfit/commits/all
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Release of V1.9.9, 2025/06/08
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=============================
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add THEORY functions for local Gaussian / global Lorentzian, and a simple F-mu-F function.
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Release of V1.9.8, 2025/03/24
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=============================
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add a user interface option to export data from a msr-file view (single- or multiple files).
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Release of V1.9.7, 2025/01/18
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=============================
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30
cmake/configure_musrfit_version_file.cmake.in
Normal file
30
cmake/configure_musrfit_version_file.cmake.in
Normal file
@ -0,0 +1,30 @@
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# configure_musrfit_version_file.cmake.in:
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set(SRC_DIR "@CMAKE_SOURCE_DIR@")
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set(BIN_DIR "@CMAKE_CURRENT_BINARY_DIR@")
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# Set variables
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set(CMAKE_INSTALL_PREFIX "@CMAKE_INSTALL_PREFIX@")
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set(MUSRFIT_VERSION "@MUSRFIT_VERSION@")
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# Get the current working branch
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execute_process(
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COMMAND git rev-parse --abbrev-ref HEAD
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WORKING_DIRECTORY ${SRC_DIR}
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OUTPUT_VARIABLE GIT_BRANCH
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OUTPUT_STRIP_TRAILING_WHITESPACE
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)
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# Get the latest abbreviated commit hash of the working branch
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execute_process(
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COMMAND git log -1 --pretty="%h, %ci"
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WORKING_DIRECTORY ${SRC_DIR}
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OUTPUT_VARIABLE GIT_CURRENT_SHA1
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OUTPUT_STRIP_TRAILING_WHITESPACE
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)
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configure_file(
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${SRC_DIR}/cmake/git-revision.h.in
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${BIN_DIR}/git-revision.h
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@ONLY
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)
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# EOF
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@ -8,7 +8,7 @@
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***************************************************************************/
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/***************************************************************************
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* Copyright (C) 2007-2025 by Andreas Suter *
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* Copyright (C) 2007-2024 by Andreas Suter *
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* andreas.suter@psi.ch *
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* *
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* This program is free software; you can redistribute it and/or modify *
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@ -8,7 +8,7 @@
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||||
***************************************************************************/
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/***************************************************************************
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* Copyright (C) 2007-2025 by Andreas Suter *
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* Copyright (C) 2007-2021 by Andreas Suter *
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* andreas.suter@psi.ch *
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* *
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* This program is free software; you can redistribute it and/or modify *
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||||
@ -1,4 +1,4 @@
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||||
# Sphinx build info version 1
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||||
# This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
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||||
config: a49a5e0b750ed752f738f66d3ddeadd4
|
||||
# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
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||||
config: 1c72e3ac8764a6fbfdf66c0cdf797d3d
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||||
tags: 645f666f9bcd5a90fca523b33c5a78b7
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||||
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||||
File diff suppressed because it is too large
Load Diff
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@ -1,123 +0,0 @@
|
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/* Compatability shim for jQuery and underscores.js.
|
||||
*
|
||||
* Copyright Sphinx contributors
|
||||
* Released under the two clause BSD licence
|
||||
*/
|
||||
|
||||
/**
|
||||
* small helper function to urldecode strings
|
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*
|
||||
* See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/decodeURIComponent#Decoding_query_parameters_from_a_URL
|
||||
*/
|
||||
jQuery.urldecode = function(x) {
|
||||
if (!x) {
|
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return x
|
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}
|
||||
return decodeURIComponent(x.replace(/\+/g, ' '));
|
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};
|
||||
|
||||
/**
|
||||
* small helper function to urlencode strings
|
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*/
|
||||
jQuery.urlencode = encodeURIComponent;
|
||||
|
||||
/**
|
||||
* This function returns the parsed url parameters of the
|
||||
* current request. Multiple values per key are supported,
|
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* it will always return arrays of strings for the value parts.
|
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*/
|
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jQuery.getQueryParameters = function(s) {
|
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if (typeof s === 'undefined')
|
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s = document.location.search;
|
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var parts = s.substr(s.indexOf('?') + 1).split('&');
|
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var result = {};
|
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for (var i = 0; i < parts.length; i++) {
|
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var tmp = parts[i].split('=', 2);
|
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var key = jQuery.urldecode(tmp[0]);
|
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var value = jQuery.urldecode(tmp[1]);
|
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if (key in result)
|
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result[key].push(value);
|
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else
|
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result[key] = [value];
|
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|
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return result;
|
||||
};
|
||||
|
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/**
|
||||
* highlight a given string on a jquery object by wrapping it in
|
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* span elements with the given class name.
|
||||
*/
|
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jQuery.fn.highlightText = function(text, className) {
|
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function highlight(node, addItems) {
|
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if (node.nodeType === 3) {
|
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var val = node.nodeValue;
|
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var pos = val.toLowerCase().indexOf(text);
|
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if (pos >= 0 &&
|
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!jQuery(node.parentNode).hasClass(className) &&
|
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!jQuery(node.parentNode).hasClass("nohighlight")) {
|
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var span;
|
||||
var isInSVG = jQuery(node).closest("body, svg, foreignObject").is("svg");
|
||||
if (isInSVG) {
|
||||
span = document.createElementNS("http://www.w3.org/2000/svg", "tspan");
|
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} else {
|
||||
span = document.createElement("span");
|
||||
span.className = className;
|
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}
|
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span.appendChild(document.createTextNode(val.substr(pos, text.length)));
|
||||
node.parentNode.insertBefore(span, node.parentNode.insertBefore(
|
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document.createTextNode(val.substr(pos + text.length)),
|
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node.nextSibling));
|
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node.nodeValue = val.substr(0, pos);
|
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if (isInSVG) {
|
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var rect = document.createElementNS("http://www.w3.org/2000/svg", "rect");
|
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var bbox = node.parentElement.getBBox();
|
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rect.x.baseVal.value = bbox.x;
|
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rect.y.baseVal.value = bbox.y;
|
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rect.width.baseVal.value = bbox.width;
|
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rect.height.baseVal.value = bbox.height;
|
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rect.setAttribute('class', className);
|
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addItems.push({
|
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"parent": node.parentNode,
|
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"target": rect});
|
||||
}
|
||||
}
|
||||
}
|
||||
else if (!jQuery(node).is("button, select, textarea")) {
|
||||
jQuery.each(node.childNodes, function() {
|
||||
highlight(this, addItems);
|
||||
});
|
||||
}
|
||||
}
|
||||
var addItems = [];
|
||||
var result = this.each(function() {
|
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highlight(this, addItems);
|
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});
|
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for (var i = 0; i < addItems.length; ++i) {
|
||||
jQuery(addItems[i].parent).before(addItems[i].target);
|
||||
}
|
||||
return result;
|
||||
};
|
||||
|
||||
/*
|
||||
* backward compatibility for jQuery.browser
|
||||
* This will be supported until firefox bug is fixed.
|
||||
*/
|
||||
if (!jQuery.browser) {
|
||||
jQuery.uaMatch = function(ua) {
|
||||
ua = ua.toLowerCase();
|
||||
|
||||
var match = /(chrome)[ \/]([\w.]+)/.exec(ua) ||
|
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/(webkit)[ \/]([\w.]+)/.exec(ua) ||
|
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/(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) ||
|
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/(msie) ([\w.]+)/.exec(ua) ||
|
||||
ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) ||
|
||||
[];
|
||||
|
||||
return {
|
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browser: match[ 1 ] || "",
|
||||
version: match[ 2 ] || "0"
|
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};
|
||||
};
|
||||
jQuery.browser = {};
|
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jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true;
|
||||
}
|
||||
BIN
doc/html/_static/ajax-loader.gif
Normal file
BIN
doc/html/_static/ajax-loader.gif
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 673 B |
@ -1,5 +1,12 @@
|
||||
/*
|
||||
* basic.css
|
||||
* ~~~~~~~~~
|
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*
|
||||
* Sphinx stylesheet -- basic theme.
|
||||
*
|
||||
* :copyright: Copyright 2007-2018 by the Sphinx team, see AUTHORS.
|
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* :license: BSD, see LICENSE for details.
|
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*
|
||||
*/
|
||||
|
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/* -- main layout ----------------------------------------------------------- */
|
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@ -8,12 +15,6 @@ div.clearer {
|
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clear: both;
|
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}
|
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|
||||
div.section::after {
|
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display: block;
|
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content: '';
|
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clear: left;
|
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}
|
||||
|
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/* -- relbar ---------------------------------------------------------------- */
|
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|
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div.related {
|
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@ -80,10 +81,6 @@ div.sphinxsidebar input {
|
||||
font-size: 1em;
|
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}
|
||||
|
||||
div.sphinxsidebar #searchbox form.search {
|
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overflow: hidden;
|
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}
|
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|
||||
div.sphinxsidebar #searchbox input[type="text"] {
|
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float: left;
|
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width: 80%;
|
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@ -108,18 +105,22 @@ img {
|
||||
/* -- search page ----------------------------------------------------------- */
|
||||
|
||||
ul.search {
|
||||
margin-top: 10px;
|
||||
margin: 10px 0 0 20px;
|
||||
padding: 0;
|
||||
}
|
||||
|
||||
ul.search li {
|
||||
padding: 5px 0;
|
||||
padding: 5px 0 5px 20px;
|
||||
background-image: url(file.png);
|
||||
background-repeat: no-repeat;
|
||||
background-position: 0 7px;
|
||||
}
|
||||
|
||||
ul.search li a {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
ul.search li p.context {
|
||||
ul.search li div.context {
|
||||
color: #888;
|
||||
margin: 2px 0 0 30px;
|
||||
text-align: left;
|
||||
@ -211,7 +212,7 @@ table.modindextable td {
|
||||
/* -- general body styles --------------------------------------------------- */
|
||||
|
||||
div.body {
|
||||
min-width: 360px;
|
||||
min-width: 450px;
|
||||
max-width: 800px;
|
||||
}
|
||||
|
||||
@ -226,10 +227,6 @@ a.headerlink {
|
||||
visibility: hidden;
|
||||
}
|
||||
|
||||
a:visited {
|
||||
color: #551A8B;
|
||||
}
|
||||
|
||||
h1:hover > a.headerlink,
|
||||
h2:hover > a.headerlink,
|
||||
h3:hover > a.headerlink,
|
||||
@ -260,25 +257,19 @@ p.rubric {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
img.align-left, figure.align-left, .figure.align-left, object.align-left {
|
||||
img.align-left, .figure.align-left, object.align-left {
|
||||
clear: left;
|
||||
float: left;
|
||||
margin-right: 1em;
|
||||
}
|
||||
|
||||
img.align-right, figure.align-right, .figure.align-right, object.align-right {
|
||||
img.align-right, .figure.align-right, object.align-right {
|
||||
clear: right;
|
||||
float: right;
|
||||
margin-left: 1em;
|
||||
}
|
||||
|
||||
img.align-center, figure.align-center, .figure.align-center, object.align-center {
|
||||
display: block;
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
img.align-default, figure.align-default, .figure.align-default {
|
||||
img.align-center, .figure.align-center, object.align-center {
|
||||
display: block;
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
@ -292,45 +283,30 @@ img.align-default, figure.align-default, .figure.align-default {
|
||||
text-align: center;
|
||||
}
|
||||
|
||||
.align-default {
|
||||
text-align: center;
|
||||
}
|
||||
|
||||
.align-right {
|
||||
text-align: right;
|
||||
}
|
||||
|
||||
/* -- sidebars -------------------------------------------------------------- */
|
||||
|
||||
div.sidebar,
|
||||
aside.sidebar {
|
||||
div.sidebar {
|
||||
margin: 0 0 0.5em 1em;
|
||||
border: 1px solid #ddb;
|
||||
padding: 7px;
|
||||
padding: 7px 7px 0 7px;
|
||||
background-color: #ffe;
|
||||
width: 40%;
|
||||
float: right;
|
||||
clear: right;
|
||||
overflow-x: auto;
|
||||
}
|
||||
|
||||
p.sidebar-title {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
nav.contents,
|
||||
aside.topic,
|
||||
div.admonition, div.topic, blockquote {
|
||||
clear: left;
|
||||
}
|
||||
|
||||
/* -- topics ---------------------------------------------------------------- */
|
||||
|
||||
nav.contents,
|
||||
aside.topic,
|
||||
div.topic {
|
||||
border: 1px solid #ccc;
|
||||
padding: 7px;
|
||||
padding: 7px 7px 0 7px;
|
||||
margin: 10px 0 10px 0;
|
||||
}
|
||||
|
||||
@ -352,6 +328,10 @@ div.admonition dt {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
div.admonition dl {
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
p.admonition-title {
|
||||
margin: 0px 10px 5px 0px;
|
||||
font-weight: bold;
|
||||
@ -362,34 +342,9 @@ div.body p.centered {
|
||||
margin-top: 25px;
|
||||
}
|
||||
|
||||
/* -- content of sidebars/topics/admonitions -------------------------------- */
|
||||
|
||||
div.sidebar > :last-child,
|
||||
aside.sidebar > :last-child,
|
||||
nav.contents > :last-child,
|
||||
aside.topic > :last-child,
|
||||
div.topic > :last-child,
|
||||
div.admonition > :last-child {
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
div.sidebar::after,
|
||||
aside.sidebar::after,
|
||||
nav.contents::after,
|
||||
aside.topic::after,
|
||||
div.topic::after,
|
||||
div.admonition::after,
|
||||
blockquote::after {
|
||||
display: block;
|
||||
content: '';
|
||||
clear: both;
|
||||
}
|
||||
|
||||
/* -- tables ---------------------------------------------------------------- */
|
||||
|
||||
table.docutils {
|
||||
margin-top: 10px;
|
||||
margin-bottom: 10px;
|
||||
border: 0;
|
||||
border-collapse: collapse;
|
||||
}
|
||||
@ -399,11 +354,6 @@ table.align-center {
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
table.align-default {
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
table caption span.caption-number {
|
||||
font-style: italic;
|
||||
}
|
||||
@ -419,6 +369,10 @@ table.docutils td, table.docutils th {
|
||||
border-bottom: 1px solid #aaa;
|
||||
}
|
||||
|
||||
table.footnote td, table.footnote th {
|
||||
border: 0 !important;
|
||||
}
|
||||
|
||||
th {
|
||||
text-align: left;
|
||||
padding-right: 5px;
|
||||
@ -433,34 +387,22 @@ table.citation td {
|
||||
border-bottom: none;
|
||||
}
|
||||
|
||||
th > :first-child,
|
||||
td > :first-child {
|
||||
margin-top: 0px;
|
||||
}
|
||||
|
||||
th > :last-child,
|
||||
td > :last-child {
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
/* -- figures --------------------------------------------------------------- */
|
||||
|
||||
div.figure, figure {
|
||||
div.figure {
|
||||
margin: 0.5em;
|
||||
padding: 0.5em;
|
||||
}
|
||||
|
||||
div.figure p.caption, figcaption {
|
||||
div.figure p.caption {
|
||||
padding: 0.3em;
|
||||
}
|
||||
|
||||
div.figure p.caption span.caption-number,
|
||||
figcaption span.caption-number {
|
||||
div.figure p.caption span.caption-number {
|
||||
font-style: italic;
|
||||
}
|
||||
|
||||
div.figure p.caption span.caption-text,
|
||||
figcaption span.caption-text {
|
||||
div.figure p.caption span.caption-text {
|
||||
}
|
||||
|
||||
/* -- field list styles ----------------------------------------------------- */
|
||||
@ -485,74 +427,6 @@ table.field-list td, table.field-list th {
|
||||
hyphens: manual;
|
||||
}
|
||||
|
||||
/* -- hlist styles ---------------------------------------------------------- */
|
||||
|
||||
table.hlist {
|
||||
margin: 1em 0;
|
||||
}
|
||||
|
||||
table.hlist td {
|
||||
vertical-align: top;
|
||||
}
|
||||
|
||||
/* -- object description styles --------------------------------------------- */
|
||||
|
||||
.sig {
|
||||
font-family: 'Consolas', 'Menlo', 'DejaVu Sans Mono', 'Bitstream Vera Sans Mono', monospace;
|
||||
}
|
||||
|
||||
.sig-name, code.descname {
|
||||
background-color: transparent;
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
.sig-name {
|
||||
font-size: 1.1em;
|
||||
}
|
||||
|
||||
code.descname {
|
||||
font-size: 1.2em;
|
||||
}
|
||||
|
||||
.sig-prename, code.descclassname {
|
||||
background-color: transparent;
|
||||
}
|
||||
|
||||
.optional {
|
||||
font-size: 1.3em;
|
||||
}
|
||||
|
||||
.sig-paren {
|
||||
font-size: larger;
|
||||
}
|
||||
|
||||
.sig-param.n {
|
||||
font-style: italic;
|
||||
}
|
||||
|
||||
/* C++ specific styling */
|
||||
|
||||
.sig-inline.c-texpr,
|
||||
.sig-inline.cpp-texpr {
|
||||
font-family: unset;
|
||||
}
|
||||
|
||||
.sig.c .k, .sig.c .kt,
|
||||
.sig.cpp .k, .sig.cpp .kt {
|
||||
color: #0033B3;
|
||||
}
|
||||
|
||||
.sig.c .m,
|
||||
.sig.cpp .m {
|
||||
color: #1750EB;
|
||||
}
|
||||
|
||||
.sig.c .s, .sig.c .sc,
|
||||
.sig.cpp .s, .sig.cpp .sc {
|
||||
color: #067D17;
|
||||
}
|
||||
|
||||
|
||||
/* -- other body styles ----------------------------------------------------- */
|
||||
|
||||
ol.arabic {
|
||||
@ -575,81 +449,11 @@ ol.upperroman {
|
||||
list-style: upper-roman;
|
||||
}
|
||||
|
||||
:not(li) > ol > li:first-child > :first-child,
|
||||
:not(li) > ul > li:first-child > :first-child {
|
||||
margin-top: 0px;
|
||||
}
|
||||
|
||||
:not(li) > ol > li:last-child > :last-child,
|
||||
:not(li) > ul > li:last-child > :last-child {
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
ol.simple ol p,
|
||||
ol.simple ul p,
|
||||
ul.simple ol p,
|
||||
ul.simple ul p {
|
||||
margin-top: 0;
|
||||
}
|
||||
|
||||
ol.simple > li:not(:first-child) > p,
|
||||
ul.simple > li:not(:first-child) > p {
|
||||
margin-top: 0;
|
||||
}
|
||||
|
||||
ol.simple p,
|
||||
ul.simple p {
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
aside.footnote > span,
|
||||
div.citation > span {
|
||||
float: left;
|
||||
}
|
||||
aside.footnote > span:last-of-type,
|
||||
div.citation > span:last-of-type {
|
||||
padding-right: 0.5em;
|
||||
}
|
||||
aside.footnote > p {
|
||||
margin-left: 2em;
|
||||
}
|
||||
div.citation > p {
|
||||
margin-left: 4em;
|
||||
}
|
||||
aside.footnote > p:last-of-type,
|
||||
div.citation > p:last-of-type {
|
||||
margin-bottom: 0em;
|
||||
}
|
||||
aside.footnote > p:last-of-type:after,
|
||||
div.citation > p:last-of-type:after {
|
||||
content: "";
|
||||
clear: both;
|
||||
}
|
||||
|
||||
dl.field-list {
|
||||
display: grid;
|
||||
grid-template-columns: fit-content(30%) auto;
|
||||
}
|
||||
|
||||
dl.field-list > dt {
|
||||
font-weight: bold;
|
||||
word-break: break-word;
|
||||
padding-left: 0.5em;
|
||||
padding-right: 5px;
|
||||
}
|
||||
|
||||
dl.field-list > dd {
|
||||
padding-left: 0.5em;
|
||||
margin-top: 0em;
|
||||
margin-left: 0em;
|
||||
margin-bottom: 0em;
|
||||
}
|
||||
|
||||
dl {
|
||||
margin-bottom: 15px;
|
||||
}
|
||||
|
||||
dd > :first-child {
|
||||
dd p {
|
||||
margin-top: 0px;
|
||||
}
|
||||
|
||||
@ -663,21 +467,6 @@ dd {
|
||||
margin-left: 30px;
|
||||
}
|
||||
|
||||
.sig dd {
|
||||
margin-top: 0px;
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
.sig dl {
|
||||
margin-top: 0px;
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
dl > dd:last-child,
|
||||
dl > dd:last-child > :last-child {
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
dt:target, span.highlighted {
|
||||
background-color: #fbe54e;
|
||||
}
|
||||
@ -691,6 +480,14 @@ dl.glossary dt {
|
||||
font-size: 1.1em;
|
||||
}
|
||||
|
||||
.optional {
|
||||
font-size: 1.3em;
|
||||
}
|
||||
|
||||
.sig-paren {
|
||||
font-size: larger;
|
||||
}
|
||||
|
||||
.versionmodified {
|
||||
font-style: italic;
|
||||
}
|
||||
@ -729,26 +526,11 @@ dl.glossary dt {
|
||||
font-style: oblique;
|
||||
}
|
||||
|
||||
.classifier:before {
|
||||
font-style: normal;
|
||||
margin: 0 0.5em;
|
||||
content: ":";
|
||||
display: inline-block;
|
||||
}
|
||||
|
||||
abbr, acronym {
|
||||
border-bottom: dotted 1px;
|
||||
cursor: help;
|
||||
}
|
||||
|
||||
.translated {
|
||||
background-color: rgba(207, 255, 207, 0.2)
|
||||
}
|
||||
|
||||
.untranslated {
|
||||
background-color: rgba(255, 207, 207, 0.2)
|
||||
}
|
||||
|
||||
/* -- code displays --------------------------------------------------------- */
|
||||
|
||||
pre {
|
||||
@ -756,69 +538,29 @@ pre {
|
||||
overflow-y: hidden; /* fixes display issues on Chrome browsers */
|
||||
}
|
||||
|
||||
pre, div[class*="highlight-"] {
|
||||
clear: both;
|
||||
}
|
||||
|
||||
span.pre {
|
||||
-moz-hyphens: none;
|
||||
-ms-hyphens: none;
|
||||
-webkit-hyphens: none;
|
||||
hyphens: none;
|
||||
white-space: nowrap;
|
||||
}
|
||||
|
||||
div[class*="highlight-"] {
|
||||
margin: 1em 0;
|
||||
}
|
||||
|
||||
td.linenos pre {
|
||||
padding: 5px 0px;
|
||||
border: 0;
|
||||
background-color: transparent;
|
||||
color: #aaa;
|
||||
}
|
||||
|
||||
table.highlighttable {
|
||||
display: block;
|
||||
}
|
||||
|
||||
table.highlighttable tbody {
|
||||
display: block;
|
||||
}
|
||||
|
||||
table.highlighttable tr {
|
||||
display: flex;
|
||||
margin-left: 0.5em;
|
||||
}
|
||||
|
||||
table.highlighttable td {
|
||||
margin: 0;
|
||||
padding: 0;
|
||||
}
|
||||
|
||||
table.highlighttable td.linenos {
|
||||
padding-right: 0.5em;
|
||||
}
|
||||
|
||||
table.highlighttable td.code {
|
||||
flex: 1;
|
||||
overflow: hidden;
|
||||
}
|
||||
|
||||
.highlight .hll {
|
||||
display: block;
|
||||
}
|
||||
|
||||
div.highlight pre,
|
||||
table.highlighttable pre {
|
||||
margin: 0;
|
||||
}
|
||||
|
||||
div.code-block-caption + div {
|
||||
margin-top: 0;
|
||||
padding: 0 0.5em 0 0.5em;
|
||||
}
|
||||
|
||||
div.code-block-caption {
|
||||
margin-top: 1em;
|
||||
padding: 2px 5px;
|
||||
font-size: small;
|
||||
}
|
||||
@ -827,14 +569,8 @@ div.code-block-caption code {
|
||||
background-color: transparent;
|
||||
}
|
||||
|
||||
table.highlighttable td.linenos,
|
||||
span.linenos,
|
||||
div.highlight span.gp { /* gp: Generic.Prompt */
|
||||
user-select: none;
|
||||
-webkit-user-select: text; /* Safari fallback only */
|
||||
-webkit-user-select: none; /* Chrome/Safari */
|
||||
-moz-user-select: none; /* Firefox */
|
||||
-ms-user-select: none; /* IE10+ */
|
||||
div.code-block-caption + div > div.highlight > pre {
|
||||
margin-top: 0;
|
||||
}
|
||||
|
||||
div.code-block-caption span.caption-number {
|
||||
@ -846,7 +582,21 @@ div.code-block-caption span.caption-text {
|
||||
}
|
||||
|
||||
div.literal-block-wrapper {
|
||||
margin: 1em 0;
|
||||
padding: 1em 1em 0;
|
||||
}
|
||||
|
||||
div.literal-block-wrapper div.highlight {
|
||||
margin: 0;
|
||||
}
|
||||
|
||||
code.descname {
|
||||
background-color: transparent;
|
||||
font-weight: bold;
|
||||
font-size: 1.2em;
|
||||
}
|
||||
|
||||
code.descclassname {
|
||||
background-color: transparent;
|
||||
}
|
||||
|
||||
code.xref, a code {
|
||||
@ -887,7 +637,8 @@ span.eqno {
|
||||
}
|
||||
|
||||
span.eqno a.headerlink {
|
||||
position: absolute;
|
||||
position: relative;
|
||||
left: 0px;
|
||||
z-index: 1;
|
||||
}
|
||||
|
||||
|
||||
BIN
doc/html/_static/comment-bright.png
Normal file
BIN
doc/html/_static/comment-bright.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 756 B |
BIN
doc/html/_static/comment-close.png
Normal file
BIN
doc/html/_static/comment-close.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 829 B |
BIN
doc/html/_static/comment.png
Normal file
BIN
doc/html/_static/comment.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 641 B |
@ -1 +1 @@
|
||||
.clearfix{*zoom:1}.clearfix:after,.clearfix:before{display:table;content:""}.clearfix:after{clear:both}@font-face{font-family:FontAwesome;font-style:normal;font-weight:400;src:local("FontAwesome"),url('/.sysassets/fonts/fontawesome/fontawesome-webfont.ttf') format("truetype")}.fa:before{font-family:FontAwesome;font-style:normal;font-weight:400;line-height:1}.fa:before,a .fa{text-decoration:inherit}.fa:before,a .fa,li .fa{display:inline-block}li .fa-large:before{width:1.875em}ul.fas{list-style-type:none;margin-left:2em;text-indent:-.8em}ul.fas li .fa{width:.8em}ul.fas li .fa-large:before{vertical-align:baseline}.fa-book:before,.icon-book:before{content:"\f02d"}.fa-caret-down:before,.icon-caret-down:before{content:"\f0d7"}.fa-caret-up:before,.icon-caret-up:before{content:"\f0d8"}.fa-caret-left:before,.icon-caret-left:before{content:"\f0d9"}.fa-caret-right:before,.icon-caret-right:before{content:"\f0da"}.rst-versions{position:fixed;bottom:0;left:0;width:300px;color:#fcfcfc;background:#1f1d1d;font-family:Lato,proxima-nova,Helvetica Neue,Arial,sans-serif;z-index:400}.rst-versions a{color:#2980b9;text-decoration:none}.rst-versions .rst-badge-small{display:none}.rst-versions .rst-current-version{padding:12px;background-color:#272525;display:block;text-align:right;font-size:90%;cursor:pointer;color:#27ae60}.rst-versions .rst-current-version:after{clear:both;content:"";display:block}.rst-versions .rst-current-version .fa{color:#fcfcfc}.rst-versions .rst-current-version .fa-book,.rst-versions .rst-current-version .icon-book{float:left}.rst-versions .rst-current-version.rst-out-of-date{background-color:#e74c3c;color:#fff}.rst-versions .rst-current-version.rst-active-old-version{background-color:#f1c40f;color:#000}.rst-versions.shift-up{height:auto;max-height:100%;overflow-y:scroll}.rst-versions.shift-up .rst-other-versions{display:block}.rst-versions .rst-other-versions{font-size:90%;padding:12px;color:grey;display:none}.rst-versions .rst-other-versions hr{display:block;height:1px;border:0;margin:20px 0;padding:0;border-top:1px solid #413d3d}.rst-versions .rst-other-versions dd{display:inline-block;margin:0}.rst-versions .rst-other-versions dd a{display:inline-block;padding:6px;color:#fcfcfc}.rst-versions .rst-other-versions .rtd-current-item{font-weight:700}.rst-versions.rst-badge{width:auto;bottom:20px;right:20px;left:auto;border:none;max-width:300px;max-height:90%}.rst-versions.rst-badge .fa-book,.rst-versions.rst-badge .icon-book{float:none;line-height:30px}.rst-versions.rst-badge.shift-up .rst-current-version{text-align:right}.rst-versions.rst-badge.shift-up .rst-current-version .fa-book,.rst-versions.rst-badge.shift-up .rst-current-version .icon-book{float:left}.rst-versions.rst-badge>.rst-current-version{width:auto;height:30px;line-height:30px;padding:0 6px;display:block;text-align:center}@media screen and (max-width:768px){.rst-versions{width:85%;display:none}.rst-versions.shift{display:block}}#flyout-search-form{padding:6px}
|
||||
.fa:before{-webkit-font-smoothing:antialiased}.clearfix{*zoom:1}.clearfix:before,.clearfix:after{display:table;content:""}.clearfix:after{clear:both}@font-face{font-family:FontAwesome;font-weight:normal;font-style:normal;src:url("../fonts/fontawesome-webfont.eot");src:url("../fonts/fontawesome-webfont.eot?#iefix") format("embedded-opentype"),url("../fonts/fontawesome-webfont.woff") format("woff"),url("../fonts/fontawesome-webfont.ttf") format("truetype"),url("../fonts/fontawesome-webfont.svg#FontAwesome") format("svg")}.fa:before{display:inline-block;font-family:FontAwesome;font-style:normal;font-weight:normal;line-height:1;text-decoration:inherit}a .fa{display:inline-block;text-decoration:inherit}li .fa{display:inline-block}li .fa-large:before,li .fa-large:before{width:1.875em}ul.fas{list-style-type:none;margin-left:2em;text-indent:-0.8em}ul.fas li .fa{width:.8em}ul.fas li .fa-large:before,ul.fas li .fa-large:before{vertical-align:baseline}.fa-book:before{content:""}.icon-book:before{content:""}.fa-caret-down:before{content:""}.icon-caret-down:before{content:""}.fa-caret-up:before{content:""}.icon-caret-up:before{content:""}.fa-caret-left:before{content:""}.icon-caret-left:before{content:""}.fa-caret-right:before{content:""}.icon-caret-right:before{content:""}.rst-versions{position:fixed;bottom:0;left:0;width:300px;color:#fcfcfc;background:#1f1d1d;font-family:"Lato","proxima-nova","Helvetica Neue",Arial,sans-serif;z-index:400}.rst-versions a{color:#2980B9;text-decoration:none}.rst-versions .rst-badge-small{display:none}.rst-versions .rst-current-version{padding:12px;background-color:#272525;display:block;text-align:right;font-size:90%;cursor:pointer;color:#27AE60;*zoom:1}.rst-versions .rst-current-version:before,.rst-versions .rst-current-version:after{display:table;content:""}.rst-versions .rst-current-version:after{clear:both}.rst-versions .rst-current-version .fa{color:#fcfcfc}.rst-versions .rst-current-version .fa-book{float:left}.rst-versions .rst-current-version .icon-book{float:left}.rst-versions .rst-current-version.rst-out-of-date{background-color:#E74C3C;color:#fff}.rst-versions .rst-current-version.rst-active-old-version{background-color:#F1C40F;color:#000}.rst-versions.shift-up{height:auto;max-height:100%}.rst-versions.shift-up .rst-other-versions{display:block}.rst-versions .rst-other-versions{font-size:90%;padding:12px;color:gray;display:none}.rst-versions .rst-other-versions hr{display:block;height:1px;border:0;margin:20px 0;padding:0;border-top:solid 1px #413d3d}.rst-versions .rst-other-versions dd{display:inline-block;margin:0}.rst-versions .rst-other-versions dd a{display:inline-block;padding:6px;color:#fcfcfc}.rst-versions.rst-badge{width:auto;bottom:20px;right:20px;left:auto;border:none;max-width:300px}.rst-versions.rst-badge .icon-book{float:none}.rst-versions.rst-badge .fa-book{float:none}.rst-versions.rst-badge.shift-up .rst-current-version{text-align:right}.rst-versions.rst-badge.shift-up .rst-current-version .fa-book{float:left}.rst-versions.rst-badge.shift-up .rst-current-version .icon-book{float:left}.rst-versions.rst-badge .rst-current-version{width:auto;height:30px;line-height:30px;padding:0 6px;display:block;text-align:center}@media screen and (max-width: 768px){.rst-versions{width:85%;display:none}.rst-versions.shift{display:block}}
|
||||
|
||||
File diff suppressed because one or more lines are too long
@ -1,149 +1,313 @@
|
||||
/*
|
||||
* Base JavaScript utilities for all Sphinx HTML documentation.
|
||||
* doctools.js
|
||||
* ~~~~~~~~~~~
|
||||
*
|
||||
* Sphinx JavaScript utilities for all documentation.
|
||||
*
|
||||
* :copyright: Copyright 2007-2018 by the Sphinx team, see AUTHORS.
|
||||
* :license: BSD, see LICENSE for details.
|
||||
*
|
||||
*/
|
||||
"use strict";
|
||||
|
||||
const BLACKLISTED_KEY_CONTROL_ELEMENTS = new Set([
|
||||
"TEXTAREA",
|
||||
"INPUT",
|
||||
"SELECT",
|
||||
"BUTTON",
|
||||
]);
|
||||
/**
|
||||
* select a different prefix for underscore
|
||||
*/
|
||||
$u = _.noConflict();
|
||||
|
||||
const _ready = (callback) => {
|
||||
if (document.readyState !== "loading") {
|
||||
callback();
|
||||
} else {
|
||||
document.addEventListener("DOMContentLoaded", callback);
|
||||
}
|
||||
/**
|
||||
* make the code below compatible with browsers without
|
||||
* an installed firebug like debugger
|
||||
if (!window.console || !console.firebug) {
|
||||
var names = ["log", "debug", "info", "warn", "error", "assert", "dir",
|
||||
"dirxml", "group", "groupEnd", "time", "timeEnd", "count", "trace",
|
||||
"profile", "profileEnd"];
|
||||
window.console = {};
|
||||
for (var i = 0; i < names.length; ++i)
|
||||
window.console[names[i]] = function() {};
|
||||
}
|
||||
*/
|
||||
|
||||
/**
|
||||
* small helper function to urldecode strings
|
||||
*/
|
||||
jQuery.urldecode = function(x) {
|
||||
return decodeURIComponent(x).replace(/\+/g, ' ');
|
||||
};
|
||||
|
||||
/**
|
||||
* small helper function to urlencode strings
|
||||
*/
|
||||
jQuery.urlencode = encodeURIComponent;
|
||||
|
||||
/**
|
||||
* This function returns the parsed url parameters of the
|
||||
* current request. Multiple values per key are supported,
|
||||
* it will always return arrays of strings for the value parts.
|
||||
*/
|
||||
jQuery.getQueryParameters = function(s) {
|
||||
if (typeof s === 'undefined')
|
||||
s = document.location.search;
|
||||
var parts = s.substr(s.indexOf('?') + 1).split('&');
|
||||
var result = {};
|
||||
for (var i = 0; i < parts.length; i++) {
|
||||
var tmp = parts[i].split('=', 2);
|
||||
var key = jQuery.urldecode(tmp[0]);
|
||||
var value = jQuery.urldecode(tmp[1]);
|
||||
if (key in result)
|
||||
result[key].push(value);
|
||||
else
|
||||
result[key] = [value];
|
||||
}
|
||||
return result;
|
||||
};
|
||||
|
||||
/**
|
||||
* highlight a given string on a jquery object by wrapping it in
|
||||
* span elements with the given class name.
|
||||
*/
|
||||
jQuery.fn.highlightText = function(text, className) {
|
||||
function highlight(node, addItems) {
|
||||
if (node.nodeType === 3) {
|
||||
var val = node.nodeValue;
|
||||
var pos = val.toLowerCase().indexOf(text);
|
||||
if (pos >= 0 &&
|
||||
!jQuery(node.parentNode).hasClass(className) &&
|
||||
!jQuery(node.parentNode).hasClass("nohighlight")) {
|
||||
var span;
|
||||
var isInSVG = jQuery(node).closest("body, svg, foreignObject").is("svg");
|
||||
if (isInSVG) {
|
||||
span = document.createElementNS("http://www.w3.org/2000/svg", "tspan");
|
||||
} else {
|
||||
span = document.createElement("span");
|
||||
span.className = className;
|
||||
}
|
||||
span.appendChild(document.createTextNode(val.substr(pos, text.length)));
|
||||
node.parentNode.insertBefore(span, node.parentNode.insertBefore(
|
||||
document.createTextNode(val.substr(pos + text.length)),
|
||||
node.nextSibling));
|
||||
node.nodeValue = val.substr(0, pos);
|
||||
if (isInSVG) {
|
||||
var bbox = span.getBBox();
|
||||
var rect = document.createElementNS("http://www.w3.org/2000/svg", "rect");
|
||||
rect.x.baseVal.value = bbox.x;
|
||||
rect.y.baseVal.value = bbox.y;
|
||||
rect.width.baseVal.value = bbox.width;
|
||||
rect.height.baseVal.value = bbox.height;
|
||||
rect.setAttribute('class', className);
|
||||
var parentOfText = node.parentNode.parentNode;
|
||||
addItems.push({
|
||||
"parent": node.parentNode,
|
||||
"target": rect});
|
||||
}
|
||||
}
|
||||
}
|
||||
else if (!jQuery(node).is("button, select, textarea")) {
|
||||
jQuery.each(node.childNodes, function() {
|
||||
highlight(this, addItems);
|
||||
});
|
||||
}
|
||||
}
|
||||
var addItems = [];
|
||||
var result = this.each(function() {
|
||||
highlight(this, addItems);
|
||||
});
|
||||
for (var i = 0; i < addItems.length; ++i) {
|
||||
jQuery(addItems[i].parent).before(addItems[i].target);
|
||||
}
|
||||
return result;
|
||||
};
|
||||
|
||||
/*
|
||||
* backward compatibility for jQuery.browser
|
||||
* This will be supported until firefox bug is fixed.
|
||||
*/
|
||||
if (!jQuery.browser) {
|
||||
jQuery.uaMatch = function(ua) {
|
||||
ua = ua.toLowerCase();
|
||||
|
||||
var match = /(chrome)[ \/]([\w.]+)/.exec(ua) ||
|
||||
/(webkit)[ \/]([\w.]+)/.exec(ua) ||
|
||||
/(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) ||
|
||||
/(msie) ([\w.]+)/.exec(ua) ||
|
||||
ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) ||
|
||||
[];
|
||||
|
||||
return {
|
||||
browser: match[ 1 ] || "",
|
||||
version: match[ 2 ] || "0"
|
||||
};
|
||||
};
|
||||
jQuery.browser = {};
|
||||
jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true;
|
||||
}
|
||||
|
||||
/**
|
||||
* Small JavaScript module for the documentation.
|
||||
*/
|
||||
const Documentation = {
|
||||
init: () => {
|
||||
Documentation.initDomainIndexTable();
|
||||
Documentation.initOnKeyListeners();
|
||||
var Documentation = {
|
||||
|
||||
init : function() {
|
||||
this.fixFirefoxAnchorBug();
|
||||
this.highlightSearchWords();
|
||||
this.initIndexTable();
|
||||
|
||||
},
|
||||
|
||||
/**
|
||||
* i18n support
|
||||
*/
|
||||
TRANSLATIONS: {},
|
||||
PLURAL_EXPR: (n) => (n === 1 ? 0 : 1),
|
||||
LOCALE: "unknown",
|
||||
TRANSLATIONS : {},
|
||||
PLURAL_EXPR : function(n) { return n === 1 ? 0 : 1; },
|
||||
LOCALE : 'unknown',
|
||||
|
||||
// gettext and ngettext don't access this so that the functions
|
||||
// can safely bound to a different name (_ = Documentation.gettext)
|
||||
gettext: (string) => {
|
||||
const translated = Documentation.TRANSLATIONS[string];
|
||||
switch (typeof translated) {
|
||||
case "undefined":
|
||||
return string; // no translation
|
||||
case "string":
|
||||
return translated; // translation exists
|
||||
default:
|
||||
return translated[0]; // (singular, plural) translation tuple exists
|
||||
gettext : function(string) {
|
||||
var translated = Documentation.TRANSLATIONS[string];
|
||||
if (typeof translated === 'undefined')
|
||||
return string;
|
||||
return (typeof translated === 'string') ? translated : translated[0];
|
||||
},
|
||||
|
||||
ngettext : function(singular, plural, n) {
|
||||
var translated = Documentation.TRANSLATIONS[singular];
|
||||
if (typeof translated === 'undefined')
|
||||
return (n == 1) ? singular : plural;
|
||||
return translated[Documentation.PLURALEXPR(n)];
|
||||
},
|
||||
|
||||
addTranslations : function(catalog) {
|
||||
for (var key in catalog.messages)
|
||||
this.TRANSLATIONS[key] = catalog.messages[key];
|
||||
this.PLURAL_EXPR = new Function('n', 'return +(' + catalog.plural_expr + ')');
|
||||
this.LOCALE = catalog.locale;
|
||||
},
|
||||
|
||||
/**
|
||||
* add context elements like header anchor links
|
||||
*/
|
||||
addContextElements : function() {
|
||||
$('div[id] > :header:first').each(function() {
|
||||
$('<a class="headerlink">\u00B6</a>').
|
||||
attr('href', '#' + this.id).
|
||||
attr('title', _('Permalink to this headline')).
|
||||
appendTo(this);
|
||||
});
|
||||
$('dt[id]').each(function() {
|
||||
$('<a class="headerlink">\u00B6</a>').
|
||||
attr('href', '#' + this.id).
|
||||
attr('title', _('Permalink to this definition')).
|
||||
appendTo(this);
|
||||
});
|
||||
},
|
||||
|
||||
/**
|
||||
* workaround a firefox stupidity
|
||||
* see: https://bugzilla.mozilla.org/show_bug.cgi?id=645075
|
||||
*/
|
||||
fixFirefoxAnchorBug : function() {
|
||||
if (document.location.hash && $.browser.mozilla)
|
||||
window.setTimeout(function() {
|
||||
document.location.href += '';
|
||||
}, 10);
|
||||
},
|
||||
|
||||
/**
|
||||
* highlight the search words provided in the url in the text
|
||||
*/
|
||||
highlightSearchWords : function() {
|
||||
var params = $.getQueryParameters();
|
||||
var terms = (params.highlight) ? params.highlight[0].split(/\s+/) : [];
|
||||
if (terms.length) {
|
||||
var body = $('div.body');
|
||||
if (!body.length) {
|
||||
body = $('body');
|
||||
}
|
||||
window.setTimeout(function() {
|
||||
$.each(terms, function() {
|
||||
body.highlightText(this.toLowerCase(), 'highlighted');
|
||||
});
|
||||
}, 10);
|
||||
$('<p class="highlight-link"><a href="javascript:Documentation.' +
|
||||
'hideSearchWords()">' + _('Hide Search Matches') + '</a></p>')
|
||||
.appendTo($('#searchbox'));
|
||||
}
|
||||
},
|
||||
|
||||
ngettext: (singular, plural, n) => {
|
||||
const translated = Documentation.TRANSLATIONS[singular];
|
||||
if (typeof translated !== "undefined")
|
||||
return translated[Documentation.PLURAL_EXPR(n)];
|
||||
return n === 1 ? singular : plural;
|
||||
},
|
||||
|
||||
addTranslations: (catalog) => {
|
||||
Object.assign(Documentation.TRANSLATIONS, catalog.messages);
|
||||
Documentation.PLURAL_EXPR = new Function(
|
||||
"n",
|
||||
`return (${catalog.plural_expr})`
|
||||
);
|
||||
Documentation.LOCALE = catalog.locale;
|
||||
/**
|
||||
* init the domain index toggle buttons
|
||||
*/
|
||||
initIndexTable : function() {
|
||||
var togglers = $('img.toggler').click(function() {
|
||||
var src = $(this).attr('src');
|
||||
var idnum = $(this).attr('id').substr(7);
|
||||
$('tr.cg-' + idnum).toggle();
|
||||
if (src.substr(-9) === 'minus.png')
|
||||
$(this).attr('src', src.substr(0, src.length-9) + 'plus.png');
|
||||
else
|
||||
$(this).attr('src', src.substr(0, src.length-8) + 'minus.png');
|
||||
}).css('display', '');
|
||||
if (DOCUMENTATION_OPTIONS.COLLAPSE_INDEX) {
|
||||
togglers.click();
|
||||
}
|
||||
},
|
||||
|
||||
/**
|
||||
* helper function to focus on search bar
|
||||
* helper function to hide the search marks again
|
||||
*/
|
||||
focusSearchBar: () => {
|
||||
document.querySelectorAll("input[name=q]")[0]?.focus();
|
||||
hideSearchWords : function() {
|
||||
$('#searchbox .highlight-link').fadeOut(300);
|
||||
$('span.highlighted').removeClass('highlighted');
|
||||
},
|
||||
|
||||
/**
|
||||
* Initialise the domain index toggle buttons
|
||||
* make the url absolute
|
||||
*/
|
||||
initDomainIndexTable: () => {
|
||||
const toggler = (el) => {
|
||||
const idNumber = el.id.substr(7);
|
||||
const toggledRows = document.querySelectorAll(`tr.cg-${idNumber}`);
|
||||
if (el.src.substr(-9) === "minus.png") {
|
||||
el.src = `${el.src.substr(0, el.src.length - 9)}plus.png`;
|
||||
toggledRows.forEach((el) => (el.style.display = "none"));
|
||||
} else {
|
||||
el.src = `${el.src.substr(0, el.src.length - 8)}minus.png`;
|
||||
toggledRows.forEach((el) => (el.style.display = ""));
|
||||
}
|
||||
};
|
||||
|
||||
const togglerElements = document.querySelectorAll("img.toggler");
|
||||
togglerElements.forEach((el) =>
|
||||
el.addEventListener("click", (event) => toggler(event.currentTarget))
|
||||
);
|
||||
togglerElements.forEach((el) => (el.style.display = ""));
|
||||
if (DOCUMENTATION_OPTIONS.COLLAPSE_INDEX) togglerElements.forEach(toggler);
|
||||
makeURL : function(relativeURL) {
|
||||
return DOCUMENTATION_OPTIONS.URL_ROOT + '/' + relativeURL;
|
||||
},
|
||||
|
||||
initOnKeyListeners: () => {
|
||||
// only install a listener if it is really needed
|
||||
if (
|
||||
!DOCUMENTATION_OPTIONS.NAVIGATION_WITH_KEYS &&
|
||||
!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS
|
||||
)
|
||||
return;
|
||||
/**
|
||||
* get the current relative url
|
||||
*/
|
||||
getCurrentURL : function() {
|
||||
var path = document.location.pathname;
|
||||
var parts = path.split(/\//);
|
||||
$.each(DOCUMENTATION_OPTIONS.URL_ROOT.split(/\//), function() {
|
||||
if (this === '..')
|
||||
parts.pop();
|
||||
});
|
||||
var url = parts.join('/');
|
||||
return path.substring(url.lastIndexOf('/') + 1, path.length - 1);
|
||||
},
|
||||
|
||||
document.addEventListener("keydown", (event) => {
|
||||
// bail for input elements
|
||||
if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return;
|
||||
// bail with special keys
|
||||
if (event.altKey || event.ctrlKey || event.metaKey) return;
|
||||
|
||||
if (!event.shiftKey) {
|
||||
switch (event.key) {
|
||||
case "ArrowLeft":
|
||||
if (!DOCUMENTATION_OPTIONS.NAVIGATION_WITH_KEYS) break;
|
||||
|
||||
const prevLink = document.querySelector('link[rel="prev"]');
|
||||
if (prevLink && prevLink.href) {
|
||||
window.location.href = prevLink.href;
|
||||
event.preventDefault();
|
||||
initOnKeyListeners: function() {
|
||||
$(document).keyup(function(event) {
|
||||
var activeElementType = document.activeElement.tagName;
|
||||
// don't navigate when in search box or textarea
|
||||
if (activeElementType !== 'TEXTAREA' && activeElementType !== 'INPUT' && activeElementType !== 'SELECT') {
|
||||
switch (event.keyCode) {
|
||||
case 37: // left
|
||||
var prevHref = $('link[rel="prev"]').prop('href');
|
||||
if (prevHref) {
|
||||
window.location.href = prevHref;
|
||||
return false;
|
||||
}
|
||||
break;
|
||||
case "ArrowRight":
|
||||
if (!DOCUMENTATION_OPTIONS.NAVIGATION_WITH_KEYS) break;
|
||||
|
||||
const nextLink = document.querySelector('link[rel="next"]');
|
||||
if (nextLink && nextLink.href) {
|
||||
window.location.href = nextLink.href;
|
||||
event.preventDefault();
|
||||
case 39: // right
|
||||
var nextHref = $('link[rel="next"]').prop('href');
|
||||
if (nextHref) {
|
||||
window.location.href = nextHref;
|
||||
return false;
|
||||
}
|
||||
break;
|
||||
}
|
||||
}
|
||||
|
||||
// some keyboard layouts may need Shift to get /
|
||||
switch (event.key) {
|
||||
case "/":
|
||||
if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) break;
|
||||
Documentation.focusSearchBar();
|
||||
event.preventDefault();
|
||||
}
|
||||
});
|
||||
},
|
||||
}
|
||||
};
|
||||
|
||||
// quick alias for translations
|
||||
const _ = Documentation.gettext;
|
||||
_ = Documentation.gettext;
|
||||
|
||||
_ready(Documentation.init);
|
||||
$(document).ready(function() {
|
||||
Documentation.init();
|
||||
});
|
||||
@ -1,13 +1,9 @@
|
||||
const DOCUMENTATION_OPTIONS = {
|
||||
VERSION: '1.9.9',
|
||||
LANGUAGE: 'en',
|
||||
var DOCUMENTATION_OPTIONS = {
|
||||
URL_ROOT: document.getElementById("documentation_options").getAttribute('data-url_root'),
|
||||
VERSION: '1.9.5',
|
||||
LANGUAGE: 'None',
|
||||
COLLAPSE_INDEX: false,
|
||||
BUILDER: 'html',
|
||||
FILE_SUFFIX: '.html',
|
||||
LINK_SUFFIX: '.html',
|
||||
HAS_SOURCE: true,
|
||||
SOURCELINK_SUFFIX: '.txt',
|
||||
NAVIGATION_WITH_KEYS: false,
|
||||
SHOW_SEARCH_SUMMARY: true,
|
||||
ENABLE_SEARCH_SHORTCUTS: true,
|
||||
SOURCELINK_SUFFIX: '.txt'
|
||||
};
|
||||
BIN
doc/html/_static/down-pressed.png
Normal file
BIN
doc/html/_static/down-pressed.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 222 B |
BIN
doc/html/_static/down.png
Normal file
BIN
doc/html/_static/down.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 202 B |
BIN
doc/html/_static/fonts/Inconsolata-Bold.ttf
Normal file
BIN
doc/html/_static/fonts/Inconsolata-Bold.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/Inconsolata-Regular.ttf
Normal file
BIN
doc/html/_static/fonts/Inconsolata-Regular.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/Lato-Bold.ttf
Normal file
BIN
doc/html/_static/fonts/Lato-Bold.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/Lato-BoldItalic.ttf
Normal file
BIN
doc/html/_static/fonts/Lato-BoldItalic.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/Lato-Italic.ttf
Normal file
BIN
doc/html/_static/fonts/Lato-Italic.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/Lato-Regular.ttf
Normal file
BIN
doc/html/_static/fonts/Lato-Regular.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/RobotoSlab-Bold.ttf
Normal file
BIN
doc/html/_static/fonts/RobotoSlab-Bold.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/RobotoSlab-Regular.ttf
Normal file
BIN
doc/html/_static/fonts/RobotoSlab-Regular.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/fontawesome-webfont.eot
Normal file
BIN
doc/html/_static/fonts/fontawesome-webfont.eot
Normal file
Binary file not shown.
2671
doc/html/_static/fonts/fontawesome-webfont.svg
Normal file
2671
doc/html/_static/fonts/fontawesome-webfont.svg
Normal file
File diff suppressed because it is too large
Load Diff
|
After Width: | Height: | Size: 434 KiB |
BIN
doc/html/_static/fonts/fontawesome-webfont.ttf
Normal file
BIN
doc/html/_static/fonts/fontawesome-webfont.ttf
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/fontawesome-webfont.woff
Normal file
BIN
doc/html/_static/fonts/fontawesome-webfont.woff
Normal file
Binary file not shown.
BIN
doc/html/_static/fonts/fontawesome-webfont.woff2
Normal file
BIN
doc/html/_static/fonts/fontawesome-webfont.woff2
Normal file
Binary file not shown.
10253
doc/html/_static/jquery-3.2.1.js
vendored
Normal file
10253
doc/html/_static/jquery-3.2.1.js
vendored
Normal file
File diff suppressed because it is too large
Load Diff
6
doc/html/_static/jquery.js
vendored
6
doc/html/_static/jquery.js
vendored
File diff suppressed because one or more lines are too long
@ -1 +0,0 @@
|
||||
!function(e){var t={};function r(n){if(t[n])return t[n].exports;var o=t[n]={i:n,l:!1,exports:{}};return e[n].call(o.exports,o,o.exports,r),o.l=!0,o.exports}r.m=e,r.c=t,r.d=function(e,t,n){r.o(e,t)||Object.defineProperty(e,t,{enumerable:!0,get:n})},r.r=function(e){"undefined"!=typeof Symbol&&Symbol.toStringTag&&Object.defineProperty(e,Symbol.toStringTag,{value:"Module"}),Object.defineProperty(e,"__esModule",{value:!0})},r.t=function(e,t){if(1&t&&(e=r(e)),8&t)return e;if(4&t&&"object"==typeof e&&e&&e.__esModule)return e;var n=Object.create(null);if(r.r(n),Object.defineProperty(n,"default",{enumerable:!0,value:e}),2&t&&"string"!=typeof e)for(var o in e)r.d(n,o,function(t){return e[t]}.bind(null,o));return n},r.n=function(e){var t=e&&e.__esModule?function(){return e.default}:function(){return e};return r.d(t,"a",t),t},r.o=function(e,t){return Object.prototype.hasOwnProperty.call(e,t)},r.p="",r(r.s=4)}({4:function(e,t,r){}});
|
||||
4
doc/html/_static/js/modernizr.min.js
vendored
Normal file
4
doc/html/_static/js/modernizr.min.js
vendored
Normal file
File diff suppressed because one or more lines are too long
File diff suppressed because one or more lines are too long
@ -1,228 +0,0 @@
|
||||
const themeFlyoutDisplay = "hidden";
|
||||
const themeVersionSelector = true;
|
||||
const themeLanguageSelector = true;
|
||||
|
||||
if (themeFlyoutDisplay === "attached") {
|
||||
function renderLanguages(config) {
|
||||
if (!config.projects.translations.length) {
|
||||
return "";
|
||||
}
|
||||
|
||||
// Insert the current language to the options on the selector
|
||||
let languages = config.projects.translations.concat(config.projects.current);
|
||||
languages = languages.sort((a, b) => a.language.name.localeCompare(b.language.name));
|
||||
|
||||
const languagesHTML = `
|
||||
<dl>
|
||||
<dt>Languages</dt>
|
||||
${languages
|
||||
.map(
|
||||
(translation) => `
|
||||
<dd ${translation.slug == config.projects.current.slug ? 'class="rtd-current-item"' : ""}>
|
||||
<a href="${translation.urls.documentation}">${translation.language.code}</a>
|
||||
</dd>
|
||||
`,
|
||||
)
|
||||
.join("\n")}
|
||||
</dl>
|
||||
`;
|
||||
return languagesHTML;
|
||||
}
|
||||
|
||||
function renderVersions(config) {
|
||||
if (!config.versions.active.length) {
|
||||
return "";
|
||||
}
|
||||
const versionsHTML = `
|
||||
<dl>
|
||||
<dt>Versions</dt>
|
||||
${config.versions.active
|
||||
.map(
|
||||
(version) => `
|
||||
<dd ${version.slug === config.versions.current.slug ? 'class="rtd-current-item"' : ""}>
|
||||
<a href="${version.urls.documentation}">${version.slug}</a>
|
||||
</dd>
|
||||
`,
|
||||
)
|
||||
.join("\n")}
|
||||
</dl>
|
||||
`;
|
||||
return versionsHTML;
|
||||
}
|
||||
|
||||
function renderDownloads(config) {
|
||||
if (!Object.keys(config.versions.current.downloads).length) {
|
||||
return "";
|
||||
}
|
||||
const downloadsNameDisplay = {
|
||||
pdf: "PDF",
|
||||
epub: "Epub",
|
||||
htmlzip: "HTML",
|
||||
};
|
||||
|
||||
const downloadsHTML = `
|
||||
<dl>
|
||||
<dt>Downloads</dt>
|
||||
${Object.entries(config.versions.current.downloads)
|
||||
.map(
|
||||
([name, url]) => `
|
||||
<dd>
|
||||
<a href="${url}">${downloadsNameDisplay[name]}</a>
|
||||
</dd>
|
||||
`,
|
||||
)
|
||||
.join("\n")}
|
||||
</dl>
|
||||
`;
|
||||
return downloadsHTML;
|
||||
}
|
||||
|
||||
document.addEventListener("readthedocs-addons-data-ready", function (event) {
|
||||
const config = event.detail.data();
|
||||
|
||||
const flyout = `
|
||||
<div class="rst-versions" data-toggle="rst-versions" role="note">
|
||||
<span class="rst-current-version" data-toggle="rst-current-version">
|
||||
<span class="fa fa-book"> Read the Docs</span>
|
||||
v: ${config.versions.current.slug}
|
||||
<span class="fa fa-caret-down"></span>
|
||||
</span>
|
||||
<div class="rst-other-versions">
|
||||
<div class="injected">
|
||||
${renderLanguages(config)}
|
||||
${renderVersions(config)}
|
||||
${renderDownloads(config)}
|
||||
<dl>
|
||||
<dt>On Read the Docs</dt>
|
||||
<dd>
|
||||
<a href="${config.projects.current.urls.home}">Project Home</a>
|
||||
</dd>
|
||||
<dd>
|
||||
<a href="${config.projects.current.urls.builds}">Builds</a>
|
||||
</dd>
|
||||
<dd>
|
||||
<a href="${config.projects.current.urls.downloads}">Downloads</a>
|
||||
</dd>
|
||||
</dl>
|
||||
<dl>
|
||||
<dt>Search</dt>
|
||||
<dd>
|
||||
<form id="flyout-search-form">
|
||||
<input
|
||||
class="wy-form"
|
||||
type="text"
|
||||
name="q"
|
||||
aria-label="Search docs"
|
||||
placeholder="Search docs"
|
||||
/>
|
||||
</form>
|
||||
</dd>
|
||||
</dl>
|
||||
<hr />
|
||||
<small>
|
||||
<span>Hosted by <a href="https://about.readthedocs.org/?utm_source=&utm_content=flyout">Read the Docs</a></span>
|
||||
</small>
|
||||
</div>
|
||||
</div>
|
||||
`;
|
||||
|
||||
// Inject the generated flyout into the body HTML element.
|
||||
document.body.insertAdjacentHTML("beforeend", flyout);
|
||||
|
||||
// Trigger the Read the Docs Addons Search modal when clicking on the "Search docs" input from inside the flyout.
|
||||
document
|
||||
.querySelector("#flyout-search-form")
|
||||
.addEventListener("focusin", () => {
|
||||
const event = new CustomEvent("readthedocs-search-show");
|
||||
document.dispatchEvent(event);
|
||||
});
|
||||
})
|
||||
}
|
||||
|
||||
if (themeLanguageSelector || themeVersionSelector) {
|
||||
function onSelectorSwitch(event) {
|
||||
const option = event.target.selectedIndex;
|
||||
const item = event.target.options[option];
|
||||
window.location.href = item.dataset.url;
|
||||
}
|
||||
|
||||
document.addEventListener("readthedocs-addons-data-ready", function (event) {
|
||||
const config = event.detail.data();
|
||||
|
||||
const versionSwitch = document.querySelector(
|
||||
"div.switch-menus > div.version-switch",
|
||||
);
|
||||
if (themeVersionSelector) {
|
||||
let versions = config.versions.active;
|
||||
if (config.versions.current.hidden || config.versions.current.type === "external") {
|
||||
versions.unshift(config.versions.current);
|
||||
}
|
||||
const versionSelect = `
|
||||
<select>
|
||||
${versions
|
||||
.map(
|
||||
(version) => `
|
||||
<option
|
||||
value="${version.slug}"
|
||||
${config.versions.current.slug === version.slug ? 'selected="selected"' : ""}
|
||||
data-url="${version.urls.documentation}">
|
||||
${version.slug}
|
||||
</option>`,
|
||||
)
|
||||
.join("\n")}
|
||||
</select>
|
||||
`;
|
||||
|
||||
versionSwitch.innerHTML = versionSelect;
|
||||
versionSwitch.firstElementChild.addEventListener("change", onSelectorSwitch);
|
||||
}
|
||||
|
||||
const languageSwitch = document.querySelector(
|
||||
"div.switch-menus > div.language-switch",
|
||||
);
|
||||
|
||||
if (themeLanguageSelector) {
|
||||
if (config.projects.translations.length) {
|
||||
// Add the current language to the options on the selector
|
||||
let languages = config.projects.translations.concat(
|
||||
config.projects.current,
|
||||
);
|
||||
languages = languages.sort((a, b) =>
|
||||
a.language.name.localeCompare(b.language.name),
|
||||
);
|
||||
|
||||
const languageSelect = `
|
||||
<select>
|
||||
${languages
|
||||
.map(
|
||||
(language) => `
|
||||
<option
|
||||
value="${language.language.code}"
|
||||
${config.projects.current.slug === language.slug ? 'selected="selected"' : ""}
|
||||
data-url="${language.urls.documentation}">
|
||||
${language.language.name}
|
||||
</option>`,
|
||||
)
|
||||
.join("\n")}
|
||||
</select>
|
||||
`;
|
||||
|
||||
languageSwitch.innerHTML = languageSelect;
|
||||
languageSwitch.firstElementChild.addEventListener("change", onSelectorSwitch);
|
||||
}
|
||||
else {
|
||||
languageSwitch.remove();
|
||||
}
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
document.addEventListener("readthedocs-addons-data-ready", function (event) {
|
||||
// Trigger the Read the Docs Addons Search modal when clicking on "Search docs" input from the topnav.
|
||||
document
|
||||
.querySelector("[role='search'] input")
|
||||
.addEventListener("focusin", () => {
|
||||
const event = new CustomEvent("readthedocs-search-show");
|
||||
document.dispatchEvent(event);
|
||||
});
|
||||
});
|
||||
@ -1,192 +0,0 @@
|
||||
/*
|
||||
* This script contains the language-specific data used by searchtools.js,
|
||||
* namely the list of stopwords, stemmer, scorer and splitter.
|
||||
*/
|
||||
|
||||
var stopwords = ["a", "and", "are", "as", "at", "be", "but", "by", "for", "if", "in", "into", "is", "it", "near", "no", "not", "of", "on", "or", "such", "that", "the", "their", "then", "there", "these", "they", "this", "to", "was", "will", "with"];
|
||||
|
||||
|
||||
/* Non-minified version is copied as a separate JS file, if available */
|
||||
|
||||
/**
|
||||
* Porter Stemmer
|
||||
*/
|
||||
var Stemmer = function() {
|
||||
|
||||
var step2list = {
|
||||
ational: 'ate',
|
||||
tional: 'tion',
|
||||
enci: 'ence',
|
||||
anci: 'ance',
|
||||
izer: 'ize',
|
||||
bli: 'ble',
|
||||
alli: 'al',
|
||||
entli: 'ent',
|
||||
eli: 'e',
|
||||
ousli: 'ous',
|
||||
ization: 'ize',
|
||||
ation: 'ate',
|
||||
ator: 'ate',
|
||||
alism: 'al',
|
||||
iveness: 'ive',
|
||||
fulness: 'ful',
|
||||
ousness: 'ous',
|
||||
aliti: 'al',
|
||||
iviti: 'ive',
|
||||
biliti: 'ble',
|
||||
logi: 'log'
|
||||
};
|
||||
|
||||
var step3list = {
|
||||
icate: 'ic',
|
||||
ative: '',
|
||||
alize: 'al',
|
||||
iciti: 'ic',
|
||||
ical: 'ic',
|
||||
ful: '',
|
||||
ness: ''
|
||||
};
|
||||
|
||||
var c = "[^aeiou]"; // consonant
|
||||
var v = "[aeiouy]"; // vowel
|
||||
var C = c + "[^aeiouy]*"; // consonant sequence
|
||||
var V = v + "[aeiou]*"; // vowel sequence
|
||||
|
||||
var mgr0 = "^(" + C + ")?" + V + C; // [C]VC... is m>0
|
||||
var meq1 = "^(" + C + ")?" + V + C + "(" + V + ")?$"; // [C]VC[V] is m=1
|
||||
var mgr1 = "^(" + C + ")?" + V + C + V + C; // [C]VCVC... is m>1
|
||||
var s_v = "^(" + C + ")?" + v; // vowel in stem
|
||||
|
||||
this.stemWord = function (w) {
|
||||
var stem;
|
||||
var suffix;
|
||||
var firstch;
|
||||
var origword = w;
|
||||
|
||||
if (w.length < 3)
|
||||
return w;
|
||||
|
||||
var re;
|
||||
var re2;
|
||||
var re3;
|
||||
var re4;
|
||||
|
||||
firstch = w.substr(0,1);
|
||||
if (firstch == "y")
|
||||
w = firstch.toUpperCase() + w.substr(1);
|
||||
|
||||
// Step 1a
|
||||
re = /^(.+?)(ss|i)es$/;
|
||||
re2 = /^(.+?)([^s])s$/;
|
||||
|
||||
if (re.test(w))
|
||||
w = w.replace(re,"$1$2");
|
||||
else if (re2.test(w))
|
||||
w = w.replace(re2,"$1$2");
|
||||
|
||||
// Step 1b
|
||||
re = /^(.+?)eed$/;
|
||||
re2 = /^(.+?)(ed|ing)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
re = new RegExp(mgr0);
|
||||
if (re.test(fp[1])) {
|
||||
re = /.$/;
|
||||
w = w.replace(re,"");
|
||||
}
|
||||
}
|
||||
else if (re2.test(w)) {
|
||||
var fp = re2.exec(w);
|
||||
stem = fp[1];
|
||||
re2 = new RegExp(s_v);
|
||||
if (re2.test(stem)) {
|
||||
w = stem;
|
||||
re2 = /(at|bl|iz)$/;
|
||||
re3 = new RegExp("([^aeiouylsz])\\1$");
|
||||
re4 = new RegExp("^" + C + v + "[^aeiouwxy]$");
|
||||
if (re2.test(w))
|
||||
w = w + "e";
|
||||
else if (re3.test(w)) {
|
||||
re = /.$/;
|
||||
w = w.replace(re,"");
|
||||
}
|
||||
else if (re4.test(w))
|
||||
w = w + "e";
|
||||
}
|
||||
}
|
||||
|
||||
// Step 1c
|
||||
re = /^(.+?)y$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
re = new RegExp(s_v);
|
||||
if (re.test(stem))
|
||||
w = stem + "i";
|
||||
}
|
||||
|
||||
// Step 2
|
||||
re = /^(.+?)(ational|tional|enci|anci|izer|bli|alli|entli|eli|ousli|ization|ation|ator|alism|iveness|fulness|ousness|aliti|iviti|biliti|logi)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
suffix = fp[2];
|
||||
re = new RegExp(mgr0);
|
||||
if (re.test(stem))
|
||||
w = stem + step2list[suffix];
|
||||
}
|
||||
|
||||
// Step 3
|
||||
re = /^(.+?)(icate|ative|alize|iciti|ical|ful|ness)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
suffix = fp[2];
|
||||
re = new RegExp(mgr0);
|
||||
if (re.test(stem))
|
||||
w = stem + step3list[suffix];
|
||||
}
|
||||
|
||||
// Step 4
|
||||
re = /^(.+?)(al|ance|ence|er|ic|able|ible|ant|ement|ment|ent|ou|ism|ate|iti|ous|ive|ize)$/;
|
||||
re2 = /^(.+?)(s|t)(ion)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
re = new RegExp(mgr1);
|
||||
if (re.test(stem))
|
||||
w = stem;
|
||||
}
|
||||
else if (re2.test(w)) {
|
||||
var fp = re2.exec(w);
|
||||
stem = fp[1] + fp[2];
|
||||
re2 = new RegExp(mgr1);
|
||||
if (re2.test(stem))
|
||||
w = stem;
|
||||
}
|
||||
|
||||
// Step 5
|
||||
re = /^(.+?)e$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
re = new RegExp(mgr1);
|
||||
re2 = new RegExp(meq1);
|
||||
re3 = new RegExp("^" + C + v + "[^aeiouwxy]$");
|
||||
if (re.test(stem) || (re2.test(stem) && !(re3.test(stem))))
|
||||
w = stem;
|
||||
}
|
||||
re = /ll$/;
|
||||
re2 = new RegExp(mgr1);
|
||||
if (re.test(w) && re2.test(w)) {
|
||||
re = /.$/;
|
||||
w = w.replace(re,"");
|
||||
}
|
||||
|
||||
// and turn initial Y back to y
|
||||
if (firstch == "y")
|
||||
w = firstch.toLowerCase() + w.substr(1);
|
||||
return w;
|
||||
}
|
||||
}
|
||||
|
||||
@ -1,10 +1,5 @@
|
||||
pre { line-height: 125%; }
|
||||
td.linenos .normal { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; }
|
||||
span.linenos { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; }
|
||||
td.linenos .special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; }
|
||||
span.linenos.special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; }
|
||||
.highlight .hll { background-color: #ffffcc }
|
||||
.highlight { background: #eeffcc; }
|
||||
.highlight { background: #eeffcc; }
|
||||
.highlight .c { color: #408090; font-style: italic } /* Comment */
|
||||
.highlight .err { border: 1px solid #FF0000 } /* Error */
|
||||
.highlight .k { color: #007020; font-weight: bold } /* Keyword */
|
||||
@ -17,7 +12,6 @@ span.linenos.special { color: #000000; background-color: #ffffc0; padding-left:
|
||||
.highlight .cs { color: #408090; background-color: #fff0f0 } /* Comment.Special */
|
||||
.highlight .gd { color: #A00000 } /* Generic.Deleted */
|
||||
.highlight .ge { font-style: italic } /* Generic.Emph */
|
||||
.highlight .ges { font-weight: bold; font-style: italic } /* Generic.EmphStrong */
|
||||
.highlight .gr { color: #FF0000 } /* Generic.Error */
|
||||
.highlight .gh { color: #000080; font-weight: bold } /* Generic.Heading */
|
||||
.highlight .gi { color: #00A000 } /* Generic.Inserted */
|
||||
|
||||
File diff suppressed because it is too large
Load Diff
@ -1,154 +0,0 @@
|
||||
/* Highlighting utilities for Sphinx HTML documentation. */
|
||||
"use strict";
|
||||
|
||||
const SPHINX_HIGHLIGHT_ENABLED = true
|
||||
|
||||
/**
|
||||
* highlight a given string on a node by wrapping it in
|
||||
* span elements with the given class name.
|
||||
*/
|
||||
const _highlight = (node, addItems, text, className) => {
|
||||
if (node.nodeType === Node.TEXT_NODE) {
|
||||
const val = node.nodeValue;
|
||||
const parent = node.parentNode;
|
||||
const pos = val.toLowerCase().indexOf(text);
|
||||
if (
|
||||
pos >= 0 &&
|
||||
!parent.classList.contains(className) &&
|
||||
!parent.classList.contains("nohighlight")
|
||||
) {
|
||||
let span;
|
||||
|
||||
const closestNode = parent.closest("body, svg, foreignObject");
|
||||
const isInSVG = closestNode && closestNode.matches("svg");
|
||||
if (isInSVG) {
|
||||
span = document.createElementNS("http://www.w3.org/2000/svg", "tspan");
|
||||
} else {
|
||||
span = document.createElement("span");
|
||||
span.classList.add(className);
|
||||
}
|
||||
|
||||
span.appendChild(document.createTextNode(val.substr(pos, text.length)));
|
||||
const rest = document.createTextNode(val.substr(pos + text.length));
|
||||
parent.insertBefore(
|
||||
span,
|
||||
parent.insertBefore(
|
||||
rest,
|
||||
node.nextSibling
|
||||
)
|
||||
);
|
||||
node.nodeValue = val.substr(0, pos);
|
||||
/* There may be more occurrences of search term in this node. So call this
|
||||
* function recursively on the remaining fragment.
|
||||
*/
|
||||
_highlight(rest, addItems, text, className);
|
||||
|
||||
if (isInSVG) {
|
||||
const rect = document.createElementNS(
|
||||
"http://www.w3.org/2000/svg",
|
||||
"rect"
|
||||
);
|
||||
const bbox = parent.getBBox();
|
||||
rect.x.baseVal.value = bbox.x;
|
||||
rect.y.baseVal.value = bbox.y;
|
||||
rect.width.baseVal.value = bbox.width;
|
||||
rect.height.baseVal.value = bbox.height;
|
||||
rect.setAttribute("class", className);
|
||||
addItems.push({ parent: parent, target: rect });
|
||||
}
|
||||
}
|
||||
} else if (node.matches && !node.matches("button, select, textarea")) {
|
||||
node.childNodes.forEach((el) => _highlight(el, addItems, text, className));
|
||||
}
|
||||
};
|
||||
const _highlightText = (thisNode, text, className) => {
|
||||
let addItems = [];
|
||||
_highlight(thisNode, addItems, text, className);
|
||||
addItems.forEach((obj) =>
|
||||
obj.parent.insertAdjacentElement("beforebegin", obj.target)
|
||||
);
|
||||
};
|
||||
|
||||
/**
|
||||
* Small JavaScript module for the documentation.
|
||||
*/
|
||||
const SphinxHighlight = {
|
||||
|
||||
/**
|
||||
* highlight the search words provided in localstorage in the text
|
||||
*/
|
||||
highlightSearchWords: () => {
|
||||
if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight
|
||||
|
||||
// get and clear terms from localstorage
|
||||
const url = new URL(window.location);
|
||||
const highlight =
|
||||
localStorage.getItem("sphinx_highlight_terms")
|
||||
|| url.searchParams.get("highlight")
|
||||
|| "";
|
||||
localStorage.removeItem("sphinx_highlight_terms")
|
||||
url.searchParams.delete("highlight");
|
||||
window.history.replaceState({}, "", url);
|
||||
|
||||
// get individual terms from highlight string
|
||||
const terms = highlight.toLowerCase().split(/\s+/).filter(x => x);
|
||||
if (terms.length === 0) return; // nothing to do
|
||||
|
||||
// There should never be more than one element matching "div.body"
|
||||
const divBody = document.querySelectorAll("div.body");
|
||||
const body = divBody.length ? divBody[0] : document.querySelector("body");
|
||||
window.setTimeout(() => {
|
||||
terms.forEach((term) => _highlightText(body, term, "highlighted"));
|
||||
}, 10);
|
||||
|
||||
const searchBox = document.getElementById("searchbox");
|
||||
if (searchBox === null) return;
|
||||
searchBox.appendChild(
|
||||
document
|
||||
.createRange()
|
||||
.createContextualFragment(
|
||||
'<p class="highlight-link">' +
|
||||
'<a href="javascript:SphinxHighlight.hideSearchWords()">' +
|
||||
_("Hide Search Matches") +
|
||||
"</a></p>"
|
||||
)
|
||||
);
|
||||
},
|
||||
|
||||
/**
|
||||
* helper function to hide the search marks again
|
||||
*/
|
||||
hideSearchWords: () => {
|
||||
document
|
||||
.querySelectorAll("#searchbox .highlight-link")
|
||||
.forEach((el) => el.remove());
|
||||
document
|
||||
.querySelectorAll("span.highlighted")
|
||||
.forEach((el) => el.classList.remove("highlighted"));
|
||||
localStorage.removeItem("sphinx_highlight_terms")
|
||||
},
|
||||
|
||||
initEscapeListener: () => {
|
||||
// only install a listener if it is really needed
|
||||
if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return;
|
||||
|
||||
document.addEventListener("keydown", (event) => {
|
||||
// bail for input elements
|
||||
if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return;
|
||||
// bail with special keys
|
||||
if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return;
|
||||
if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) {
|
||||
SphinxHighlight.hideSearchWords();
|
||||
event.preventDefault();
|
||||
}
|
||||
});
|
||||
},
|
||||
};
|
||||
|
||||
_ready(() => {
|
||||
/* Do not call highlightSearchWords() when we are on the search page.
|
||||
* It will highlight words from the *previous* search query.
|
||||
*/
|
||||
if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords();
|
||||
SphinxHighlight.initEscapeListener();
|
||||
});
|
||||
999
doc/html/_static/underscore-1.3.1.js
Normal file
999
doc/html/_static/underscore-1.3.1.js
Normal file
@ -0,0 +1,999 @@
|
||||
// Underscore.js 1.3.1
|
||||
// (c) 2009-2012 Jeremy Ashkenas, DocumentCloud Inc.
|
||||
// Underscore is freely distributable under the MIT license.
|
||||
// Portions of Underscore are inspired or borrowed from Prototype,
|
||||
// Oliver Steele's Functional, and John Resig's Micro-Templating.
|
||||
// For all details and documentation:
|
||||
// http://documentcloud.github.com/underscore
|
||||
|
||||
(function() {
|
||||
|
||||
// Baseline setup
|
||||
// --------------
|
||||
|
||||
// Establish the root object, `window` in the browser, or `global` on the server.
|
||||
var root = this;
|
||||
|
||||
// Save the previous value of the `_` variable.
|
||||
var previousUnderscore = root._;
|
||||
|
||||
// Establish the object that gets returned to break out of a loop iteration.
|
||||
var breaker = {};
|
||||
|
||||
// Save bytes in the minified (but not gzipped) version:
|
||||
var ArrayProto = Array.prototype, ObjProto = Object.prototype, FuncProto = Function.prototype;
|
||||
|
||||
// Create quick reference variables for speed access to core prototypes.
|
||||
var slice = ArrayProto.slice,
|
||||
unshift = ArrayProto.unshift,
|
||||
toString = ObjProto.toString,
|
||||
hasOwnProperty = ObjProto.hasOwnProperty;
|
||||
|
||||
// All **ECMAScript 5** native function implementations that we hope to use
|
||||
// are declared here.
|
||||
var
|
||||
nativeForEach = ArrayProto.forEach,
|
||||
nativeMap = ArrayProto.map,
|
||||
nativeReduce = ArrayProto.reduce,
|
||||
nativeReduceRight = ArrayProto.reduceRight,
|
||||
nativeFilter = ArrayProto.filter,
|
||||
nativeEvery = ArrayProto.every,
|
||||
nativeSome = ArrayProto.some,
|
||||
nativeIndexOf = ArrayProto.indexOf,
|
||||
nativeLastIndexOf = ArrayProto.lastIndexOf,
|
||||
nativeIsArray = Array.isArray,
|
||||
nativeKeys = Object.keys,
|
||||
nativeBind = FuncProto.bind;
|
||||
|
||||
// Create a safe reference to the Underscore object for use below.
|
||||
var _ = function(obj) { return new wrapper(obj); };
|
||||
|
||||
// Export the Underscore object for **Node.js**, with
|
||||
// backwards-compatibility for the old `require()` API. If we're in
|
||||
// the browser, add `_` as a global object via a string identifier,
|
||||
// for Closure Compiler "advanced" mode.
|
||||
if (typeof exports !== 'undefined') {
|
||||
if (typeof module !== 'undefined' && module.exports) {
|
||||
exports = module.exports = _;
|
||||
}
|
||||
exports._ = _;
|
||||
} else {
|
||||
root['_'] = _;
|
||||
}
|
||||
|
||||
// Current version.
|
||||
_.VERSION = '1.3.1';
|
||||
|
||||
// Collection Functions
|
||||
// --------------------
|
||||
|
||||
// The cornerstone, an `each` implementation, aka `forEach`.
|
||||
// Handles objects with the built-in `forEach`, arrays, and raw objects.
|
||||
// Delegates to **ECMAScript 5**'s native `forEach` if available.
|
||||
var each = _.each = _.forEach = function(obj, iterator, context) {
|
||||
if (obj == null) return;
|
||||
if (nativeForEach && obj.forEach === nativeForEach) {
|
||||
obj.forEach(iterator, context);
|
||||
} else if (obj.length === +obj.length) {
|
||||
for (var i = 0, l = obj.length; i < l; i++) {
|
||||
if (i in obj && iterator.call(context, obj[i], i, obj) === breaker) return;
|
||||
}
|
||||
} else {
|
||||
for (var key in obj) {
|
||||
if (_.has(obj, key)) {
|
||||
if (iterator.call(context, obj[key], key, obj) === breaker) return;
|
||||
}
|
||||
}
|
||||
}
|
||||
};
|
||||
|
||||
// Return the results of applying the iterator to each element.
|
||||
// Delegates to **ECMAScript 5**'s native `map` if available.
|
||||
_.map = _.collect = function(obj, iterator, context) {
|
||||
var results = [];
|
||||
if (obj == null) return results;
|
||||
if (nativeMap && obj.map === nativeMap) return obj.map(iterator, context);
|
||||
each(obj, function(value, index, list) {
|
||||
results[results.length] = iterator.call(context, value, index, list);
|
||||
});
|
||||
if (obj.length === +obj.length) results.length = obj.length;
|
||||
return results;
|
||||
};
|
||||
|
||||
// **Reduce** builds up a single result from a list of values, aka `inject`,
|
||||
// or `foldl`. Delegates to **ECMAScript 5**'s native `reduce` if available.
|
||||
_.reduce = _.foldl = _.inject = function(obj, iterator, memo, context) {
|
||||
var initial = arguments.length > 2;
|
||||
if (obj == null) obj = [];
|
||||
if (nativeReduce && obj.reduce === nativeReduce) {
|
||||
if (context) iterator = _.bind(iterator, context);
|
||||
return initial ? obj.reduce(iterator, memo) : obj.reduce(iterator);
|
||||
}
|
||||
each(obj, function(value, index, list) {
|
||||
if (!initial) {
|
||||
memo = value;
|
||||
initial = true;
|
||||
} else {
|
||||
memo = iterator.call(context, memo, value, index, list);
|
||||
}
|
||||
});
|
||||
if (!initial) throw new TypeError('Reduce of empty array with no initial value');
|
||||
return memo;
|
||||
};
|
||||
|
||||
// The right-associative version of reduce, also known as `foldr`.
|
||||
// Delegates to **ECMAScript 5**'s native `reduceRight` if available.
|
||||
_.reduceRight = _.foldr = function(obj, iterator, memo, context) {
|
||||
var initial = arguments.length > 2;
|
||||
if (obj == null) obj = [];
|
||||
if (nativeReduceRight && obj.reduceRight === nativeReduceRight) {
|
||||
if (context) iterator = _.bind(iterator, context);
|
||||
return initial ? obj.reduceRight(iterator, memo) : obj.reduceRight(iterator);
|
||||
}
|
||||
var reversed = _.toArray(obj).reverse();
|
||||
if (context && !initial) iterator = _.bind(iterator, context);
|
||||
return initial ? _.reduce(reversed, iterator, memo, context) : _.reduce(reversed, iterator);
|
||||
};
|
||||
|
||||
// Return the first value which passes a truth test. Aliased as `detect`.
|
||||
_.find = _.detect = function(obj, iterator, context) {
|
||||
var result;
|
||||
any(obj, function(value, index, list) {
|
||||
if (iterator.call(context, value, index, list)) {
|
||||
result = value;
|
||||
return true;
|
||||
}
|
||||
});
|
||||
return result;
|
||||
};
|
||||
|
||||
// Return all the elements that pass a truth test.
|
||||
// Delegates to **ECMAScript 5**'s native `filter` if available.
|
||||
// Aliased as `select`.
|
||||
_.filter = _.select = function(obj, iterator, context) {
|
||||
var results = [];
|
||||
if (obj == null) return results;
|
||||
if (nativeFilter && obj.filter === nativeFilter) return obj.filter(iterator, context);
|
||||
each(obj, function(value, index, list) {
|
||||
if (iterator.call(context, value, index, list)) results[results.length] = value;
|
||||
});
|
||||
return results;
|
||||
};
|
||||
|
||||
// Return all the elements for which a truth test fails.
|
||||
_.reject = function(obj, iterator, context) {
|
||||
var results = [];
|
||||
if (obj == null) return results;
|
||||
each(obj, function(value, index, list) {
|
||||
if (!iterator.call(context, value, index, list)) results[results.length] = value;
|
||||
});
|
||||
return results;
|
||||
};
|
||||
|
||||
// Determine whether all of the elements match a truth test.
|
||||
// Delegates to **ECMAScript 5**'s native `every` if available.
|
||||
// Aliased as `all`.
|
||||
_.every = _.all = function(obj, iterator, context) {
|
||||
var result = true;
|
||||
if (obj == null) return result;
|
||||
if (nativeEvery && obj.every === nativeEvery) return obj.every(iterator, context);
|
||||
each(obj, function(value, index, list) {
|
||||
if (!(result = result && iterator.call(context, value, index, list))) return breaker;
|
||||
});
|
||||
return result;
|
||||
};
|
||||
|
||||
// Determine if at least one element in the object matches a truth test.
|
||||
// Delegates to **ECMAScript 5**'s native `some` if available.
|
||||
// Aliased as `any`.
|
||||
var any = _.some = _.any = function(obj, iterator, context) {
|
||||
iterator || (iterator = _.identity);
|
||||
var result = false;
|
||||
if (obj == null) return result;
|
||||
if (nativeSome && obj.some === nativeSome) return obj.some(iterator, context);
|
||||
each(obj, function(value, index, list) {
|
||||
if (result || (result = iterator.call(context, value, index, list))) return breaker;
|
||||
});
|
||||
return !!result;
|
||||
};
|
||||
|
||||
// Determine if a given value is included in the array or object using `===`.
|
||||
// Aliased as `contains`.
|
||||
_.include = _.contains = function(obj, target) {
|
||||
var found = false;
|
||||
if (obj == null) return found;
|
||||
if (nativeIndexOf && obj.indexOf === nativeIndexOf) return obj.indexOf(target) != -1;
|
||||
found = any(obj, function(value) {
|
||||
return value === target;
|
||||
});
|
||||
return found;
|
||||
};
|
||||
|
||||
// Invoke a method (with arguments) on every item in a collection.
|
||||
_.invoke = function(obj, method) {
|
||||
var args = slice.call(arguments, 2);
|
||||
return _.map(obj, function(value) {
|
||||
return (_.isFunction(method) ? method || value : value[method]).apply(value, args);
|
||||
});
|
||||
};
|
||||
|
||||
// Convenience version of a common use case of `map`: fetching a property.
|
||||
_.pluck = function(obj, key) {
|
||||
return _.map(obj, function(value){ return value[key]; });
|
||||
};
|
||||
|
||||
// Return the maximum element or (element-based computation).
|
||||
_.max = function(obj, iterator, context) {
|
||||
if (!iterator && _.isArray(obj)) return Math.max.apply(Math, obj);
|
||||
if (!iterator && _.isEmpty(obj)) return -Infinity;
|
||||
var result = {computed : -Infinity};
|
||||
each(obj, function(value, index, list) {
|
||||
var computed = iterator ? iterator.call(context, value, index, list) : value;
|
||||
computed >= result.computed && (result = {value : value, computed : computed});
|
||||
});
|
||||
return result.value;
|
||||
};
|
||||
|
||||
// Return the minimum element (or element-based computation).
|
||||
_.min = function(obj, iterator, context) {
|
||||
if (!iterator && _.isArray(obj)) return Math.min.apply(Math, obj);
|
||||
if (!iterator && _.isEmpty(obj)) return Infinity;
|
||||
var result = {computed : Infinity};
|
||||
each(obj, function(value, index, list) {
|
||||
var computed = iterator ? iterator.call(context, value, index, list) : value;
|
||||
computed < result.computed && (result = {value : value, computed : computed});
|
||||
});
|
||||
return result.value;
|
||||
};
|
||||
|
||||
// Shuffle an array.
|
||||
_.shuffle = function(obj) {
|
||||
var shuffled = [], rand;
|
||||
each(obj, function(value, index, list) {
|
||||
if (index == 0) {
|
||||
shuffled[0] = value;
|
||||
} else {
|
||||
rand = Math.floor(Math.random() * (index + 1));
|
||||
shuffled[index] = shuffled[rand];
|
||||
shuffled[rand] = value;
|
||||
}
|
||||
});
|
||||
return shuffled;
|
||||
};
|
||||
|
||||
// Sort the object's values by a criterion produced by an iterator.
|
||||
_.sortBy = function(obj, iterator, context) {
|
||||
return _.pluck(_.map(obj, function(value, index, list) {
|
||||
return {
|
||||
value : value,
|
||||
criteria : iterator.call(context, value, index, list)
|
||||
};
|
||||
}).sort(function(left, right) {
|
||||
var a = left.criteria, b = right.criteria;
|
||||
return a < b ? -1 : a > b ? 1 : 0;
|
||||
}), 'value');
|
||||
};
|
||||
|
||||
// Groups the object's values by a criterion. Pass either a string attribute
|
||||
// to group by, or a function that returns the criterion.
|
||||
_.groupBy = function(obj, val) {
|
||||
var result = {};
|
||||
var iterator = _.isFunction(val) ? val : function(obj) { return obj[val]; };
|
||||
each(obj, function(value, index) {
|
||||
var key = iterator(value, index);
|
||||
(result[key] || (result[key] = [])).push(value);
|
||||
});
|
||||
return result;
|
||||
};
|
||||
|
||||
// Use a comparator function to figure out at what index an object should
|
||||
// be inserted so as to maintain order. Uses binary search.
|
||||
_.sortedIndex = function(array, obj, iterator) {
|
||||
iterator || (iterator = _.identity);
|
||||
var low = 0, high = array.length;
|
||||
while (low < high) {
|
||||
var mid = (low + high) >> 1;
|
||||
iterator(array[mid]) < iterator(obj) ? low = mid + 1 : high = mid;
|
||||
}
|
||||
return low;
|
||||
};
|
||||
|
||||
// Safely convert anything iterable into a real, live array.
|
||||
_.toArray = function(iterable) {
|
||||
if (!iterable) return [];
|
||||
if (iterable.toArray) return iterable.toArray();
|
||||
if (_.isArray(iterable)) return slice.call(iterable);
|
||||
if (_.isArguments(iterable)) return slice.call(iterable);
|
||||
return _.values(iterable);
|
||||
};
|
||||
|
||||
// Return the number of elements in an object.
|
||||
_.size = function(obj) {
|
||||
return _.toArray(obj).length;
|
||||
};
|
||||
|
||||
// Array Functions
|
||||
// ---------------
|
||||
|
||||
// Get the first element of an array. Passing **n** will return the first N
|
||||
// values in the array. Aliased as `head`. The **guard** check allows it to work
|
||||
// with `_.map`.
|
||||
_.first = _.head = function(array, n, guard) {
|
||||
return (n != null) && !guard ? slice.call(array, 0, n) : array[0];
|
||||
};
|
||||
|
||||
// Returns everything but the last entry of the array. Especcialy useful on
|
||||
// the arguments object. Passing **n** will return all the values in
|
||||
// the array, excluding the last N. The **guard** check allows it to work with
|
||||
// `_.map`.
|
||||
_.initial = function(array, n, guard) {
|
||||
return slice.call(array, 0, array.length - ((n == null) || guard ? 1 : n));
|
||||
};
|
||||
|
||||
// Get the last element of an array. Passing **n** will return the last N
|
||||
// values in the array. The **guard** check allows it to work with `_.map`.
|
||||
_.last = function(array, n, guard) {
|
||||
if ((n != null) && !guard) {
|
||||
return slice.call(array, Math.max(array.length - n, 0));
|
||||
} else {
|
||||
return array[array.length - 1];
|
||||
}
|
||||
};
|
||||
|
||||
// Returns everything but the first entry of the array. Aliased as `tail`.
|
||||
// Especially useful on the arguments object. Passing an **index** will return
|
||||
// the rest of the values in the array from that index onward. The **guard**
|
||||
// check allows it to work with `_.map`.
|
||||
_.rest = _.tail = function(array, index, guard) {
|
||||
return slice.call(array, (index == null) || guard ? 1 : index);
|
||||
};
|
||||
|
||||
// Trim out all falsy values from an array.
|
||||
_.compact = function(array) {
|
||||
return _.filter(array, function(value){ return !!value; });
|
||||
};
|
||||
|
||||
// Return a completely flattened version of an array.
|
||||
_.flatten = function(array, shallow) {
|
||||
return _.reduce(array, function(memo, value) {
|
||||
if (_.isArray(value)) return memo.concat(shallow ? value : _.flatten(value));
|
||||
memo[memo.length] = value;
|
||||
return memo;
|
||||
}, []);
|
||||
};
|
||||
|
||||
// Return a version of the array that does not contain the specified value(s).
|
||||
_.without = function(array) {
|
||||
return _.difference(array, slice.call(arguments, 1));
|
||||
};
|
||||
|
||||
// Produce a duplicate-free version of the array. If the array has already
|
||||
// been sorted, you have the option of using a faster algorithm.
|
||||
// Aliased as `unique`.
|
||||
_.uniq = _.unique = function(array, isSorted, iterator) {
|
||||
var initial = iterator ? _.map(array, iterator) : array;
|
||||
var result = [];
|
||||
_.reduce(initial, function(memo, el, i) {
|
||||
if (0 == i || (isSorted === true ? _.last(memo) != el : !_.include(memo, el))) {
|
||||
memo[memo.length] = el;
|
||||
result[result.length] = array[i];
|
||||
}
|
||||
return memo;
|
||||
}, []);
|
||||
return result;
|
||||
};
|
||||
|
||||
// Produce an array that contains the union: each distinct element from all of
|
||||
// the passed-in arrays.
|
||||
_.union = function() {
|
||||
return _.uniq(_.flatten(arguments, true));
|
||||
};
|
||||
|
||||
// Produce an array that contains every item shared between all the
|
||||
// passed-in arrays. (Aliased as "intersect" for back-compat.)
|
||||
_.intersection = _.intersect = function(array) {
|
||||
var rest = slice.call(arguments, 1);
|
||||
return _.filter(_.uniq(array), function(item) {
|
||||
return _.every(rest, function(other) {
|
||||
return _.indexOf(other, item) >= 0;
|
||||
});
|
||||
});
|
||||
};
|
||||
|
||||
// Take the difference between one array and a number of other arrays.
|
||||
// Only the elements present in just the first array will remain.
|
||||
_.difference = function(array) {
|
||||
var rest = _.flatten(slice.call(arguments, 1));
|
||||
return _.filter(array, function(value){ return !_.include(rest, value); });
|
||||
};
|
||||
|
||||
// Zip together multiple lists into a single array -- elements that share
|
||||
// an index go together.
|
||||
_.zip = function() {
|
||||
var args = slice.call(arguments);
|
||||
var length = _.max(_.pluck(args, 'length'));
|
||||
var results = new Array(length);
|
||||
for (var i = 0; i < length; i++) results[i] = _.pluck(args, "" + i);
|
||||
return results;
|
||||
};
|
||||
|
||||
// If the browser doesn't supply us with indexOf (I'm looking at you, **MSIE**),
|
||||
// we need this function. Return the position of the first occurrence of an
|
||||
// item in an array, or -1 if the item is not included in the array.
|
||||
// Delegates to **ECMAScript 5**'s native `indexOf` if available.
|
||||
// If the array is large and already in sort order, pass `true`
|
||||
// for **isSorted** to use binary search.
|
||||
_.indexOf = function(array, item, isSorted) {
|
||||
if (array == null) return -1;
|
||||
var i, l;
|
||||
if (isSorted) {
|
||||
i = _.sortedIndex(array, item);
|
||||
return array[i] === item ? i : -1;
|
||||
}
|
||||
if (nativeIndexOf && array.indexOf === nativeIndexOf) return array.indexOf(item);
|
||||
for (i = 0, l = array.length; i < l; i++) if (i in array && array[i] === item) return i;
|
||||
return -1;
|
||||
};
|
||||
|
||||
// Delegates to **ECMAScript 5**'s native `lastIndexOf` if available.
|
||||
_.lastIndexOf = function(array, item) {
|
||||
if (array == null) return -1;
|
||||
if (nativeLastIndexOf && array.lastIndexOf === nativeLastIndexOf) return array.lastIndexOf(item);
|
||||
var i = array.length;
|
||||
while (i--) if (i in array && array[i] === item) return i;
|
||||
return -1;
|
||||
};
|
||||
|
||||
// Generate an integer Array containing an arithmetic progression. A port of
|
||||
// the native Python `range()` function. See
|
||||
// [the Python documentation](http://docs.python.org/library/functions.html#range).
|
||||
_.range = function(start, stop, step) {
|
||||
if (arguments.length <= 1) {
|
||||
stop = start || 0;
|
||||
start = 0;
|
||||
}
|
||||
step = arguments[2] || 1;
|
||||
|
||||
var len = Math.max(Math.ceil((stop - start) / step), 0);
|
||||
var idx = 0;
|
||||
var range = new Array(len);
|
||||
|
||||
while(idx < len) {
|
||||
range[idx++] = start;
|
||||
start += step;
|
||||
}
|
||||
|
||||
return range;
|
||||
};
|
||||
|
||||
// Function (ahem) Functions
|
||||
// ------------------
|
||||
|
||||
// Reusable constructor function for prototype setting.
|
||||
var ctor = function(){};
|
||||
|
||||
// Create a function bound to a given object (assigning `this`, and arguments,
|
||||
// optionally). Binding with arguments is also known as `curry`.
|
||||
// Delegates to **ECMAScript 5**'s native `Function.bind` if available.
|
||||
// We check for `func.bind` first, to fail fast when `func` is undefined.
|
||||
_.bind = function bind(func, context) {
|
||||
var bound, args;
|
||||
if (func.bind === nativeBind && nativeBind) return nativeBind.apply(func, slice.call(arguments, 1));
|
||||
if (!_.isFunction(func)) throw new TypeError;
|
||||
args = slice.call(arguments, 2);
|
||||
return bound = function() {
|
||||
if (!(this instanceof bound)) return func.apply(context, args.concat(slice.call(arguments)));
|
||||
ctor.prototype = func.prototype;
|
||||
var self = new ctor;
|
||||
var result = func.apply(self, args.concat(slice.call(arguments)));
|
||||
if (Object(result) === result) return result;
|
||||
return self;
|
||||
};
|
||||
};
|
||||
|
||||
// Bind all of an object's methods to that object. Useful for ensuring that
|
||||
// all callbacks defined on an object belong to it.
|
||||
_.bindAll = function(obj) {
|
||||
var funcs = slice.call(arguments, 1);
|
||||
if (funcs.length == 0) funcs = _.functions(obj);
|
||||
each(funcs, function(f) { obj[f] = _.bind(obj[f], obj); });
|
||||
return obj;
|
||||
};
|
||||
|
||||
// Memoize an expensive function by storing its results.
|
||||
_.memoize = function(func, hasher) {
|
||||
var memo = {};
|
||||
hasher || (hasher = _.identity);
|
||||
return function() {
|
||||
var key = hasher.apply(this, arguments);
|
||||
return _.has(memo, key) ? memo[key] : (memo[key] = func.apply(this, arguments));
|
||||
};
|
||||
};
|
||||
|
||||
// Delays a function for the given number of milliseconds, and then calls
|
||||
// it with the arguments supplied.
|
||||
_.delay = function(func, wait) {
|
||||
var args = slice.call(arguments, 2);
|
||||
return setTimeout(function(){ return func.apply(func, args); }, wait);
|
||||
};
|
||||
|
||||
// Defers a function, scheduling it to run after the current call stack has
|
||||
// cleared.
|
||||
_.defer = function(func) {
|
||||
return _.delay.apply(_, [func, 1].concat(slice.call(arguments, 1)));
|
||||
};
|
||||
|
||||
// Returns a function, that, when invoked, will only be triggered at most once
|
||||
// during a given window of time.
|
||||
_.throttle = function(func, wait) {
|
||||
var context, args, timeout, throttling, more;
|
||||
var whenDone = _.debounce(function(){ more = throttling = false; }, wait);
|
||||
return function() {
|
||||
context = this; args = arguments;
|
||||
var later = function() {
|
||||
timeout = null;
|
||||
if (more) func.apply(context, args);
|
||||
whenDone();
|
||||
};
|
||||
if (!timeout) timeout = setTimeout(later, wait);
|
||||
if (throttling) {
|
||||
more = true;
|
||||
} else {
|
||||
func.apply(context, args);
|
||||
}
|
||||
whenDone();
|
||||
throttling = true;
|
||||
};
|
||||
};
|
||||
|
||||
// Returns a function, that, as long as it continues to be invoked, will not
|
||||
// be triggered. The function will be called after it stops being called for
|
||||
// N milliseconds.
|
||||
_.debounce = function(func, wait) {
|
||||
var timeout;
|
||||
return function() {
|
||||
var context = this, args = arguments;
|
||||
var later = function() {
|
||||
timeout = null;
|
||||
func.apply(context, args);
|
||||
};
|
||||
clearTimeout(timeout);
|
||||
timeout = setTimeout(later, wait);
|
||||
};
|
||||
};
|
||||
|
||||
// Returns a function that will be executed at most one time, no matter how
|
||||
// often you call it. Useful for lazy initialization.
|
||||
_.once = function(func) {
|
||||
var ran = false, memo;
|
||||
return function() {
|
||||
if (ran) return memo;
|
||||
ran = true;
|
||||
return memo = func.apply(this, arguments);
|
||||
};
|
||||
};
|
||||
|
||||
// Returns the first function passed as an argument to the second,
|
||||
// allowing you to adjust arguments, run code before and after, and
|
||||
// conditionally execute the original function.
|
||||
_.wrap = function(func, wrapper) {
|
||||
return function() {
|
||||
var args = [func].concat(slice.call(arguments, 0));
|
||||
return wrapper.apply(this, args);
|
||||
};
|
||||
};
|
||||
|
||||
// Returns a function that is the composition of a list of functions, each
|
||||
// consuming the return value of the function that follows.
|
||||
_.compose = function() {
|
||||
var funcs = arguments;
|
||||
return function() {
|
||||
var args = arguments;
|
||||
for (var i = funcs.length - 1; i >= 0; i--) {
|
||||
args = [funcs[i].apply(this, args)];
|
||||
}
|
||||
return args[0];
|
||||
};
|
||||
};
|
||||
|
||||
// Returns a function that will only be executed after being called N times.
|
||||
_.after = function(times, func) {
|
||||
if (times <= 0) return func();
|
||||
return function() {
|
||||
if (--times < 1) { return func.apply(this, arguments); }
|
||||
};
|
||||
};
|
||||
|
||||
// Object Functions
|
||||
// ----------------
|
||||
|
||||
// Retrieve the names of an object's properties.
|
||||
// Delegates to **ECMAScript 5**'s native `Object.keys`
|
||||
_.keys = nativeKeys || function(obj) {
|
||||
if (obj !== Object(obj)) throw new TypeError('Invalid object');
|
||||
var keys = [];
|
||||
for (var key in obj) if (_.has(obj, key)) keys[keys.length] = key;
|
||||
return keys;
|
||||
};
|
||||
|
||||
// Retrieve the values of an object's properties.
|
||||
_.values = function(obj) {
|
||||
return _.map(obj, _.identity);
|
||||
};
|
||||
|
||||
// Return a sorted list of the function names available on the object.
|
||||
// Aliased as `methods`
|
||||
_.functions = _.methods = function(obj) {
|
||||
var names = [];
|
||||
for (var key in obj) {
|
||||
if (_.isFunction(obj[key])) names.push(key);
|
||||
}
|
||||
return names.sort();
|
||||
};
|
||||
|
||||
// Extend a given object with all the properties in passed-in object(s).
|
||||
_.extend = function(obj) {
|
||||
each(slice.call(arguments, 1), function(source) {
|
||||
for (var prop in source) {
|
||||
obj[prop] = source[prop];
|
||||
}
|
||||
});
|
||||
return obj;
|
||||
};
|
||||
|
||||
// Fill in a given object with default properties.
|
||||
_.defaults = function(obj) {
|
||||
each(slice.call(arguments, 1), function(source) {
|
||||
for (var prop in source) {
|
||||
if (obj[prop] == null) obj[prop] = source[prop];
|
||||
}
|
||||
});
|
||||
return obj;
|
||||
};
|
||||
|
||||
// Create a (shallow-cloned) duplicate of an object.
|
||||
_.clone = function(obj) {
|
||||
if (!_.isObject(obj)) return obj;
|
||||
return _.isArray(obj) ? obj.slice() : _.extend({}, obj);
|
||||
};
|
||||
|
||||
// Invokes interceptor with the obj, and then returns obj.
|
||||
// The primary purpose of this method is to "tap into" a method chain, in
|
||||
// order to perform operations on intermediate results within the chain.
|
||||
_.tap = function(obj, interceptor) {
|
||||
interceptor(obj);
|
||||
return obj;
|
||||
};
|
||||
|
||||
// Internal recursive comparison function.
|
||||
function eq(a, b, stack) {
|
||||
// Identical objects are equal. `0 === -0`, but they aren't identical.
|
||||
// See the Harmony `egal` proposal: http://wiki.ecmascript.org/doku.php?id=harmony:egal.
|
||||
if (a === b) return a !== 0 || 1 / a == 1 / b;
|
||||
// A strict comparison is necessary because `null == undefined`.
|
||||
if (a == null || b == null) return a === b;
|
||||
// Unwrap any wrapped objects.
|
||||
if (a._chain) a = a._wrapped;
|
||||
if (b._chain) b = b._wrapped;
|
||||
// Invoke a custom `isEqual` method if one is provided.
|
||||
if (a.isEqual && _.isFunction(a.isEqual)) return a.isEqual(b);
|
||||
if (b.isEqual && _.isFunction(b.isEqual)) return b.isEqual(a);
|
||||
// Compare `[[Class]]` names.
|
||||
var className = toString.call(a);
|
||||
if (className != toString.call(b)) return false;
|
||||
switch (className) {
|
||||
// Strings, numbers, dates, and booleans are compared by value.
|
||||
case '[object String]':
|
||||
// Primitives and their corresponding object wrappers are equivalent; thus, `"5"` is
|
||||
// equivalent to `new String("5")`.
|
||||
return a == String(b);
|
||||
case '[object Number]':
|
||||
// `NaN`s are equivalent, but non-reflexive. An `egal` comparison is performed for
|
||||
// other numeric values.
|
||||
return a != +a ? b != +b : (a == 0 ? 1 / a == 1 / b : a == +b);
|
||||
case '[object Date]':
|
||||
case '[object Boolean]':
|
||||
// Coerce dates and booleans to numeric primitive values. Dates are compared by their
|
||||
// millisecond representations. Note that invalid dates with millisecond representations
|
||||
// of `NaN` are not equivalent.
|
||||
return +a == +b;
|
||||
// RegExps are compared by their source patterns and flags.
|
||||
case '[object RegExp]':
|
||||
return a.source == b.source &&
|
||||
a.global == b.global &&
|
||||
a.multiline == b.multiline &&
|
||||
a.ignoreCase == b.ignoreCase;
|
||||
}
|
||||
if (typeof a != 'object' || typeof b != 'object') return false;
|
||||
// Assume equality for cyclic structures. The algorithm for detecting cyclic
|
||||
// structures is adapted from ES 5.1 section 15.12.3, abstract operation `JO`.
|
||||
var length = stack.length;
|
||||
while (length--) {
|
||||
// Linear search. Performance is inversely proportional to the number of
|
||||
// unique nested structures.
|
||||
if (stack[length] == a) return true;
|
||||
}
|
||||
// Add the first object to the stack of traversed objects.
|
||||
stack.push(a);
|
||||
var size = 0, result = true;
|
||||
// Recursively compare objects and arrays.
|
||||
if (className == '[object Array]') {
|
||||
// Compare array lengths to determine if a deep comparison is necessary.
|
||||
size = a.length;
|
||||
result = size == b.length;
|
||||
if (result) {
|
||||
// Deep compare the contents, ignoring non-numeric properties.
|
||||
while (size--) {
|
||||
// Ensure commutative equality for sparse arrays.
|
||||
if (!(result = size in a == size in b && eq(a[size], b[size], stack))) break;
|
||||
}
|
||||
}
|
||||
} else {
|
||||
// Objects with different constructors are not equivalent.
|
||||
if ('constructor' in a != 'constructor' in b || a.constructor != b.constructor) return false;
|
||||
// Deep compare objects.
|
||||
for (var key in a) {
|
||||
if (_.has(a, key)) {
|
||||
// Count the expected number of properties.
|
||||
size++;
|
||||
// Deep compare each member.
|
||||
if (!(result = _.has(b, key) && eq(a[key], b[key], stack))) break;
|
||||
}
|
||||
}
|
||||
// Ensure that both objects contain the same number of properties.
|
||||
if (result) {
|
||||
for (key in b) {
|
||||
if (_.has(b, key) && !(size--)) break;
|
||||
}
|
||||
result = !size;
|
||||
}
|
||||
}
|
||||
// Remove the first object from the stack of traversed objects.
|
||||
stack.pop();
|
||||
return result;
|
||||
}
|
||||
|
||||
// Perform a deep comparison to check if two objects are equal.
|
||||
_.isEqual = function(a, b) {
|
||||
return eq(a, b, []);
|
||||
};
|
||||
|
||||
// Is a given array, string, or object empty?
|
||||
// An "empty" object has no enumerable own-properties.
|
||||
_.isEmpty = function(obj) {
|
||||
if (_.isArray(obj) || _.isString(obj)) return obj.length === 0;
|
||||
for (var key in obj) if (_.has(obj, key)) return false;
|
||||
return true;
|
||||
};
|
||||
|
||||
// Is a given value a DOM element?
|
||||
_.isElement = function(obj) {
|
||||
return !!(obj && obj.nodeType == 1);
|
||||
};
|
||||
|
||||
// Is a given value an array?
|
||||
// Delegates to ECMA5's native Array.isArray
|
||||
_.isArray = nativeIsArray || function(obj) {
|
||||
return toString.call(obj) == '[object Array]';
|
||||
};
|
||||
|
||||
// Is a given variable an object?
|
||||
_.isObject = function(obj) {
|
||||
return obj === Object(obj);
|
||||
};
|
||||
|
||||
// Is a given variable an arguments object?
|
||||
_.isArguments = function(obj) {
|
||||
return toString.call(obj) == '[object Arguments]';
|
||||
};
|
||||
if (!_.isArguments(arguments)) {
|
||||
_.isArguments = function(obj) {
|
||||
return !!(obj && _.has(obj, 'callee'));
|
||||
};
|
||||
}
|
||||
|
||||
// Is a given value a function?
|
||||
_.isFunction = function(obj) {
|
||||
return toString.call(obj) == '[object Function]';
|
||||
};
|
||||
|
||||
// Is a given value a string?
|
||||
_.isString = function(obj) {
|
||||
return toString.call(obj) == '[object String]';
|
||||
};
|
||||
|
||||
// Is a given value a number?
|
||||
_.isNumber = function(obj) {
|
||||
return toString.call(obj) == '[object Number]';
|
||||
};
|
||||
|
||||
// Is the given value `NaN`?
|
||||
_.isNaN = function(obj) {
|
||||
// `NaN` is the only value for which `===` is not reflexive.
|
||||
return obj !== obj;
|
||||
};
|
||||
|
||||
// Is a given value a boolean?
|
||||
_.isBoolean = function(obj) {
|
||||
return obj === true || obj === false || toString.call(obj) == '[object Boolean]';
|
||||
};
|
||||
|
||||
// Is a given value a date?
|
||||
_.isDate = function(obj) {
|
||||
return toString.call(obj) == '[object Date]';
|
||||
};
|
||||
|
||||
// Is the given value a regular expression?
|
||||
_.isRegExp = function(obj) {
|
||||
return toString.call(obj) == '[object RegExp]';
|
||||
};
|
||||
|
||||
// Is a given value equal to null?
|
||||
_.isNull = function(obj) {
|
||||
return obj === null;
|
||||
};
|
||||
|
||||
// Is a given variable undefined?
|
||||
_.isUndefined = function(obj) {
|
||||
return obj === void 0;
|
||||
};
|
||||
|
||||
// Has own property?
|
||||
_.has = function(obj, key) {
|
||||
return hasOwnProperty.call(obj, key);
|
||||
};
|
||||
|
||||
// Utility Functions
|
||||
// -----------------
|
||||
|
||||
// Run Underscore.js in *noConflict* mode, returning the `_` variable to its
|
||||
// previous owner. Returns a reference to the Underscore object.
|
||||
_.noConflict = function() {
|
||||
root._ = previousUnderscore;
|
||||
return this;
|
||||
};
|
||||
|
||||
// Keep the identity function around for default iterators.
|
||||
_.identity = function(value) {
|
||||
return value;
|
||||
};
|
||||
|
||||
// Run a function **n** times.
|
||||
_.times = function (n, iterator, context) {
|
||||
for (var i = 0; i < n; i++) iterator.call(context, i);
|
||||
};
|
||||
|
||||
// Escape a string for HTML interpolation.
|
||||
_.escape = function(string) {
|
||||
return (''+string).replace(/&/g, '&').replace(/</g, '<').replace(/>/g, '>').replace(/"/g, '"').replace(/'/g, ''').replace(/\//g,'/');
|
||||
};
|
||||
|
||||
// Add your own custom functions to the Underscore object, ensuring that
|
||||
// they're correctly added to the OOP wrapper as well.
|
||||
_.mixin = function(obj) {
|
||||
each(_.functions(obj), function(name){
|
||||
addToWrapper(name, _[name] = obj[name]);
|
||||
});
|
||||
};
|
||||
|
||||
// Generate a unique integer id (unique within the entire client session).
|
||||
// Useful for temporary DOM ids.
|
||||
var idCounter = 0;
|
||||
_.uniqueId = function(prefix) {
|
||||
var id = idCounter++;
|
||||
return prefix ? prefix + id : id;
|
||||
};
|
||||
|
||||
// By default, Underscore uses ERB-style template delimiters, change the
|
||||
// following template settings to use alternative delimiters.
|
||||
_.templateSettings = {
|
||||
evaluate : /<%([\s\S]+?)%>/g,
|
||||
interpolate : /<%=([\s\S]+?)%>/g,
|
||||
escape : /<%-([\s\S]+?)%>/g
|
||||
};
|
||||
|
||||
// When customizing `templateSettings`, if you don't want to define an
|
||||
// interpolation, evaluation or escaping regex, we need one that is
|
||||
// guaranteed not to match.
|
||||
var noMatch = /.^/;
|
||||
|
||||
// Within an interpolation, evaluation, or escaping, remove HTML escaping
|
||||
// that had been previously added.
|
||||
var unescape = function(code) {
|
||||
return code.replace(/\\\\/g, '\\').replace(/\\'/g, "'");
|
||||
};
|
||||
|
||||
// JavaScript micro-templating, similar to John Resig's implementation.
|
||||
// Underscore templating handles arbitrary delimiters, preserves whitespace,
|
||||
// and correctly escapes quotes within interpolated code.
|
||||
_.template = function(str, data) {
|
||||
var c = _.templateSettings;
|
||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
// The OOP Wrapper
|
||||
// ---------------
|
||||
|
||||
// If Underscore is called as a function, it returns a wrapped object that
|
||||
// can be used OO-style. This wrapper holds altered versions of all the
|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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||||
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|
||||
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|
||||
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|
||||
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||||
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|
||||
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||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
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||||
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||||
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||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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|
||||
|
||||
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|
||||
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||||
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|
||||
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||||
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|
||||
|
||||
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|
||||
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||||
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|
||||
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|
||||
|
||||
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|
||||
31
doc/html/_static/underscore.js
Normal file
31
doc/html/_static/underscore.js
Normal file
@ -0,0 +1,31 @@
|
||||
// Underscore.js 1.3.1
|
||||
// (c) 2009-2012 Jeremy Ashkenas, DocumentCloud Inc.
|
||||
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|
||||
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|
||||
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||||
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||||
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||||
BIN
doc/html/_static/up-pressed.png
Normal file
BIN
doc/html/_static/up-pressed.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 214 B |
BIN
doc/html/_static/up.png
Normal file
BIN
doc/html/_static/up.png
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 203 B |
808
doc/html/_static/websupport.js
Normal file
808
doc/html/_static/websupport.js
Normal file
@ -0,0 +1,808 @@
|
||||
/*
|
||||
* websupport.js
|
||||
* ~~~~~~~~~~~~~
|
||||
*
|
||||
* sphinx.websupport utilities for all documentation.
|
||||
*
|
||||
* :copyright: Copyright 2007-2018 by the Sphinx team, see AUTHORS.
|
||||
* :license: BSD, see LICENSE for details.
|
||||
*
|
||||
*/
|
||||
|
||||
(function($) {
|
||||
$.fn.autogrow = function() {
|
||||
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|
||||
var textarea = this;
|
||||
|
||||
$.fn.autogrow.resize(textarea);
|
||||
|
||||
$(textarea)
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
$.fn.autogrow.resize = function(textarea) {
|
||||
var lineHeight = parseInt($(textarea).css('line-height'), 10);
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
});
|
||||
var height = lineHeight * (lineCount + 1);
|
||||
$(textarea).css('height', height);
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||||
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|
||||
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|
||||
|
||||
(function($) {
|
||||
var comp, by;
|
||||
|
||||
function init() {
|
||||
initEvents();
|
||||
initComparator();
|
||||
}
|
||||
|
||||
function initEvents() {
|
||||
$(document).on("click", 'a.comment-close', function(event) {
|
||||
event.preventDefault();
|
||||
hide($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.vote', function(event) {
|
||||
event.preventDefault();
|
||||
handleVote($(this));
|
||||
});
|
||||
$(document).on("click", 'a.reply', function(event) {
|
||||
event.preventDefault();
|
||||
openReply($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.close-reply', function(event) {
|
||||
event.preventDefault();
|
||||
closeReply($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.sort-option', function(event) {
|
||||
event.preventDefault();
|
||||
handleReSort($(this));
|
||||
});
|
||||
$(document).on("click", 'a.show-proposal', function(event) {
|
||||
event.preventDefault();
|
||||
showProposal($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.hide-proposal', function(event) {
|
||||
event.preventDefault();
|
||||
hideProposal($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.show-propose-change', function(event) {
|
||||
event.preventDefault();
|
||||
showProposeChange($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.hide-propose-change', function(event) {
|
||||
event.preventDefault();
|
||||
hideProposeChange($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.accept-comment', function(event) {
|
||||
event.preventDefault();
|
||||
acceptComment($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.delete-comment', function(event) {
|
||||
event.preventDefault();
|
||||
deleteComment($(this).attr('id').substring(2));
|
||||
});
|
||||
$(document).on("click", 'a.comment-markup', function(event) {
|
||||
event.preventDefault();
|
||||
toggleCommentMarkupBox($(this).attr('id').substring(2));
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Set comp, which is a comparator function used for sorting and
|
||||
* inserting comments into the list.
|
||||
*/
|
||||
function setComparator() {
|
||||
// If the first three letters are "asc", sort in ascending order
|
||||
// and remove the prefix.
|
||||
if (by.substring(0,3) == 'asc') {
|
||||
var i = by.substring(3);
|
||||
comp = function(a, b) { return a[i] - b[i]; };
|
||||
} else {
|
||||
// Otherwise sort in descending order.
|
||||
comp = function(a, b) { return b[by] - a[by]; };
|
||||
}
|
||||
|
||||
// Reset link styles and format the selected sort option.
|
||||
$('a.sel').attr('href', '#').removeClass('sel');
|
||||
$('a.by' + by).removeAttr('href').addClass('sel');
|
||||
}
|
||||
|
||||
/**
|
||||
* Create a comp function. If the user has preferences stored in
|
||||
* the sortBy cookie, use those, otherwise use the default.
|
||||
*/
|
||||
function initComparator() {
|
||||
by = 'rating'; // Default to sort by rating.
|
||||
// If the sortBy cookie is set, use that instead.
|
||||
if (document.cookie.length > 0) {
|
||||
var start = document.cookie.indexOf('sortBy=');
|
||||
if (start != -1) {
|
||||
start = start + 7;
|
||||
var end = document.cookie.indexOf(";", start);
|
||||
if (end == -1) {
|
||||
end = document.cookie.length;
|
||||
by = unescape(document.cookie.substring(start, end));
|
||||
}
|
||||
}
|
||||
}
|
||||
setComparator();
|
||||
}
|
||||
|
||||
/**
|
||||
* Show a comment div.
|
||||
*/
|
||||
function show(id) {
|
||||
$('#ao' + id).hide();
|
||||
$('#ah' + id).show();
|
||||
var context = $.extend({id: id}, opts);
|
||||
var popup = $(renderTemplate(popupTemplate, context)).hide();
|
||||
popup.find('textarea[name="proposal"]').hide();
|
||||
popup.find('a.by' + by).addClass('sel');
|
||||
var form = popup.find('#cf' + id);
|
||||
form.submit(function(event) {
|
||||
event.preventDefault();
|
||||
addComment(form);
|
||||
});
|
||||
$('#s' + id).after(popup);
|
||||
popup.slideDown('fast', function() {
|
||||
getComments(id);
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Hide a comment div.
|
||||
*/
|
||||
function hide(id) {
|
||||
$('#ah' + id).hide();
|
||||
$('#ao' + id).show();
|
||||
var div = $('#sc' + id);
|
||||
div.slideUp('fast', function() {
|
||||
div.remove();
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Perform an ajax request to get comments for a node
|
||||
* and insert the comments into the comments tree.
|
||||
*/
|
||||
function getComments(id) {
|
||||
$.ajax({
|
||||
type: 'GET',
|
||||
url: opts.getCommentsURL,
|
||||
data: {node: id},
|
||||
success: function(data, textStatus, request) {
|
||||
var ul = $('#cl' + id);
|
||||
var speed = 100;
|
||||
$('#cf' + id)
|
||||
.find('textarea[name="proposal"]')
|
||||
.data('source', data.source);
|
||||
|
||||
if (data.comments.length === 0) {
|
||||
ul.html('<li>No comments yet.</li>');
|
||||
ul.data('empty', true);
|
||||
} else {
|
||||
// If there are comments, sort them and put them in the list.
|
||||
var comments = sortComments(data.comments);
|
||||
speed = data.comments.length * 100;
|
||||
appendComments(comments, ul);
|
||||
ul.data('empty', false);
|
||||
}
|
||||
$('#cn' + id).slideUp(speed + 200);
|
||||
ul.slideDown(speed);
|
||||
},
|
||||
error: function(request, textStatus, error) {
|
||||
showError('Oops, there was a problem retrieving the comments.');
|
||||
},
|
||||
dataType: 'json'
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Add a comment via ajax and insert the comment into the comment tree.
|
||||
*/
|
||||
function addComment(form) {
|
||||
var node_id = form.find('input[name="node"]').val();
|
||||
var parent_id = form.find('input[name="parent"]').val();
|
||||
var text = form.find('textarea[name="comment"]').val();
|
||||
var proposal = form.find('textarea[name="proposal"]').val();
|
||||
|
||||
if (text == '') {
|
||||
showError('Please enter a comment.');
|
||||
return;
|
||||
}
|
||||
|
||||
// Disable the form that is being submitted.
|
||||
form.find('textarea,input').attr('disabled', 'disabled');
|
||||
|
||||
// Send the comment to the server.
|
||||
$.ajax({
|
||||
type: "POST",
|
||||
url: opts.addCommentURL,
|
||||
dataType: 'json',
|
||||
data: {
|
||||
node: node_id,
|
||||
parent: parent_id,
|
||||
text: text,
|
||||
proposal: proposal
|
||||
},
|
||||
success: function(data, textStatus, error) {
|
||||
// Reset the form.
|
||||
if (node_id) {
|
||||
hideProposeChange(node_id);
|
||||
}
|
||||
form.find('textarea')
|
||||
.val('')
|
||||
.add(form.find('input'))
|
||||
.removeAttr('disabled');
|
||||
var ul = $('#cl' + (node_id || parent_id));
|
||||
if (ul.data('empty')) {
|
||||
$(ul).empty();
|
||||
ul.data('empty', false);
|
||||
}
|
||||
insertComment(data.comment);
|
||||
var ao = $('#ao' + node_id);
|
||||
ao.find('img').attr({'src': opts.commentBrightImage});
|
||||
if (node_id) {
|
||||
// if this was a "root" comment, remove the commenting box
|
||||
// (the user can get it back by reopening the comment popup)
|
||||
$('#ca' + node_id).slideUp();
|
||||
}
|
||||
},
|
||||
error: function(request, textStatus, error) {
|
||||
form.find('textarea,input').removeAttr('disabled');
|
||||
showError('Oops, there was a problem adding the comment.');
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Recursively append comments to the main comment list and children
|
||||
* lists, creating the comment tree.
|
||||
*/
|
||||
function appendComments(comments, ul) {
|
||||
$.each(comments, function() {
|
||||
var div = createCommentDiv(this);
|
||||
ul.append($(document.createElement('li')).html(div));
|
||||
appendComments(this.children, div.find('ul.comment-children'));
|
||||
// To avoid stagnating data, don't store the comments children in data.
|
||||
this.children = null;
|
||||
div.data('comment', this);
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* After adding a new comment, it must be inserted in the correct
|
||||
* location in the comment tree.
|
||||
*/
|
||||
function insertComment(comment) {
|
||||
var div = createCommentDiv(comment);
|
||||
|
||||
// To avoid stagnating data, don't store the comments children in data.
|
||||
comment.children = null;
|
||||
div.data('comment', comment);
|
||||
|
||||
var ul = $('#cl' + (comment.node || comment.parent));
|
||||
var siblings = getChildren(ul);
|
||||
|
||||
var li = $(document.createElement('li'));
|
||||
li.hide();
|
||||
|
||||
// Determine where in the parents children list to insert this comment.
|
||||
for(var i=0; i < siblings.length; i++) {
|
||||
if (comp(comment, siblings[i]) <= 0) {
|
||||
$('#cd' + siblings[i].id)
|
||||
.parent()
|
||||
.before(li.html(div));
|
||||
li.slideDown('fast');
|
||||
return;
|
||||
}
|
||||
}
|
||||
|
||||
// If we get here, this comment rates lower than all the others,
|
||||
// or it is the only comment in the list.
|
||||
ul.append(li.html(div));
|
||||
li.slideDown('fast');
|
||||
}
|
||||
|
||||
function acceptComment(id) {
|
||||
$.ajax({
|
||||
type: 'POST',
|
||||
url: opts.acceptCommentURL,
|
||||
data: {id: id},
|
||||
success: function(data, textStatus, request) {
|
||||
$('#cm' + id).fadeOut('fast');
|
||||
$('#cd' + id).removeClass('moderate');
|
||||
},
|
||||
error: function(request, textStatus, error) {
|
||||
showError('Oops, there was a problem accepting the comment.');
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
function deleteComment(id) {
|
||||
$.ajax({
|
||||
type: 'POST',
|
||||
url: opts.deleteCommentURL,
|
||||
data: {id: id},
|
||||
success: function(data, textStatus, request) {
|
||||
var div = $('#cd' + id);
|
||||
if (data == 'delete') {
|
||||
// Moderator mode: remove the comment and all children immediately
|
||||
div.slideUp('fast', function() {
|
||||
div.remove();
|
||||
});
|
||||
return;
|
||||
}
|
||||
// User mode: only mark the comment as deleted
|
||||
div
|
||||
.find('span.user-id:first')
|
||||
.text('[deleted]').end()
|
||||
.find('div.comment-text:first')
|
||||
.text('[deleted]').end()
|
||||
.find('#cm' + id + ', #dc' + id + ', #ac' + id + ', #rc' + id +
|
||||
', #sp' + id + ', #hp' + id + ', #cr' + id + ', #rl' + id)
|
||||
.remove();
|
||||
var comment = div.data('comment');
|
||||
comment.username = '[deleted]';
|
||||
comment.text = '[deleted]';
|
||||
div.data('comment', comment);
|
||||
},
|
||||
error: function(request, textStatus, error) {
|
||||
showError('Oops, there was a problem deleting the comment.');
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
function showProposal(id) {
|
||||
$('#sp' + id).hide();
|
||||
$('#hp' + id).show();
|
||||
$('#pr' + id).slideDown('fast');
|
||||
}
|
||||
|
||||
function hideProposal(id) {
|
||||
$('#hp' + id).hide();
|
||||
$('#sp' + id).show();
|
||||
$('#pr' + id).slideUp('fast');
|
||||
}
|
||||
|
||||
function showProposeChange(id) {
|
||||
$('#pc' + id).hide();
|
||||
$('#hc' + id).show();
|
||||
var textarea = $('#pt' + id);
|
||||
textarea.val(textarea.data('source'));
|
||||
$.fn.autogrow.resize(textarea[0]);
|
||||
textarea.slideDown('fast');
|
||||
}
|
||||
|
||||
function hideProposeChange(id) {
|
||||
$('#hc' + id).hide();
|
||||
$('#pc' + id).show();
|
||||
var textarea = $('#pt' + id);
|
||||
textarea.val('').removeAttr('disabled');
|
||||
textarea.slideUp('fast');
|
||||
}
|
||||
|
||||
function toggleCommentMarkupBox(id) {
|
||||
$('#mb' + id).toggle();
|
||||
}
|
||||
|
||||
/** Handle when the user clicks on a sort by link. */
|
||||
function handleReSort(link) {
|
||||
var classes = link.attr('class').split(/\s+/);
|
||||
for (var i=0; i<classes.length; i++) {
|
||||
if (classes[i] != 'sort-option') {
|
||||
by = classes[i].substring(2);
|
||||
}
|
||||
}
|
||||
setComparator();
|
||||
// Save/update the sortBy cookie.
|
||||
var expiration = new Date();
|
||||
expiration.setDate(expiration.getDate() + 365);
|
||||
document.cookie= 'sortBy=' + escape(by) +
|
||||
';expires=' + expiration.toUTCString();
|
||||
$('ul.comment-ul').each(function(index, ul) {
|
||||
var comments = getChildren($(ul), true);
|
||||
comments = sortComments(comments);
|
||||
appendComments(comments, $(ul).empty());
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Function to process a vote when a user clicks an arrow.
|
||||
*/
|
||||
function handleVote(link) {
|
||||
if (!opts.voting) {
|
||||
showError("You'll need to login to vote.");
|
||||
return;
|
||||
}
|
||||
|
||||
var id = link.attr('id');
|
||||
if (!id) {
|
||||
// Didn't click on one of the voting arrows.
|
||||
return;
|
||||
}
|
||||
// If it is an unvote, the new vote value is 0,
|
||||
// Otherwise it's 1 for an upvote, or -1 for a downvote.
|
||||
var value = 0;
|
||||
if (id.charAt(1) != 'u') {
|
||||
value = id.charAt(0) == 'u' ? 1 : -1;
|
||||
}
|
||||
// The data to be sent to the server.
|
||||
var d = {
|
||||
comment_id: id.substring(2),
|
||||
value: value
|
||||
};
|
||||
|
||||
// Swap the vote and unvote links.
|
||||
link.hide();
|
||||
$('#' + id.charAt(0) + (id.charAt(1) == 'u' ? 'v' : 'u') + d.comment_id)
|
||||
.show();
|
||||
|
||||
// The div the comment is displayed in.
|
||||
var div = $('div#cd' + d.comment_id);
|
||||
var data = div.data('comment');
|
||||
|
||||
// If this is not an unvote, and the other vote arrow has
|
||||
// already been pressed, unpress it.
|
||||
if ((d.value !== 0) && (data.vote === d.value * -1)) {
|
||||
$('#' + (d.value == 1 ? 'd' : 'u') + 'u' + d.comment_id).hide();
|
||||
$('#' + (d.value == 1 ? 'd' : 'u') + 'v' + d.comment_id).show();
|
||||
}
|
||||
|
||||
// Update the comments rating in the local data.
|
||||
data.rating += (data.vote === 0) ? d.value : (d.value - data.vote);
|
||||
data.vote = d.value;
|
||||
div.data('comment', data);
|
||||
|
||||
// Change the rating text.
|
||||
div.find('.rating:first')
|
||||
.text(data.rating + ' point' + (data.rating == 1 ? '' : 's'));
|
||||
|
||||
// Send the vote information to the server.
|
||||
$.ajax({
|
||||
type: "POST",
|
||||
url: opts.processVoteURL,
|
||||
data: d,
|
||||
error: function(request, textStatus, error) {
|
||||
showError('Oops, there was a problem casting that vote.');
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Open a reply form used to reply to an existing comment.
|
||||
*/
|
||||
function openReply(id) {
|
||||
// Swap out the reply link for the hide link
|
||||
$('#rl' + id).hide();
|
||||
$('#cr' + id).show();
|
||||
|
||||
// Add the reply li to the children ul.
|
||||
var div = $(renderTemplate(replyTemplate, {id: id})).hide();
|
||||
$('#cl' + id)
|
||||
.prepend(div)
|
||||
// Setup the submit handler for the reply form.
|
||||
.find('#rf' + id)
|
||||
.submit(function(event) {
|
||||
event.preventDefault();
|
||||
addComment($('#rf' + id));
|
||||
closeReply(id);
|
||||
})
|
||||
.find('input[type=button]')
|
||||
.click(function() {
|
||||
closeReply(id);
|
||||
});
|
||||
div.slideDown('fast', function() {
|
||||
$('#rf' + id).find('textarea').focus();
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Close the reply form opened with openReply.
|
||||
*/
|
||||
function closeReply(id) {
|
||||
// Remove the reply div from the DOM.
|
||||
$('#rd' + id).slideUp('fast', function() {
|
||||
$(this).remove();
|
||||
});
|
||||
|
||||
// Swap out the hide link for the reply link
|
||||
$('#cr' + id).hide();
|
||||
$('#rl' + id).show();
|
||||
}
|
||||
|
||||
/**
|
||||
* Recursively sort a tree of comments using the comp comparator.
|
||||
*/
|
||||
function sortComments(comments) {
|
||||
comments.sort(comp);
|
||||
$.each(comments, function() {
|
||||
this.children = sortComments(this.children);
|
||||
});
|
||||
return comments;
|
||||
}
|
||||
|
||||
/**
|
||||
* Get the children comments from a ul. If recursive is true,
|
||||
* recursively include childrens' children.
|
||||
*/
|
||||
function getChildren(ul, recursive) {
|
||||
var children = [];
|
||||
ul.children().children("[id^='cd']")
|
||||
.each(function() {
|
||||
var comment = $(this).data('comment');
|
||||
if (recursive)
|
||||
comment.children = getChildren($(this).find('#cl' + comment.id), true);
|
||||
children.push(comment);
|
||||
});
|
||||
return children;
|
||||
}
|
||||
|
||||
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|
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|
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|
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|
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Propose a change ▹\
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<img src="<%upArrow%>" />\
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|
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<a href="#" id="uu<%id%>" class="un vote" title="vote up">\
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<img src="<%upArrowPressed%>" />\
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</a>\
|
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</div>\
|
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<div class="arrow">\
|
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<a href="#" id="dv<%id%>" class="vote" title="vote down">\
|
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<img src="<%downArrow%>" id="da<%id%>" />\
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</a>\
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<a href="#" id="du<%id%>" class="un vote" title="vote down">\
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<img src="<%downArrowPressed%>" />\
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</a>\
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</div>\
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</div>\
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<div class="comment-content">\
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<p class="tagline comment">\
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<span class="user-id"><%username%></span>\
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<span class="delta"><%time.delta%></span>\
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</p>\
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<div class="comment-text comment"><#text#></div>\
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<p class="comment-opts comment">\
|
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<a href="#" class="reply hidden" id="rl<%id%>">reply ▹</a>\
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<a href="#" class="close-reply" id="cr<%id%>">reply ▿</a>\
|
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<a href="#" id="sp<%id%>" class="show-proposal">proposal ▹</a>\
|
||||
<a href="#" id="hp<%id%>" class="hide-proposal">proposal ▿</a>\
|
||||
<a href="#" id="dc<%id%>" class="delete-comment hidden">delete</a>\
|
||||
<span id="cm<%id%>" class="moderation hidden">\
|
||||
<a href="#" id="ac<%id%>" class="accept-comment">accept</a>\
|
||||
</span>\
|
||||
</p>\
|
||||
<pre class="proposal" id="pr<%id%>">\
|
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<#proposal_diff#>\
|
||||
</pre>\
|
||||
<ul class="comment-children" id="cl<%id%>"></ul>\
|
||||
</div>\
|
||||
<div class="clearleft"></div>\
|
||||
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||||
</div>';
|
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|
||||
var replyTemplate = '\
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||||
<li>\
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||||
<div class="reply-div" id="rd<%id%>">\
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<form id="rf<%id%>">\
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||||
<textarea name="comment" cols="80"></textarea>\
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<input type="submit" value="Add reply" />\
|
||||
<input type="button" value="Cancel" />\
|
||||
<input type="hidden" name="parent" value="<%id%>" />\
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||||
<input type="hidden" name="node" value="" />\
|
||||
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|
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|
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</li>';
|
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|
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$(document).ready(function() {
|
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|
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$(document).ready(function() {
|
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// add comment anchors for all paragraphs that are commentable
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// highlight search words in search results
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});
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// directly open comment window if requested
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@ -1,49 +1,90 @@
|
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|
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|
||||
<!DOCTYPE html>
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<html class="writer-html5" lang="en" data-content_root="./">
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<title>Acknowledgements — musrfit 1.9.9 documentation</title>
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<link rel="stylesheet" type="text/css" href="_static/pygments.css?v=fa44fd50" />
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<title>Acknowledgements — musrfit 1.9.5 documentation</title>
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<script src="_static/jquery.js?v=5d32c60e"></script>
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<link rel="stylesheet" href="_static/css/theme.css" type="text/css" />
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</a>
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<div class="version">
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1.9
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<li class="toctree-l1"><a class="reference internal" href="cite.html">How to Cite <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>?</a></li>
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<li class="toctree-l1"><a class="reference internal" href="tutorial.html">Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code></a></li>
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@ -61,73 +102,148 @@
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<li class="toctree-l1"><a class="reference internal" href="bugtracking.html">Bugtracking</a></li>
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
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<div itemprop="articleBody">
|
||||
|
||||
<section id="acknowledgements">
|
||||
<span id="acknowledgment"></span><span id="index-0"></span><h1>Acknowledgements<a class="headerlink" href="#acknowledgements" title="Link to this heading"></a></h1>
|
||||
<dl class="simple">
|
||||
<dt><strong>Bastian M. Wojek</strong></dt><dd><p>I am very much indebted to BMW for his rigorous testing of <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>, his many useful suggestions, contributions, and for the
|
||||
largest part of the user manual of <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> which makes it accessible to a broader audience! Many thanks Bastian!</p>
|
||||
</dd>
|
||||
<dt><strong>Uldis Locans</strong></dt><dd><p>I am very much indebted to Uldis work on <a class="reference internal" href="setup-dks.html#setup-dks"><span class="std std-ref">DKS</span></a> enabling the GPU support for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>. His kind, calm, and
|
||||
extremely competent way to deal with his projects as well as to deal with the chaos of physicists way to think is admirable. Many thanks Uldis!</p>
|
||||
</dd>
|
||||
<dt><strong>Zaher Salman</strong></dt><dd><p>Thanks for his beta-NMR and web-interface contributions to <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>!</p>
|
||||
</dd>
|
||||
<dt><strong>Robert Scheuermann</strong></dt><dd><p>Thanks for his constant contructive input on <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>!</p>
|
||||
</dd>
|
||||
<div class="section" id="acknowledgements">
|
||||
<span id="acknowledgment"></span><span id="index-0"></span><h1>Acknowledgements<a class="headerlink" href="#acknowledgements" title="Permalink to this headline">¶</a></h1>
|
||||
<dl class="docutils">
|
||||
<dt><strong>Bastian M. Wojek</strong></dt>
|
||||
<dd>I am very much indebted to BMW for his rigorous testing of <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>, his many useful suggestions, contributions, and for the
|
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<dt><strong>Uldis Locans</strong></dt>
|
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<dd>I am very much indebted to Uldis work on <a class="reference internal" href="setup-dks.html#setup-dks"><span class="std std-ref">DKS</span></a> enabling the GPU support for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>. His kind, calm, and
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<span id="index-0"></span><h1>any2many - a Universal μSR-file-format converter<a class="headerlink" href="#any2many-a-universal-mgrsr-file-format-converter" title="Link to this heading"></a></h1>
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<span id="index-0"></span><h1>any2many - a Universal μSR-file-format converter<a class="headerlink" href="#any2many-a-universal-mgrsr-file-format-converter" title="Permalink to this headline">¶</a></h1>
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<p><code class="docutils literal notranslate"><span class="pre">any2many</span></code> allows to convert most μSR-file-formats from one to the other.
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<li class="toctree-l1 current"><a class="current reference internal" href="#">How to Cite <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>?</a></li>
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<li class="toctree-l1"><a class="reference internal" href="tutorial.html">Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code></a></li>
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<section id="how-to-cite-musrfit">
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<span id="cite"></span><span id="index-0"></span><h1>How to Cite <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>?<a class="headerlink" href="#how-to-cite-musrfit" title="Link to this heading"></a></h1>
|
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<span id="cite"></span><span id="index-0"></span><h1>How to Cite <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>?<a class="headerlink" href="#how-to-cite-musrfit" title="Permalink to this headline">¶</a></h1>
|
||||
<p>Since quite some effort is going into the development and maintenance of the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> package, you should at least acknowledge it in your publication if you have used it to analyze your data. Even better of course is to cite it properly by the reference given beneath</p>
|
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<blockquote>
|
||||
<div><ul class="simple">
|
||||
<li><p>A. Suter, B.M. Wojek, “Musrfit: A Free Platform-Independent Framework for μSR Data Analysis”, Physics Procedia <strong>30</strong>, 69 (2012). <a class="reference external" href="http://dx.doi.org/10.1016/j.phpro.2012.04.042">http://dx.doi.org/10.1016/j.phpro.2012.04.042</a></p></li>
|
||||
<li>A. Suter, B.M. Wojek, “Musrfit: A Free Platform-Independent Framework for μSR Data Analysis”, Physics Procedia <strong>30</strong>, 69 (2012). <a class="reference external" href="http://dx.doi.org/10.1016/j.phpro.2012.04.042">http://dx.doi.org/10.1016/j.phpro.2012.04.042</a></li>
|
||||
</ul>
|
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</div></blockquote>
|
||||
<p>The GPU high speed <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> version is utilizing <code class="docutils literal notranslate"><span class="pre">DKS</span></code>. In case you are using this version, please also add the following citations</p>
|
||||
<blockquote>
|
||||
<div><ul class="simple">
|
||||
<li><p>A. Adelmann, U. Locans, A. Suter, “The Dynamic Kernel Scheduler—Part 1”, Computer Physics Communications <strong>207</strong>, 83 (2016). <a class="reference external" href="https://doi.org/10.1016/j.cpc.2016.05.013">https://doi.org/10.1016/j.cpc.2016.05.013</a></p></li>
|
||||
<li><p>U. Locans, <em>et al.</em>, “Real-time computation of parameter fitting and image reconstruction using graphical processing units”, Computer Physics Communications <strong>215</strong>, 71 (2017). <a class="reference external" href="https://doi.org/10.1016/j.cpc.2017.02.007">https://doi.org/10.1016/j.cpc.2017.02.007</a></p></li>
|
||||
<li><p>U.Locans and A.Suter, “Musrfit – Real Time Parameter Fitting Using GPUs”, JPS Conf. Proc. <em>21</em>, 011051 (2018). <a class="reference external" href="http://dx.doi.org/10.7566/JPSCP.21.011051">http://dx.doi.org/10.7566/JPSCP.21.011051</a></p></li>
|
||||
<li>A. Adelmann, U. Locans, A. Suter, “The Dynamic Kernel Scheduler—Part 1”, Computer Physics Communications <strong>207</strong>, 83 (2016). <a class="reference external" href="https://doi.org/10.1016/j.cpc.2016.05.013">https://doi.org/10.1016/j.cpc.2016.05.013</a></li>
|
||||
<li>U. Locans, <em>et al.</em>, “Real-time computation of parameter fitting and image reconstruction using graphical processing units”, Computer Physics Communications <strong>215</strong>, 71 (2017). <a class="reference external" href="https://doi.org/10.1016/j.cpc.2017.02.007">https://doi.org/10.1016/j.cpc.2017.02.007</a></li>
|
||||
<li>U.Locans and A.Suter, “Musrfit – Real Time Parameter Fitting Using GPUs”, JPS Conf. Proc. <em>21</em>, 011051 (2018). <a class="reference external" href="http://dx.doi.org/10.7566/JPSCP.21.011051">http://dx.doi.org/10.7566/JPSCP.21.011051</a></li>
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<section id="short-description-and-references-to-the-supported-file-formats">
|
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<span id="file-formats"></span><span id="index-0"></span><h1>Short description and references to the supported file-formats<a class="headerlink" href="#short-description-and-references-to-the-supported-file-formats" title="Link to this heading"></a></h1>
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<div class="section" id="short-description-and-references-to-the-supported-file-formats">
|
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<span id="file-formats"></span><span id="index-0"></span><h1>Short description and references to the supported file-formats<a class="headerlink" href="#short-description-and-references-to-the-supported-file-formats" title="Permalink to this headline">¶</a></h1>
|
||||
<p>Currently the following μSR and non-μSR file formats are supported (in alphabetic order):</p>
|
||||
<ul class="simple">
|
||||
<li><p>ascii (non-μSR): <a class="reference internal" href="#ascii-file-format"><span class="std std-ref">ASCII file format for non-uSR</span></a></p></li>
|
||||
<li><p>db (non-μSR): <a class="reference internal" href="#db-file-format"><span class="std std-ref">DB (triumf)</span></a></p></li>
|
||||
<li><p>dat (non-μSR): <a class="reference internal" href="#dat-file-format"><span class="std std-ref">DAT: CSV like data file</span></a></p></li>
|
||||
<li><p>mdu (μSR): <a class="reference internal" href="#mdu-file-format"><span class="std std-ref">MDU file format (PSI)</span></a></p></li>
|
||||
<li><p>mud (μSR): <a class="reference internal" href="#mud-file-format"><span class="std std-ref">MUon Data access file format (TRIUMF)</span></a></p></li>
|
||||
<li><p>musr-root (μSR): <a class="reference internal" href="musr-root.html#musrroot"><span class="std std-ref">MusrRoot - an Extensible Open File Format for uSR</span></a></p></li>
|
||||
<li><p>nexus (μSR): used to read NeXus files from ISIS (HDF4 and HDF5): <a class="reference internal" href="#nexus-file-format"><span class="std std-ref">NeXus</span></a></p></li>
|
||||
<li><p>psi-bin (μSR): <a class="reference internal" href="#psi-bin-file-format"><span class="std std-ref">PSI-BIN file format (PSI)</span></a></p></li>
|
||||
<li><p>root (μSR): specific version for LEM before 2012 <a class="reference internal" href="#root-file-format"><span class="std std-ref">LEM ROOT file format</span></a></p></li>
|
||||
<li><p>wkm (μSR): special ascii file format used in the past by the TU Braunschweig (outdated): <a class="reference internal" href="#wkm-file-format"><span class="std std-ref">WKM</span></a></p></li>
|
||||
<li>ascii (non-μSR): <a class="reference internal" href="#ascii-file-format"><span class="std std-ref">ASCII file format for non-uSR</span></a></li>
|
||||
<li>db (non-μSR): <a class="reference internal" href="#db-file-format"><span class="std std-ref">DB (triumf)</span></a></li>
|
||||
<li>dat (non-μSR): <a class="reference internal" href="#dat-file-format"><span class="std std-ref">DAT: CSV like data file</span></a></li>
|
||||
<li>mdu (μSR): <a class="reference internal" href="#mdu-file-format"><span class="std std-ref">MDU file format (PSI)</span></a></li>
|
||||
<li>mud (μSR): <a class="reference internal" href="#mud-file-format"><span class="std std-ref">MUon Data access file format (TRIUMF)</span></a></li>
|
||||
<li>musr-root (μSR): <a class="reference internal" href="musr-root.html#musrroot"><span class="std std-ref">MusrRoot - an Extensible Open File Format for uSR</span></a></li>
|
||||
<li>nexus (μSR): used to read NeXus files from ISIS (HDF4 and HDF5): <a class="reference internal" href="#nexus-file-format"><span class="std std-ref">NeXus</span></a></li>
|
||||
<li>psi-bin (μSR): <a class="reference internal" href="#psi-bin-file-format"><span class="std std-ref">PSI-BIN file format (PSI)</span></a></li>
|
||||
<li>root (μSR): specific version for LEM before 2012 <a class="reference internal" href="#root-file-format"><span class="std std-ref">LEM ROOT file format</span></a></li>
|
||||
<li>wkm (μSR): special ascii file format used in the past by the TU Braunschweig (outdated): <a class="reference internal" href="#wkm-file-format"><span class="std std-ref">WKM</span></a></li>
|
||||
</ul>
|
||||
<section id="ascii-file-format-for-non-mgrsr">
|
||||
<span id="ascii-file-format"></span><span id="index-1"></span><h2>ASCII file format for non-μSR<a class="headerlink" href="#ascii-file-format-for-non-mgrsr" title="Link to this heading"></a></h2>
|
||||
<div class="section" id="ascii-file-format-for-non-mgrsr">
|
||||
<span id="ascii-file-format"></span><span id="index-1"></span><h2>ASCII file format for non-μSR<a class="headerlink" href="#ascii-file-format-for-non-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>This for instance can be used to fit <span class="math notranslate nohighlight">\(1/\lambda^2 ~ \mathrm{vs} ~ T\)</span> to study gap properties of superconductors.
|
||||
Details about the gap-intergrals can be found in the memo <em>GapIntegrals.pdf</em> which can be found in the source code of musrfit
|
||||
under <musrfit-home-dir>/src/external/libGapIntegrals.</p>
|
||||
@ -180,9 +258,9 @@ If no error in y is present, the weighting in the fit will be equal.</p>
|
||||
<span class="mf">4.30518</span><span class="p">,</span> <span class="mf">1.35139</span><span class="p">,</span> <span class="mf">0.08</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
<section id="db-file-format-for-non-mgrsr">
|
||||
<span id="db-file-format"></span><span id="index-2"></span><h2>DB file format for non-μSR<a class="headerlink" href="#db-file-format-for-non-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="db-file-format-for-non-mgrsr">
|
||||
<span id="db-file-format"></span><span id="index-2"></span><h2>DB file format for non-μSR<a class="headerlink" href="#db-file-format-for-non-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>The DB file format is an <em>archaic</em> ascii file format from TRIUMF which is intended to be used to collect parameter summaries of various runs, which can be read directly by <a class="reference internal" href="mupp.html#mupp"><span class="std std-ref">mupp</span></a>.</p>
|
||||
<p>The DB file is organized in a couple of tags defining various properties, followed by the parameter data with its errors.
|
||||
Tags and is content are always separated by an empty line.
|
||||
@ -209,7 +287,7 @@ Unlike the other tags, here the list of names follow directly after the <strong>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">DATA</span> <span class="n">dataT</span> <span class="n">dataB</span> <span class="n">dataE</span> <span class="n">dataTr</span> <span class="o">...</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Next there will be a line with the tag <strong>\\-e</strong>, followed by</p>
|
||||
<p>Next there will be a line with the tag <strong>\-e</strong>, followed by</p>
|
||||
<p>The parameters are afterwards listed as</p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">param</span><span class="o">-</span><span class="n">name</span> <span class="o">=</span> <span class="n">val</span><span class="p">,</span> <span class="n">pos</span><span class="o">-</span><span class="n">err</span><span class="p">,</span> <span class="n">neg</span><span class="o">-</span><span class="n">err</span><span class="p">,</span>\
|
||||
</pre></div>
|
||||
@ -314,9 +392,9 @@ This might look like this (be aware of the comma!):</p>
|
||||
<span class="o">>></span> <span class="n">here</span> <span class="n">many</span> <span class="n">more</span> <span class="n">run</span> <span class="n">data</span> <span class="n">would</span> <span class="n">follow</span> <span class="o">...</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
<section id="dat-csv-like-file-format-for-non-mgrsr">
|
||||
<span id="dat-file-format"></span><span id="index-3"></span><h2>DAT: CSV like file format for non-μSR<a class="headerlink" href="#dat-csv-like-file-format-for-non-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="dat-csv-like-file-format-for-non-mgrsr">
|
||||
<span id="dat-file-format"></span><span id="index-3"></span><h2>DAT: CSV like file format for non-μSR<a class="headerlink" href="#dat-csv-like-file-format-for-non-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>This is typically used when exporting the parameter data from <strong>msr2data</strong> to be used in <strong>mupp</strong>, gnuplot, origin, or whatever parameter plotter you might use.
|
||||
The first line defines the parameter tags separated by spaces or tabs. If errors are available there are labeled be the ending <em>Err</em>.
|
||||
This is followed by the parameter values and its errors if present. A fill example looks like this:</p>
|
||||
@ -325,29 +403,29 @@ This is followed by the parameter values and its errors if present. A fill examp
|
||||
<span class="mi">200</span> <span class="mf">0.009</span> <span class="mf">99.49</span> <span class="mf">2.11668</span> <span class="mf">10.001</span> <span class="o">-</span><span class="mf">0.008</span> <span class="o">-</span><span class="mf">0.008</span> <span class="o">-</span><span class="mi">10</span> <span class="mf">0.1732</span> <span class="mf">0.0012</span> <span class="mf">0.0012</span> <span class="mf">0.0096</span> <span class="mf">0.0025</span> <span class="mf">0.0026</span> <span class="mf">28.88</span> <span class="mf">0.57</span> <span class="mf">0.57</span> <span class="mf">101.231</span> <span class="mf">0.03</span> <span class="mf">0.03</span> <span class="mi">0</span> <span class="mi">0</span> <span class="mi">0</span> <span class="mf">219.86</span> <span class="mf">0.27</span> <span class="mf">0.27</span> <span class="mf">2.749</span> <span class="mf">0.033</span> <span class="mf">0.033</span> <span class="o">-</span><span class="mf">88.87</span> <span class="mf">0.71</span> <span class="mf">0.71</span> <span class="mf">211.47</span> <span class="mf">0.26</span> <span class="mf">0.26</span> <span class="mf">2.791</span> <span class="mf">0.032</span> <span class="mf">0.032</span> <span class="o">-</span><span class="mf">178.48</span> <span class="mf">0.72</span> <span class="mf">0.71</span> <span class="mf">0.9678</span> <span class="mf">0.0017</span> <span class="mf">0.0017</span> <span class="mf">2.969</span> <span class="mf">0.033</span> <span class="mf">0.033</span> <span class="mf">90.94</span> <span class="mf">0.73</span> <span class="mf">0.73</span> <span class="mf">0.9608</span> <span class="mf">0.0017</span> <span class="mf">0.0017</span> <span class="mf">2.653</span> <span class="mf">0.032</span> <span class="mf">0.032</span> <span class="mf">20182.5</span> <span class="mi">20361</span> <span class="mf">0.991233</span> <span class="mi">11401</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
<section id="mdu-file-format-psi-for-mgrsr">
|
||||
<span id="mdu-file-format"></span><span id="index-4"></span><h2>MDU file format (psi) for μSR<a class="headerlink" href="#mdu-file-format-psi-for-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="mdu-file-format-psi-for-mgrsr">
|
||||
<span id="mdu-file-format"></span><span id="index-4"></span><h2>MDU file format (psi) for μSR<a class="headerlink" href="#mdu-file-format-psi-for-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>For details about the PSI-BIN/MDU file format from PSI see <a class="reference external" href="http://lmu.web.psi.ch/docu/manuals/bulk_manuals/software/Class_MuSR_PSI/index.html">Class_MuSR_PSI</a></p>
|
||||
</section>
|
||||
<section id="mud-file-format-triumf-for-mgrsr">
|
||||
<span id="mud-file-format"></span><span id="index-5"></span><h2>MUD file format (triumf) for μSR<a class="headerlink" href="#mud-file-format-triumf-for-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="mud-file-format-triumf-for-mgrsr">
|
||||
<span id="mud-file-format"></span><span id="index-5"></span><h2>MUD file format (triumf) for μSR<a class="headerlink" href="#mud-file-format-triumf-for-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>For details about the MUD file format from triumf see <a class="reference external" href="https://cmms.triumf.ca/mud/">MUon Data access</a> .</p>
|
||||
</section>
|
||||
<section id="musrroot-file-format-psi-for-mgrsr">
|
||||
<span id="musr-root-file-format"></span><h2>MusrRoot file format (PSI) for μSR<a class="headerlink" href="#musrroot-file-format-psi-for-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="musrroot-file-format-psi-for-mgrsr">
|
||||
<span id="musr-root-file-format"></span><h2>MusrRoot file format (PSI) for μSR<a class="headerlink" href="#musrroot-file-format-psi-for-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>For details see <a class="reference internal" href="musr-root.html#musrroot"><span class="std std-ref">MusrRoot - an Extensible Open File Format for uSR</span></a>.</p>
|
||||
</section>
|
||||
<section id="nexus-file-format-isis-for-mgrsr">
|
||||
<span id="nexus-file-format"></span><span id="index-6"></span><h2>NeXus file format (isis) for μSR<a class="headerlink" href="#nexus-file-format-isis-for-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="nexus-file-format-isis-for-mgrsr">
|
||||
<span id="nexus-file-format"></span><span id="index-6"></span><h2>NeXus file format (isis) for μSR<a class="headerlink" href="#nexus-file-format-isis-for-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>For details about the NeXus file format from ISIS (UK) see <a class="reference external" href="https://doi.org/10.1016/S0921-4526(02)01613-7">The application of the NeXus data format to ISIS muon data</a> . For a detailed list of available meta information and data see <a class="reference external" href="https://www.isis.stfc.ac.uk/Pages/nexus-definition-v27924.pdf">NeXus Instrument Definitions for ISIS muon Data</a> .</p>
|
||||
</section>
|
||||
<section id="psi-bin-file-format-psi-for-mgrsr">
|
||||
<span id="psi-bin-file-format"></span><span id="index-7"></span><h2>PSI-BIN file format (psi) for μSR<a class="headerlink" href="#psi-bin-file-format-psi-for-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="psi-bin-file-format-psi-for-mgrsr">
|
||||
<span id="psi-bin-file-format"></span><span id="index-7"></span><h2>PSI-BIN file format (psi) for μSR<a class="headerlink" href="#psi-bin-file-format-psi-for-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>For details about the PSI-BIN/MDU file format from PSI see <a class="reference external" href="http://lmu.web.psi.ch/docu/manuals/bulk_manuals/software/Class_MuSR_PSI/index.html">Class_MuSR_PSI</a>.</p>
|
||||
</section>
|
||||
<section id="root-file-format-psi-lem-before-2012-for-mgrsr">
|
||||
<span id="root-file-format"></span><span id="index-8"></span><h2>ROOT file format (psi/lem before 2012) for μSR<a class="headerlink" href="#root-file-format-psi-lem-before-2012-for-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
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<div class="section" id="root-file-format-psi-lem-before-2012-for-mgrsr">
|
||||
<span id="root-file-format"></span><span id="index-8"></span><h2>ROOT file format (psi/lem before 2012) for μSR<a class="headerlink" href="#root-file-format-psi-lem-before-2012-for-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>For details about the API of ROOT files can be here: <a class="reference external" href="https://root.cern/manual/root_files/">ROOT files</a>.
|
||||
The structure of the ROOT files (LEM, before 2012) looks like this:</p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">ROOT</span><span class="o">-</span><span class="n">file</span> <span class="o">--|</span>
|
||||
@ -379,9 +457,9 @@ The structure of the ROOT files (LEM, before 2012) looks like this:</p>
|
||||
<p>The detectors (20, 21, 22, and 23) are the detectors (Left, Top, Right, Bottom). These are post-pileup-corrected (PPC) histograms.</p>
|
||||
<p>The <code class="docutils literal notranslate"><span class="pre">SCAnaModule</span></code> contains various <strong>TF1H</strong> objects of slow control data of the run.</p>
|
||||
<p>The <code class="docutils literal notranslate"><span class="pre">RunSummary</span></code> is essentially an ascii dump, with summary information of the run.</p>
|
||||
</section>
|
||||
<section id="wkm-file-format-for-mgrsr">
|
||||
<span id="wkm-file-format"></span><span id="index-9"></span><h2>WKM file format for μSR<a class="headerlink" href="#wkm-file-format-for-mgrsr" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="wkm-file-format-for-mgrsr">
|
||||
<span id="wkm-file-format"></span><span id="index-9"></span><h2>WKM file format for μSR<a class="headerlink" href="#wkm-file-format-for-mgrsr" title="Permalink to this headline">¶</a></h2>
|
||||
<p>WKM is an obsolete ascii file format, originally introduced by people from the TU Braunschweig.
|
||||
It starts with a header which shows like this:</p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="o">-</span> <span class="n">WKM</span> <span class="n">data</span> <span class="n">file</span> <span class="n">converted</span> <span class="k">with</span> <span class="n">any2many</span>
|
||||
@ -401,36 +479,73 @@ It starts with a header which shows like this:</p>
|
||||
<p>The header ends with an empty line.</p>
|
||||
<p>The data are stored as following: there are always 10 bin-counts per line.
|
||||
Between detectors, there will be an empty line.</p>
|
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|
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|
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|
||||
<span id="msr2data"></span><span id="index-0"></span><h1>msr2data - A Program for Automatically Processing Multiple <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> msr Files<a class="headerlink" href="#msr2data-a-program-for-automatically-processing-multiple-musrfit-msr-files" title="Permalink to this headline">¶</a></h1>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">msr2data</span></code> (originally written by B. M. Wojek) is a program implemented in <code class="docutils literal notranslate"><span class="pre">C++</span></code>. Its purpose is
|
||||
to process multiple msr files (input files for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>) with the same parameters and summarize the fitting
|
||||
results either in a <em>TRIUMF DB</em> <a class="footnote-reference brackets" href="#f1" id="id1" role="doc-noteref"><span class="fn-bracket">[</span>1<span class="fn-bracket">]</span></a> or a <em>column ASCII</em> file. This allows essentially to</p>
|
||||
results either in a <em>TRIUMF DB</em> <a class="footnote-reference" href="#f1" id="id1">[1]</a> or a <em>column ASCII</em> file. This allows essentially to</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>Collect the fit parameters.</p></li>
|
||||
<li><p>Generate <em>new</em> input msr files based on old ones.</p></li>
|
||||
<li>Collect the fit parameters.</li>
|
||||
<li>Generate <em>new</em> input msr files based on old ones.</li>
|
||||
</ol>
|
||||
<aside class="footnote-list brackets">
|
||||
<aside class="footnote brackets" id="f1" role="doc-footnote">
|
||||
<span class="label"><span class="fn-bracket">[</span><a role="doc-backlink" href="#id1">1</a><span class="fn-bracket">]</span></span>
|
||||
<p>For an abridged description of this format see <a class="reference external" href="http://musr.org/xyfit/dbformat.html">here</a>. The DB files
|
||||
<table class="docutils footnote" frame="void" id="f1" rules="none">
|
||||
<colgroup><col class="label" /><col /></colgroup>
|
||||
<tbody valign="top">
|
||||
<tr><td class="label"><a class="fn-backref" href="#id1">[1]</a></td><td>For an abridged description of this format see <a class="reference external" href="http://musr.org/xyfit/dbformat.html">here</a>. The DB files
|
||||
produced by <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> can be viewed for instance with <a class="reference internal" href="mupp.html#mupp"><span class="std std-ref">mupp</span></a> or μView <a class="reference external" href="http://musr.org/muview/">see here</a>, however,
|
||||
they are not completely backward-compatible to the original <code class="docutils literal notranslate"><span class="pre">db</span> <span class="pre">language</span></code> since the parameter names can be longer than five or
|
||||
six characters! In order to establish this backward compatibility (if needed) the user has to ensure the correct length of the
|
||||
parameter names in the msr files!</p>
|
||||
</aside>
|
||||
</aside>
|
||||
<section id="basic-types-of-usage">
|
||||
<span id="msr2data-basic-usage"></span><h2>Basic Types of Usage<a class="headerlink" href="#basic-types-of-usage" title="Link to this heading"></a></h2>
|
||||
parameter names in the msr files!</td></tr>
|
||||
</tbody>
|
||||
</table>
|
||||
<div class="section" id="basic-types-of-usage">
|
||||
<span id="msr2data-basic-usage"></span><h2>Basic Types of Usage<a class="headerlink" href="#basic-types-of-usage" title="Permalink to this headline">¶</a></h2>
|
||||
<p>Apart from numerous <a class="reference internal" href="#msr2data-opt-param"><span class="std std-ref">optional parameters</span></a> that might be set, in principle there are four different ways of calling <code class="docutils literal notranslate"><span class="pre">msr2data</span></code>.
|
||||
These differ in how the list of runs which should be processed is supplied:</p>
|
||||
<dl class="simple">
|
||||
<dt><strong>msr2data <run> <extension> [optional parameters]</strong></dt><dd><p>A single run number.</p>
|
||||
</dd>
|
||||
<dt><strong>msr2data <firstRunNo> <lastRunNo> <extension> [optional parameters]</strong></dt><dd><p>An interval of run numbers is specified through the first and the last run number. The condition <code class="docutils literal notranslate"><span class="pre"><firstRunNo></span></code> < <code class="docutils literal notranslate"><span class="pre"><lastRunNo></span></code> is not necessary.</p>
|
||||
</dd>
|
||||
<dt><strong>msr2data [ <runList> ] <extension> [optional parameters]</strong></dt><dd><p>Where <code class="docutils literal notranslate"><span class="pre"><runList></span></code> is one or a combination of the following:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre"><run0>,</span> <span class="pre"><run1>,</span> <span class="pre"><run2>,</span> <span class="pre">...</span> <span class="pre"><runN></span></code> : run numbers, <em>e.g.</em> 123 124,</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre"><run0>-<runN></span></code> : a range, <em>e.g.</em> 123-125 -> 123 124 125,</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre"><run0>:<runN>:<step></span></code> : a sequence, <em>e.g.</em> 123:127:2 -> 123 125 127. <code class="docutils literal notranslate"><span class="pre"><step></span></code> has to be a positive integer.</p></li>
|
||||
<li><p>A <code class="docutils literal notranslate"><span class="pre"><runList></span></code> can also combine (1)-(3), <em>e.g.</em> 123 128-130 133, etc.</p></li>
|
||||
<dl class="docutils">
|
||||
<dt><strong>msr2data <run> <extension> [optional parameters]</strong></dt>
|
||||
<dd>A single run number.</dd>
|
||||
<dt><strong>msr2data <firstRunNo> <lastRunNo> <extension> [optional parameters]</strong></dt>
|
||||
<dd>An interval of run numbers is specified through the first and the last run number. The condition <code class="docutils literal notranslate"><span class="pre"><firstRunNo></span></code> < <code class="docutils literal notranslate"><span class="pre"><lastRunNo></span></code> is not necessary.</dd>
|
||||
<dt><strong>msr2data [ <runList> ] <extension> [optional parameters]</strong></dt>
|
||||
<dd><p class="first">Where <code class="docutils literal notranslate"><span class="pre"><runList></span></code> is one or a combination of the following:</p>
|
||||
<ol class="last arabic simple">
|
||||
<li><code class="docutils literal notranslate"><span class="pre"><run0>,</span> <span class="pre"><run1>,</span> <span class="pre"><run2>,</span> <span class="pre">...</span> <span class="pre"><runN></span></code> : run numbers, <em>e.g.</em> 123 124,</li>
|
||||
<li><code class="docutils literal notranslate"><span class="pre"><run0>-<runN></span></code> : a range, <em>e.g.</em> 123-125 -> 123 124 125,</li>
|
||||
<li><code class="docutils literal notranslate"><span class="pre"><run0>:<runN>:<step></span></code> : a sequence, <em>e.g.</em> 123:127:2 -> 123 125 127. <code class="docutils literal notranslate"><span class="pre"><step></span></code> has to be a positive integer.</li>
|
||||
<li>A <code class="docutils literal notranslate"><span class="pre"><runList></span></code> can also combine (1)-(3), <em>e.g.</em> 123 128-130 133, etc.</li>
|
||||
</ol>
|
||||
</dd>
|
||||
<dt><strong>msr2data <runListFileName> <extension> [optional parameters]</strong></dt><dd><p>An ASCII file containing a list of run numbers and optional external parameters is passed to <code class="docutils literal notranslate"><span class="pre">msr2data</span></code>. For the structure of the ASCII file
|
||||
see <a class="reference internal" href="#run-list-file-structure"><span class="std std-ref">below</span></a>.</p>
|
||||
</dd>
|
||||
<dt><strong>msr2data <runListFileName> <extension> [optional parameters]</strong></dt>
|
||||
<dd>An ASCII file containing a list of run numbers and optional external parameters is passed to <code class="docutils literal notranslate"><span class="pre">msr2data</span></code>. For the structure of the ASCII file
|
||||
see <a class="reference internal" href="#run-list-file-structure"><span class="std std-ref">below</span></a>.</dd>
|
||||
</dl>
|
||||
<p>All four basic types of calling <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> contain the <em>mandatory</em> file-name <code class="docutils literal notranslate"><span class="pre"><extension></span></code> passed right after the list of runs. The meaning of
|
||||
this <code class="docutils literal notranslate"><span class="pre"><extension></span></code> should become clear after giving examples for all four cases:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8472</span><span class="w"> </span>_tf_h13
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8472</span> _tf_h13
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>generates the DB file <code class="docutils literal notranslate"><span class="pre">out.db</span></code> (can be changed by using the -o option) from <code class="docutils literal notranslate"><span class="pre">8472_tf_h13.msr</span></code>.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8472</span><span class="w"> </span><span class="m">8474</span><span class="w"> </span>_tf_h13
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8472</span> <span class="m">8474</span> _tf_h13
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>generates the DB file <code class="docutils literal notranslate"><span class="pre">out.db</span></code> (can be changed by using the -o option) from <code class="docutils literal notranslate"><span class="pre">8472_tf_h13.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8473_tf_h13.msr</span></code>, and <code class="docutils literal notranslate"><span class="pre">8474_tf_h13.msr</span></code>.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="o">[</span><span class="m">8472</span><span class="w"> </span><span class="m">8470</span><span class="o">]</span><span class="w"> </span>_tf_h13
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="o">[</span><span class="m">8472</span> <span class="m">8470</span><span class="o">]</span> _tf_h13
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>generates the DB file <code class="docutils literal notranslate"><span class="pre">out.db</span></code> (can be changed by using the -o option) from <code class="docutils literal notranslate"><span class="pre">8472_tf_h13.msr</span></code> and <code class="docutils literal notranslate"><span class="pre">8470_tf_h13.msr</span></code>.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="o">[</span><span class="m">8470</span>:8474:2<span class="o">]</span><span class="w"> </span>_tf_h13
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="o">[</span><span class="m">8470</span>:8474:2<span class="o">]</span> _tf_h13
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>generates the DB file <code class="docutils literal notranslate"><span class="pre">out.db</span></code> (can be changed by using the -o option) from <code class="docutils literal notranslate"><span class="pre">8470_tf_h13.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8472_tf_h13.msr</span></code>, and <code class="docutils literal notranslate"><span class="pre">8474_tf_h13.msr</span></code>.</p>
|
||||
<section id="run-list-file-structure">
|
||||
<span id="id2"></span><h3>Run List File Structure<a class="headerlink" href="#run-list-file-structure" title="Link to this heading"></a></h3>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span>run.list<span class="w"> </span>_tf_h13
|
||||
<div class="section" id="run-list-file-structure">
|
||||
<span id="id2"></span><h3>Run List File Structure<a class="headerlink" href="#run-list-file-structure" title="Permalink to this headline">¶</a></h3>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data run.list _tf_h13
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>generates the DB file <code class="docutils literal notranslate"><span class="pre">out.db</span></code> (can be changed by using the -o option) from all runs listed in the ASCII file <code class="docutils literal notranslate"><span class="pre">run.list</span></code> in the working directory.
|
||||
@ -179,116 +258,118 @@ In this file it is also possible to include <em>external</em> parameters which s
|
||||
<p>It is allowed to add comments (with a preceding ‘#’) or empty lines to the run-list file.</p>
|
||||
<p>The following should be mentioned together with the above examples:</p>
|
||||
<ul>
|
||||
<li><p>The output files in the examples above are only newly created if they did <em>not</em> exist before invoking <code class="docutils literal notranslate"><span class="pre">msr2data</span></code>.
|
||||
If the files were already present the msr file data would be appended!</p></li>
|
||||
<li><p>If the files have been newly created, also the DB file header is written. If the files were present before, only
|
||||
<li><p class="first">The output files in the examples above are only newly created if they did <em>not</em> exist before invoking <code class="docutils literal notranslate"><span class="pre">msr2data</span></code>.
|
||||
If the files were already present the msr file data would be appended!</p>
|
||||
</li>
|
||||
<li><p class="first">If the files have been newly created, also the DB file header is written. If the files were present before, only
|
||||
the data blocks are appended. The output of the header can either be forced or completely suppressed with the <code class="docutils literal notranslate"><span class="pre">header</span></code>
|
||||
and <code class="docutils literal notranslate"><span class="pre">noheader</span></code> options as shall be seen later.</p></li>
|
||||
<li><p>If the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> output files do not have an <code class="docutils literal notranslate"><span class="pre"><extension></span></code> as specified above like <code class="docutils literal notranslate"><span class="pre">8472.msr</span></code> one has to call <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> like in the following example:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8472</span><span class="w"> </span><span class="m">8460</span><span class="w"> </span><span class="s2">""</span>
|
||||
and <code class="docutils literal notranslate"><span class="pre">noheader</span></code> options as shall be seen later.</p>
|
||||
</li>
|
||||
<li><p class="first">If the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> output files do not have an <code class="docutils literal notranslate"><span class="pre"><extension></span></code> as specified above like <code class="docutils literal notranslate"><span class="pre">8472.msr</span></code> one has to call <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> like in the following example:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8472</span> <span class="m">8460</span> <span class="s2">""</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</li>
|
||||
</ul>
|
||||
</section>
|
||||
</section>
|
||||
<section id="optional-parameters">
|
||||
<span id="msr2data-opt-param"></span><h2>Optional Parameters<a class="headerlink" href="#optional-parameters" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="optional-parameters">
|
||||
<span id="msr2data-opt-param"></span><h2>Optional Parameters<a class="headerlink" href="#optional-parameters" title="Permalink to this headline">¶</a></h2>
|
||||
<p>As mentioned already above there are some optional parameters which change the behavior of <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> and can be passed in any order. Here is a complete list:</p>
|
||||
<dl class="simple">
|
||||
<dt><strong>data</strong></dt><dd><p>The output file format is changed to a simple column ASCII file (default output file name: out.dat).</p>
|
||||
</dd>
|
||||
<dt><strong>new</strong></dt><dd><p>An existing output file is deleted before new information is written to it.</p>
|
||||
</dd>
|
||||
<dt><strong>header</strong></dt><dd><p>Force the output of the file header even if the output file was present before.</p>
|
||||
</dd>
|
||||
<dt><strong>noheader</strong></dt><dd><p>The output of the file header is suppressed—also if the output file is newly created.
|
||||
<dl class="docutils">
|
||||
<dt><strong>data</strong></dt>
|
||||
<dd>The output file format is changed to a simple column ASCII file (default output file name: out.dat).</dd>
|
||||
<dt><strong>new</strong></dt>
|
||||
<dd>An existing output file is deleted before new information is written to it.</dd>
|
||||
<dt><strong>header</strong></dt>
|
||||
<dd>Force the output of the file header even if the output file was present before.</dd>
|
||||
<dt><strong>noheader</strong></dt>
|
||||
<dd>The output of the file header is suppressed—also if the output file is newly created.
|
||||
If either both or none of the header options are given, <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> writes the file header only to new files
|
||||
and it solely appends the data blocks to an existing output file assuming that the header is present already.</p>
|
||||
</dd>
|
||||
<dt><strong>nosummary</strong></dt><dd><p>There will be no attempt to read additional information like the temperature or the applied magnetic field from
|
||||
the data files even if these information were present there.</p>
|
||||
</dd>
|
||||
<dt><strong>paramList <param></strong></dt><dd><p>option used to select the parameters which shall be exported. <code class="docutils literal notranslate"><span class="pre"><param></span></code> is a list of parameter numbers to be exported.
|
||||
and it solely appends the data blocks to an existing output file assuming that the header is present already.</dd>
|
||||
<dt><strong>nosummary</strong></dt>
|
||||
<dd>There will be no attempt to read additional information like the temperature or the applied magnetic field from
|
||||
the data files even if these information were present there.</dd>
|
||||
<dt><strong>paramList <param></strong></dt>
|
||||
<dd>option used to select the parameters which shall be exported. <code class="docutils literal notranslate"><span class="pre"><param></span></code> is a list of parameter numbers to be exported.
|
||||
Allowed lists are: <code class="docutils literal notranslate"><span class="pre"><startNo>-<endNo></span></code>, <em>e.g.</em> <code class="docutils literal notranslate"><span class="pre">1-16</span></code> will export parameters 1 to 16. Space separated numbers, <em>e.g.:</em> <code class="docutils literal notranslate"><span class="pre">1</span> <span class="pre">3</span> <span class="pre">5</span></code>.
|
||||
A combination of both is possible, <em>e.g.</em> <code class="docutils literal notranslate"><span class="pre">1-16</span> <span class="pre">19</span> <span class="pre">31</span> <span class="pre">62</span></code>, and so on.</p>
|
||||
</dd>
|
||||
<dt><strong>-o<outputFileName>, -o <outputFileName></strong></dt><dd><p>The processed data will be written to the file <code class="docutils literal notranslate"><span class="pre"><outputFileName></span></code> instead of the default <code class="docutils literal notranslate"><span class="pre">out.db</span></code> or <code class="docutils literal notranslate"><span class="pre">out.dat</span></code>.
|
||||
If <code class="docutils literal notranslate"><span class="pre"><outputFileName></span></code> is equal to none (case-insensitive) the parameter data are not appended to any output file.</p>
|
||||
</dd>
|
||||
<dt><strong>fit</strong></dt><dd><p>Additionally to the final data collection <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> will invoke <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> to fit the specified runs.
|
||||
All msr files are assumed to be present, none is newly generated!</p>
|
||||
</dd>
|
||||
<dt><strong>fit-<template>[!]</strong></dt><dd><p>Additionally to the final data collection <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> will generate msr files for the runs specified in the list
|
||||
A combination of both is possible, <em>e.g.</em> <code class="docutils literal notranslate"><span class="pre">1-16</span> <span class="pre">19</span> <span class="pre">31</span> <span class="pre">62</span></code>, and so on.</dd>
|
||||
<dt><strong>-o<outputFileName>, -o <outputFileName></strong></dt>
|
||||
<dd>The processed data will be written to the file <code class="docutils literal notranslate"><span class="pre"><outputFileName></span></code> instead of the default <code class="docutils literal notranslate"><span class="pre">out.db</span></code> or <code class="docutils literal notranslate"><span class="pre">out.dat</span></code>.
|
||||
If <code class="docutils literal notranslate"><span class="pre"><outputFileName></span></code> is equal to none (case-insensitive) the parameter data are not appended to any output file.</dd>
|
||||
<dt><strong>fit</strong></dt>
|
||||
<dd>Additionally to the final data collection <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> will invoke <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> to fit the specified runs.
|
||||
All msr files are assumed to be present, none is newly generated!</dd>
|
||||
<dt><strong>fit-<template>[!]</strong></dt>
|
||||
<dd>Additionally to the final data collection <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> will generate msr files for the runs specified in the list
|
||||
of runs and invoke <a class="reference internal" href="user-manual.html#musrfit"><span class="std std-ref">musrfit</span></a> for performing fits of the data. As template for the first run the file
|
||||
<code class="docutils literal notranslate"><span class="pre"><template><extension>.msr</span></code> (or if not available: <code class="docutils literal notranslate"><span class="pre"><template><extension>.mlog</span></code>) is used; the subsequent input
|
||||
files will be created using the msr output of the last processed runs (“chain fit”). However, if for all runs only
|
||||
the given template should be used one has to append an exclamation mark (<strong>!</strong>) to the <code class="docutils literal notranslate"><span class="pre"><template></span></code>.</p>
|
||||
</dd>
|
||||
<dt><strong>msr-<template></strong></dt><dd><p>The same as <code class="docutils literal notranslate"><span class="pre">fit-<template>[!]</span></code>, <em>without</em> calling <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> and the final data collection, <em>i.e.</em> only the msr files for the given runs are generated.</p>
|
||||
</dd>
|
||||
<dt><strong>-k</strong></dt><dd><p>If specified together with the <code class="docutils literal notranslate"><span class="pre">fit-<template></span></code> option, the <a class="reference internal" href="user-manual.html#musrfit"><span class="std std-ref">- -keep-mn2-output</span></a> option is passed to <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>.
|
||||
In the case no fits should be done, this option is ignored.</p>
|
||||
</dd>
|
||||
<dt><strong>-t</strong></dt><dd><p>In case this option is given additionally to the <code class="docutils literal notranslate"><span class="pre">fit-<template></span> <span class="pre">option</span></code>, <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> is called with
|
||||
the <a class="reference internal" href="user-manual.html#musrfit"><span class="std std-ref">- -title-from-data-file</span></a> option. If no fitting is done, this option is ignored.</p>
|
||||
</dd>
|
||||
the given template should be used one has to append an exclamation mark (<strong>!</strong>) to the <code class="docutils literal notranslate"><span class="pre"><template></span></code>.</dd>
|
||||
<dt><strong>msr-<template></strong></dt>
|
||||
<dd>The same as <code class="docutils literal notranslate"><span class="pre">fit-<template>[!]</span></code>, <em>without</em> calling <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> and the final data collection, <em>i.e.</em> only the msr files for the given runs are generated.</dd>
|
||||
<dt><strong>-k</strong></dt>
|
||||
<dd>If specified together with the <code class="docutils literal notranslate"><span class="pre">fit-<template></span></code> option, the <a class="reference internal" href="user-manual.html#musrfit"><span class="std std-ref">- -keep-mn2-output</span></a> option is passed to <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>.
|
||||
In the case no fits should be done, this option is ignored.</dd>
|
||||
<dt><strong>-t</strong></dt>
|
||||
<dd>In case this option is given additionally to the <code class="docutils literal notranslate"><span class="pre">fit-<template></span> <span class="pre">option</span></code>, <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> is called with
|
||||
the <a class="reference internal" href="user-manual.html#musrfit"><span class="std std-ref">- -title-from-data-file</span></a> option. If no fitting is done, this option is ignored.</dd>
|
||||
</dl>
|
||||
<p><strong>Examples:</strong></p>
|
||||
<p>In order to illustrate the usage of these parameters a few examples with explanations are given below:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8400</span><span class="w"> </span><span class="m">8460</span><span class="w"> </span>_tf_h13<span class="w"> </span>-oABC.db<span class="w"> </span>fit-8472
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8400</span> <span class="m">8460</span> _tf_h13 -oABC.db fit-8472
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Using <code class="docutils literal notranslate"><span class="pre">8472_tf_h13.msr</span></code> as first template, <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> generates subsequent msr input files <code class="docutils literal notranslate"><span class="pre">8400_tf_h13.msr</span></code> through <code class="docutils literal notranslate"><span class="pre">8460_tf_h13.msr</span></code>,
|
||||
calls <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> to perform a fit of these files and collects the results of the fits together with the DB header in the new file <code class="docutils literal notranslate"><span class="pre">ABC.db</span></code>.
|
||||
Additionally, some information about external parameters like the temperature will be passed to <code class="docutils literal notranslate"><span class="pre">ABC.db</span></code> if it is present in the data files.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="o">[</span><span class="m">8500</span><span class="w"> </span><span class="m">8502</span>-8504<span class="w"> </span><span class="m">8507</span><span class="o">]</span><span class="w"> </span>_zf<span class="w"> </span>fit-8472<span class="w"> </span>noheader<span class="w"> </span>nosummary<span class="w"> </span>-o<span class="w"> </span>DEF.db
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="o">[</span><span class="m">8500</span> <span class="m">8502</span>-8504 <span class="m">8507</span><span class="o">]</span> _zf fit-8472 noheader nosummary -o DEF.db
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Using <code class="docutils literal notranslate"><span class="pre">8472_zf.msr</span></code> as first template, <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> generates subsequent msr input files <code class="docutils literal notranslate"><span class="pre">8500_zf.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8502_zf.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8503_zf.msr</span></code>,
|
||||
<code class="docutils literal notranslate"><span class="pre">8504_zf.msr</span></code>, and <code class="docutils literal notranslate"><span class="pre">8507_zf.msr</span></code>, calls <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> to perform a fit of these files and collects the results of the fits in the file <code class="docutils literal notranslate"><span class="pre">DEF.db</span></code>
|
||||
<em>without</em> writing the DB file header or attempting to read additional information from the data files.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8595</span><span class="w"> </span><span class="m">8585</span><span class="w"> </span><span class="s2">""</span><span class="w"> </span>noheader<span class="w"> </span>fit-8472!<span class="w"> </span>-oGHI.dat<span class="w"> </span>data<span class="w"> </span>nosummary<span class="w"> </span>-k
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8595</span> <span class="m">8585</span> <span class="s2">""</span> noheader fit-8472! -oGHI.dat data nosummary -k
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Using <code class="docutils literal notranslate"><span class="pre">8472.msr</span></code> as template for all runs, <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> generates the msr input files <code class="docutils literal notranslate"><span class="pre">8595.msr</span></code> through <code class="docutils literal notranslate"><span class="pre">8585.msr</span></code>, calls <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> with
|
||||
the option <code class="docutils literal notranslate"><span class="pre">--keep-mn2-ouput</span></code> to perform a fit of these files and collects the results of the fits in the column-structured ASCII file <code class="docutils literal notranslate"><span class="pre">GHI.dat</span></code>
|
||||
<em>without</em> writing any file header or attempting to read additional information from the data files.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8472</span><span class="w"> </span><span class="m">8475</span><span class="w"> </span><span class="s2">""</span><span class="w"> </span>fit<span class="w"> </span>-o<span class="w"> </span>none
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8472</span> <span class="m">8475</span> <span class="s2">""</span> fit -o none
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Take the <em>given</em> msr files <code class="docutils literal notranslate"><span class="pre">8472.msr</span></code> through <code class="docutils literal notranslate"><span class="pre">8475.msr</span></code> and call <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> <em>without</em> finally summarizing the results.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8472</span><span class="w"> </span><span class="m">8475</span><span class="w"> </span>_tf_h13<span class="w"> </span>msr-8471!
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8472</span> <span class="m">8475</span> _tf_h13 msr-8471!
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Using <code class="docutils literal notranslate"><span class="pre">8471_tf_h13.msr</span></code> as template for all runs, <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> generates the msr input files <code class="docutils literal notranslate"><span class="pre">8472_tf_h13.msr</span></code> through <code class="docutils literal notranslate"><span class="pre">8475_tf_h13.msr</span></code>.
|
||||
<em>No fitting will be performed and no DB or ASCII output will be generated!</em></p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="o">[</span><span class="m">8472</span><span class="w"> </span><span class="m">8475</span>-8479<span class="o">]</span><span class="w"> </span>_tf_h13<span class="w"> </span>paramList<span class="w"> </span><span class="m">1</span>-16<span class="w"> </span>data<span class="w"> </span>-o<span class="w"> </span>bestData.dat
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="o">[</span><span class="m">8472</span> <span class="m">8475</span>-8479<span class="o">]</span> _tf_h13 paramList <span class="m">1</span>-16 data -o bestData.dat
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Will collect the parameters 1 to 16 from the msr-files <code class="docutils literal notranslate"><span class="pre">8472_tf_h13.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8475_tf_h13.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8476_tf_h13.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8477_tf_h13.msr</span></code>, <code class="docutils literal notranslate"><span class="pre">8478_tf_h13.msr</span></code>,
|
||||
and <code class="docutils literal notranslate"><span class="pre">8479_tf_h13.msr</span></code> and write these parameters into a column like output file <code class="docutils literal notranslate"><span class="pre">bestData.dat</span></code>.</p>
|
||||
</section>
|
||||
<section id="the-global-mode">
|
||||
<span id="index-1"></span><h2>The Global Mode<a class="headerlink" href="#the-global-mode" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="the-global-mode">
|
||||
<span id="index-1"></span><h2>The Global Mode<a class="headerlink" href="#the-global-mode" title="Permalink to this headline">¶</a></h2>
|
||||
<p>Apart from all the options described <a class="reference internal" href="#msr2data-opt-param"><span class="std std-ref">above</span></a> there is another program option: <strong>global</strong>.
|
||||
This option changes the general behavior of <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> in that way that instead of processing one msr file for each
|
||||
run it combines all specified runs in <em>one single msr file</em> with the possibility to define common parameters for all
|
||||
runs as well as run-specific parameters. When writing the obtained parameters to a DB file or a column-structured
|
||||
ASCII file that single msr file is read and the parameters valid for each run are extracted. The global option can be
|
||||
used in conjunction with any of the described invocations of <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> and together with all options stated <a class="reference internal" href="#msr2data-opt-param"><span class="std std-ref">above</span></a>.</p>
|
||||
<section id="file-generation">
|
||||
<h3>File Generation<a class="headerlink" href="#file-generation" title="Link to this heading"></a></h3>
|
||||
<div class="section" id="file-generation">
|
||||
<h3>File Generation<a class="headerlink" href="#file-generation" title="Permalink to this headline">¶</a></h3>
|
||||
<p>The general idea of this mode is to generate a global msr file on the basis of a working single-run msr file. For this
|
||||
purpose a single-run template containing information about common and run-specific parameters should be created. These
|
||||
parameters are identified through their parameter names:</p>
|
||||
<dl class="simple">
|
||||
<dt><strong>run-specific parameters</strong></dt><dd><p>these parameters are tagged with the current run number in the format <code class="docutils literal notranslate"><span class="pre">%0Xu</span></code>, <em>i.e.</em> <code class="docutils literal notranslate"><span class="pre">X</span></code> digits with leading zeros,
|
||||
<dl class="docutils">
|
||||
<dt><strong>run-specific parameters</strong></dt>
|
||||
<dd>these parameters are tagged with the current run number in the format <code class="docutils literal notranslate"><span class="pre">%0Xu</span></code>, <em>i.e.</em> <code class="docutils literal notranslate"><span class="pre">X</span></code> digits with leading zeros,
|
||||
at the end of the parameter name, <em>e.g.</em> for a 4-digit-formatted run number <code class="docutils literal notranslate"><span class="pre">alpha0123</span></code> if the run number was 123 or
|
||||
for a 8-digit-formatted run number <code class="docutils literal notranslate"><span class="pre">alpha00123456</span></code> if the run number was 123456. <code class="docutils literal notranslate"><span class="pre">X</span></code> has to be at least 4.</p>
|
||||
</dd>
|
||||
<dt><strong>common parameters</strong></dt><dd><p>all parameters that are not run specific</p>
|
||||
</dd>
|
||||
for a 8-digit-formatted run number <code class="docutils literal notranslate"><span class="pre">alpha00123456</span></code> if the run number was 123456. <code class="docutils literal notranslate"><span class="pre">X</span></code> has to be at least 4.</dd>
|
||||
<dt><strong>common parameters</strong></dt>
|
||||
<dd>all parameters that are not run specific</dd>
|
||||
</dl>
|
||||
<p>The <a class="reference internal" href="user-manual.html#msr-fitparameter-block"><span class="std std-ref">FITPARAMETER block</span></a> of an exemplary template file <code class="docutils literal notranslate"><span class="pre">8472_example.msr</span></code> could therefore look like:</p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">FITPARAMETER</span>
|
||||
@ -304,7 +385,7 @@ for a 8-digit-formatted run number <code class="docutils literal notranslate"><s
|
||||
<a class="reference internal" href="user-manual.html#msr-functions-block"><span class="std std-ref">FUNCTIONS</span></a> blocks. If however, those parameters are met, <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> will try to substitute them by mapped parameters
|
||||
and add them accordingly to the map contained in each <a class="reference internal" href="user-manual.html#msr-run-block"><span class="std std-ref">RUN block</span></a>.</p>
|
||||
<p>When <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> is called to generate a global msr file, <em>e.g.</em></p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8471</span><span class="w"> </span><span class="m">8470</span><span class="w"> </span>_example<span class="w"> </span>msr-8472<span class="w"> </span>global
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8471</span> <span class="m">8470</span> _example msr-8472 global
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>a new msr file <code class="docutils literal notranslate"><span class="pre">8471+global_example.msr</span></code> is created. As can be seen in the example, the name of the global msr file always starts with the
|
||||
@ -333,35 +414,35 @@ followed by copies of the parameters specific to each run (in the specified orde
|
||||
created — for each run as many as found for the template run.</p>
|
||||
<p>During this reorganization all the affected parameter occurrences are changed accordingly!</p>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>Please be aware of the fact that comments in the template msr file are <em>not</em> propagated to the newly generated global msr file!</p>
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">Please be aware of the fact that comments in the template msr file are <em>not</em> propagated to the newly generated global msr file!</p>
|
||||
</div>
|
||||
</section>
|
||||
<section id="parameter-extraction">
|
||||
<span id="index-2"></span><h3>Parameter Extraction<a class="headerlink" href="#parameter-extraction" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="parameter-extraction">
|
||||
<span id="index-2"></span><h3>Parameter Extraction<a class="headerlink" href="#parameter-extraction" title="Permalink to this headline">¶</a></h3>
|
||||
<p>After fitting some model to the specified data the fit parameters can be extracted from the global msr file to a DB or column-structured ASCII file;
|
||||
as usual this includes also parameters stored in the run data files or externally specified parameters given in a <a class="reference internal" href="#run-list-file-structure"><span class="std std-ref">run-list file</span></a>.
|
||||
In order to reach this goal the global msr file has to obey certain rules:</p>
|
||||
<ul class="simple">
|
||||
<li><p>The order of the parameters has to match the one described above, meaning the common parameters are listed first followed by
|
||||
<li>The order of the parameters has to match the one described above, meaning the common parameters are listed first followed by
|
||||
the same number of parameters specific to each run tagged by the according run numbers at the end of the parameter names and
|
||||
having the same order as the specified list of runs.</p></li>
|
||||
<li><p>The RUN blocks have to be ordered according to the list of runs to be processed.</p></li>
|
||||
having the same order as the specified list of runs.</li>
|
||||
<li>The RUN blocks have to be ordered according to the list of runs to be processed.</li>
|
||||
</ul>
|
||||
<p>Following these rules – which is achieved most easily by generating the global msr file using <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> as shown above – the parameters can be extracted <em>e.g.</em> like</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8471</span><span class="w"> </span><span class="m">8470</span><span class="w"> </span>_example<span class="w"> </span>global<span class="w"> </span>data<span class="w"> </span>-o<span class="w"> </span>globalFit.dat
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8471</span> <span class="m">8470</span> _example global data -o globalFit.dat
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>This will read in the file <code class="docutils literal notranslate"><span class="pre">8471+global_example.msr</span></code>, extract for each run all relevant parameters from the msr file as well as
|
||||
from the according data files (if available) and append all of them in columns to the ASCII file <code class="docutils literal notranslate"><span class="pre">globalFit.dat</span></code>.</p>
|
||||
</section>
|
||||
<section id="the-extended-global-mode">
|
||||
<span id="index-3"></span><h3>The Extended Global Mode<a class="headerlink" href="#the-extended-global-mode" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="the-extended-global-mode">
|
||||
<span id="index-3"></span><h3>The Extended Global Mode<a class="headerlink" href="#the-extended-global-mode" title="Permalink to this headline">¶</a></h3>
|
||||
<p>If a new global input file is generated, it is also possible to do an automatic pre-analysis for each single run using the specified template first;
|
||||
afterwards the run-specific parameters of these single-run msr files are collected into the global msr file. In special cases this might be useful
|
||||
to obtain a better set of starting values for the parameters, however, in most cases it will not replace the “manual review” of the generated global
|
||||
input file. The option is activated by choosing the keyword <strong>global+</strong>. For example</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8471</span><span class="w"> </span><span class="m">8470</span><span class="w"> </span>_example<span class="w"> </span>global+<span class="w"> </span>msr-8472
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8471</span> <span class="m">8470</span> _example global+ msr-8472
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Here, <code class="docutils literal notranslate"><span class="pre">8472_example.msr</span></code> is first used as template to generate the file <code class="docutils literal notranslate"><span class="pre">8471-OneRunFit_example.msr</span></code>, then <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> is called for it, the result
|
||||
@ -371,79 +452,115 @@ produced — including the fit results of the <code class="docutils literal notr
|
||||
explained before). The <strong>+[!]</strong> extension will be ignored, if no new global input file is generated.
|
||||
The single run msr files are <em>not</em> deleted at the moment. The information contained in them might be useful for some people. Of course the data can also
|
||||
be collected by <code class="docutils literal notranslate"><span class="pre">msr2data</span></code>. <em>E.g.</em> in order to produce a DB file <code class="docutils literal notranslate"><span class="pre">OneRunFits.db</span></code> one could call</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">8471</span><span class="w"> </span><span class="m">8470</span><span class="w"> </span>-OneRunFit_example<span class="w"> </span>-o<span class="w"> </span>OneRunFits.db
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">8471</span> <span class="m">8470</span> -OneRunFit_example -o OneRunFits.db
|
||||
</pre></div>
|
||||
</div>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>Please be aware that the program in this mode <em>always</em> generates new single-run msr files and <em>always</em> calls <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> for them. In case there are
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">Please be aware that the program in this mode <em>always</em> generates new single-run msr files and <em>always</em> calls <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> for them. In case there are
|
||||
already single-run fits present, these cannot be used in conjunction with this option. The program on purpose behaves in this way in order to ensure
|
||||
the file integrity and correct parameter order within these files.</p>
|
||||
</div>
|
||||
</section>
|
||||
</section>
|
||||
<section id="known-limitations">
|
||||
<h2>Known Limitations<a class="headerlink" href="#known-limitations" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="known-limitations">
|
||||
<h2>Known Limitations<a class="headerlink" href="#known-limitations" title="Permalink to this headline">¶</a></h2>
|
||||
<ul class="simple">
|
||||
<li><p>The indexing run number of the msr file has to be at the begin of every filename.</p></li>
|
||||
<li><p>Within the data file name the <code class="docutils literal notranslate"><span class="pre">RUN#</span></code> has the format <code class="docutils literal notranslate"><span class="pre">%0Xu</span></code>, <em>i.e.</em> <code class="docutils literal notranslate"><span class="pre">X</span></code> digits with leading zeros, and has to be the rightmost number given in this
|
||||
format in the file name. <code class="docutils literal notranslate"><span class="pre">X</span></code> has to be at least 4. The highest treatable run number is <span class="math notranslate nohighlight">\(2^{32}-1 = 4294967295\)</span>.</p></li>
|
||||
<li><p>In order to keep <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> working properly the msr files should only contain <em>one</em> STATISTIC block at the end of the file and <em>one</em> FITPARAMETER block
|
||||
right after the TITLE — <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> itself allows to have more creative msr files…</p></li>
|
||||
<li><p>The msr-file generation from a template takes only care of runs given on the <em>first</em> line of a <code class="docutils literal notranslate"><span class="pre">RUN</span> <span class="pre">block</span></code>. <a class="reference internal" href="user-manual.html#msr-addrun"><span class="std std-ref">ADDRUN</span></a> statements are simply
|
||||
<li>The indexing run number of the msr file has to be at the begin of every filename.</li>
|
||||
<li>Within the data file name the <code class="docutils literal notranslate"><span class="pre">RUN#</span></code> has the format <code class="docutils literal notranslate"><span class="pre">%0Xu</span></code>, <em>i.e.</em> <code class="docutils literal notranslate"><span class="pre">X</span></code> digits with leading zeros, and has to be the rightmost number given in this
|
||||
format in the file name. <code class="docutils literal notranslate"><span class="pre">X</span></code> has to be at least 4. The highest treatable run number is <span class="math notranslate nohighlight">\(2^{32}-1 = 4294967295\)</span>.</li>
|
||||
<li>In order to keep <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> working properly the msr files should only contain <em>one</em> STATISTIC block at the end of the file and <em>one</em> FITPARAMETER block
|
||||
right after the TITLE — <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> itself allows to have more creative msr files…</li>
|
||||
<li>The msr-file generation from a template takes only care of runs given on the <em>first</em> line of a <code class="docutils literal notranslate"><span class="pre">RUN</span> <span class="pre">block</span></code>. <a class="reference internal" href="user-manual.html#msr-addrun"><span class="std std-ref">ADDRUN</span></a> statements are simply
|
||||
copied! Since this is most probably <em>not</em> what one likes to do, it is suggested <em>not</em> to use the <code class="docutils literal notranslate"><span class="pre">fit-<template></span></code> and <code class="docutils literal notranslate"><span class="pre">msr-<template></span></code> options if
|
||||
ADDRUN statements were present in the template file.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">msr2data</span></code> will write only up to two successive empty lines in newly generated msr files. In case more subsequent empty lines are encountered in a template file,
|
||||
these are not copied! Actually, this measure is not a limitation but has been introduced to keep the msr files in a reasonable shape.</p></li>
|
||||
ADDRUN statements were present in the template file.</li>
|
||||
<li><code class="docutils literal notranslate"><span class="pre">msr2data</span></code> will write only up to two successive empty lines in newly generated msr files. In case more subsequent empty lines are encountered in a template file,
|
||||
these are not copied! Actually, this measure is not a limitation but has been introduced to keep the msr files in a reasonable shape.</li>
|
||||
</ul>
|
||||
</section>
|
||||
<section id="the-graphical-user-interface-for-msr2data-provided-by-musredit">
|
||||
<h2>The Graphical User Interface for msr2data Provided by musredit<a class="headerlink" href="#the-graphical-user-interface-for-msr2data-provided-by-musredit" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="the-graphical-user-interface-for-msr2data-provided-by-musredit">
|
||||
<h2>The Graphical User Interface for msr2data Provided by musredit<a class="headerlink" href="#the-graphical-user-interface-for-msr2data-provided-by-musredit" title="Permalink to this headline">¶</a></h2>
|
||||
<p><a class="reference internal" href="musredit.html#musredit-sec"><span class="std std-ref">musredit</span></a>, designed especially for the manipulation of <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> msr files and graphical front ends to <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>, offer an almost
|
||||
self-explanatory graphical user interface to <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> depicted below:</p>
|
||||
<img alt="_images/msr2data-GUI.svg" src="_images/msr2data-GUI.svg" />
|
||||
<ol class="arabic simple">
|
||||
<li><p>and 2. Choose one of the ways to specify your list of runs as described under <a class="reference internal" href="#msr2data-basic-usage"><span class="std std-ref">basic usage</span></a>.</p></li>
|
||||
<img alt="_images/msr2data-GUI.svg" src="_images/msr2data-GUI.svg" /><ol class="arabic simple">
|
||||
<li>and 2. Choose one of the ways to specify your list of runs as described under <a class="reference internal" href="#msr2data-basic-usage"><span class="std std-ref">basic usage</span></a>.</li>
|
||||
</ol>
|
||||
<ol class="arabic simple" start="3">
|
||||
<li><p>Give the file extension here, <em>e.g.</em> <code class="docutils literal notranslate"><span class="pre">_zf</span></code> for files like <code class="docutils literal notranslate"><span class="pre">8472_zf.msr</span></code>. If the files do not have an extension this
|
||||
field stays empty. <code class="docutils literal notranslate"><span class="pre">musredit</span></code> takes care of passing the “” to <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> as mentioned above.</p></li>
|
||||
<li><p>Activates the <code class="docutils literal notranslate"><span class="pre">fit-<template></span></code> option if <code class="docutils literal notranslate"><span class="pre"><template></span></code> is entered. In case the option <code class="docutils literal notranslate"><span class="pre">Chain</span> <span class="pre">Fit</span></code> is <em>not</em> set the
|
||||
<li>Give the file extension here, <em>e.g.</em> <code class="docutils literal notranslate"><span class="pre">_zf</span></code> for files like <code class="docutils literal notranslate"><span class="pre">8472_zf.msr</span></code>. If the files do not have an extension this
|
||||
field stays empty. <code class="docutils literal notranslate"><span class="pre">musredit</span></code> takes care of passing the “” to <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> as mentioned above.</li>
|
||||
<li>Activates the <code class="docutils literal notranslate"><span class="pre">fit-<template></span></code> option if <code class="docutils literal notranslate"><span class="pre"><template></span></code> is entered. In case the option <code class="docutils literal notranslate"><span class="pre">Chain</span> <span class="pre">Fit</span></code> is <em>not</em> set the
|
||||
given template will be used for the input-file generation for all runs to be fitted — otherwise the output of the first
|
||||
fit serves as template for the second and so on. The template field stays empty if <em>no</em> fits should be performed!</p></li>
|
||||
<li><p>Activates the <code class="docutils literal notranslate"><span class="pre">-o</span> <span class="pre"><outputFileName></span></code> option if <code class="docutils literal notranslate"><span class="pre"><outputFileName></span></code> is entered. If nothing is entered the default output file <code class="docutils literal notranslate"><span class="pre">out.db</span></code> or <code class="docutils literal notranslate"><span class="pre">out.dat</span></code> is used.</p></li>
|
||||
fit serves as template for the second and so on. The template field stays empty if <em>no</em> fits should be performed!</li>
|
||||
<li>Activates the <code class="docutils literal notranslate"><span class="pre">-o</span> <span class="pre"><outputFileName></span></code> option if <code class="docutils literal notranslate"><span class="pre"><outputFileName></span></code> is entered. If nothing is entered the default output file <code class="docutils literal notranslate"><span class="pre">out.db</span></code> or <code class="docutils literal notranslate"><span class="pre">out.dat</span></code> is used.</li>
|
||||
</ol>
|
||||
<p>The options tags correspond essentially to the description in <a class="reference internal" href="#msr2data-opt-param"><span class="std std-ref">optional parameters</span></a>.</p>
|
||||
</section>
|
||||
</section>
|
||||
</div>
|
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<p>© Copyright 2025, Andreas Suter.
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<span class="lastupdated">Last updated on Jun 07, 2025.
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© Copyright 2023, Andreas Suter.
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Last updated on Jun 24, 2024.
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<section id="mupp-mgrsr-parameter-plotter">
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<span id="mupp"></span><span id="index-0"></span><h1>mupp - μSR Parameter Plotter<a class="headerlink" href="#mupp-mgrsr-parameter-plotter" title="Link to this heading"></a></h1>
|
||||
<div class="section" id="mupp-mgrsr-parameter-plotter">
|
||||
<span id="mupp"></span><span id="index-0"></span><h1>mupp - μSR Parameter Plotter<a class="headerlink" href="#mupp-mgrsr-parameter-plotter" title="Permalink to this headline">¶</a></h1>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">mupp</span></code> is a little helper program which allows to quickly plot a collection of msr-file parameters,
|
||||
as for instance generated by <a class="reference internal" href="msr2data.html#msr2data"><span class="std std-ref">msr2data</span></a>. It can handle <code class="docutils literal notranslate"><span class="pre">db</span></code>- and <code class="docutils literal notranslate"><span class="pre">dat</span></code>-files.
|
||||
Also a collection of <code class="docutils literal notranslate"><span class="pre">msr</span></code>-files can be invoked. <code class="docutils literal notranslate"><span class="pre">mupp</span></code> is heavily inspired by μView (see
|
||||
@ -105,54 +184,64 @@ The <code class="docutils literal notranslate"><span class="pre">mupp</span></co
|
||||
A run is analyzed by a number of parameters (defined in the msr-files), and complemented by
|
||||
additional physical parameters as the temperature, magnetic field, implantation energy, etc.
|
||||
Hence parameters can be seen as vectors and can be plot against each other.</p>
|
||||
<section id="the-graphical-user-interface">
|
||||
<span id="index-1"></span><h2>The Graphical User Interface<a class="headerlink" href="#the-graphical-user-interface" title="Link to this heading"></a></h2>
|
||||
<div class="section" id="the-graphical-user-interface">
|
||||
<span id="index-1"></span><h2>The Graphical User Interface<a class="headerlink" href="#the-graphical-user-interface" title="Permalink to this headline">¶</a></h2>
|
||||
<p>A typical setting could look like this</p>
|
||||
<img alt="_images/mupp-gui-0.svg" src="_images/mupp-gui-0.svg" />
|
||||
<ol class="arabic">
|
||||
<li><p>shows the list of loaded collections. A collection is defined as <code class="docutils literal notranslate"><span class="pre">db</span></code>- or <code class="docutils literal notranslate"><span class="pre">dat</span></code>-file (typically the
|
||||
<img alt="_images/mupp-gui-0.svg" src="_images/mupp-gui-0.svg" /><ol class="arabic">
|
||||
<li><p class="first">shows the list of loaded collections. A collection is defined as <code class="docutils literal notranslate"><span class="pre">db</span></code>- or <code class="docutils literal notranslate"><span class="pre">dat</span></code>-file (typically the
|
||||
output from <a class="reference internal" href="msr2data.html#msr2data"><span class="std std-ref">msr2data</span></a>). If you call the open-dialog and select a collection of
|
||||
<code class="docutils literal notranslate"><span class="pre">msr</span></code>-files, <code class="docutils literal notranslate"><span class="pre">mupp</span></code> will call <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> and tries to generate a collection on-the-fly.</p></li>
|
||||
<li><p>in this list, the data-tags of the currently selected collection is presented. The data-tags can be
|
||||
<code class="docutils literal notranslate"><span class="pre">msr</span></code>-files, <code class="docutils literal notranslate"><span class="pre">mupp</span></code> will call <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> and tries to generate a collection on-the-fly.</p>
|
||||
</li>
|
||||
<li><p class="first">in this list, the data-tags of the currently selected collection is presented. The data-tags can be
|
||||
directly dragged over to the <code class="docutils literal notranslate"><span class="pre">x</span></code>- and <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis list. Another way is to select the data-tag
|
||||
wished and click <code class="docutils literal notranslate"><span class="pre">add</span> <span class="pre">X</span></code> to add the selected data-tag to the <code class="docutils literal notranslate"><span class="pre">x</span></code>-axis list. Analogous it is done
|
||||
for the <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">x</span></code>-axis list. The labels are followed by <code class="docutils literal notranslate"><span class="pre">(-X-)</span></code> where the number <code class="docutils literal notranslate"><span class="pre">X</span></code> corresponds to the
|
||||
selection it corresponds to. The numbering of the collection is as given in the collection list.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">y</span></code>-axis list. The labels are followed by <code class="docutils literal notranslate"><span class="pre">(-X-)</span></code> where the number <code class="docutils literal notranslate"><span class="pre">X</span></code> corresponds to the
|
||||
selection it corresponds to. The numbering of the collection is as given in the collection list.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">add</span> <span class="pre">X</span></code> allows to add the currently selected data-tag to the <code class="docutils literal notranslate"><span class="pre">x</span></code>-axis list.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">add</span> <span class="pre">Y</span></code> allows to add the currently selected data-tag to the <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis list.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">remove</span> <span class="pre">X</span></code> will remove the selected <code class="docutils literal notranslate"><span class="pre">x</span></code>-axis tag.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">remove</span> <span class="pre">Y</span></code> will remove the selected <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis tag.</p></li>
|
||||
<li><p>Often one would like to compare trends of different settings. In the above example each collections
|
||||
for the <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis.</p>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">x</span></code>-axis list. The labels are followed by <code class="docutils literal notranslate"><span class="pre">(-X-)</span></code> where the number <code class="docutils literal notranslate"><span class="pre">X</span></code> corresponds to the
|
||||
selection it corresponds to. The numbering of the collection is as given in the collection list.</p>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">y</span></code>-axis list. The labels are followed by <code class="docutils literal notranslate"><span class="pre">(-X-)</span></code> where the number <code class="docutils literal notranslate"><span class="pre">X</span></code> corresponds to the
|
||||
selection it corresponds to. The numbering of the collection is as given in the collection list.</p>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">add</span> <span class="pre">X</span></code> allows to add the currently selected data-tag to the <code class="docutils literal notranslate"><span class="pre">x</span></code>-axis list.</p>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">add</span> <span class="pre">Y</span></code> allows to add the currently selected data-tag to the <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis list.</p>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">remove</span> <span class="pre">X</span></code> will remove the selected <code class="docutils literal notranslate"><span class="pre">x</span></code>-axis tag.</p>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">remove</span> <span class="pre">Y</span></code> will remove the selected <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis tag.</p>
|
||||
</li>
|
||||
<li><p class="first">Often one would like to compare trends of different settings. In the above example each collections
|
||||
holds an energy scans for a given temperature. Each collection is measured at a different temperature.
|
||||
Now, instead of adding <code class="docutils literal notranslate"><span class="pre">x</span></code>- and <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis tags for each collection, you can do the following:
|
||||
you add <code class="docutils literal notranslate"><span class="pre">x</span></code>- and <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis data-tags for the first collection. Afterwards you select all the other
|
||||
collections of interest and click on <code class="docutils literal notranslate"><span class="pre">Add</span> <span class="pre">Ditto</span></code>. <code class="docutils literal notranslate"><span class="pre">mupp</span></code> will then add the corresponding
|
||||
<code class="docutils literal notranslate"><span class="pre">x</span></code>- and <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis data-tags accordingly. This is less error prone and quicker!</p></li>
|
||||
<li><p>Clicking the <code class="docutils literal notranslate"><span class="pre">Plot</span></code> button will invoke <code class="docutils literal notranslate"><span class="pre">mupp_plot</span></code> (a <code class="docutils literal notranslate"><span class="pre">ROOT</span></code> based application) which will
|
||||
present the data, as shown here</p>
|
||||
<a class="reference internal image-reference" href="_images/mupp-plot-0.svg"><img alt="_images/mupp-plot-0.svg" src="_images/mupp-plot-0.svg" style="height: 600px;" />
|
||||
</a>
|
||||
<code class="docutils literal notranslate"><span class="pre">x</span></code>- and <code class="docutils literal notranslate"><span class="pre">y</span></code>-axis data-tags accordingly. This is less error prone and quicker!</p>
|
||||
</li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">Remove</span> <span class="pre">Collection</span></code>: will remove the selected collection</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">Refresh</span> <span class="pre">Collection</span></code>: will reload the collection (<code class="docutils literal notranslate"><span class="pre">db</span></code>- or <code class="docutils literal notranslate"><span class="pre">dat</span></code>-file). This is often useful
|
||||
during beamtime where the collection is growing run-by-run.</p></li>
|
||||
<li><p>Command history window.</p></li>
|
||||
<li><p>This is the script command line. Currently it allows to perform the tasks without mouse gambling.
|
||||
<li><p class="first">Clicking the <code class="docutils literal notranslate"><span class="pre">Plot</span></code> button will invoke <code class="docutils literal notranslate"><span class="pre">mupp_plot</span></code> (a <code class="docutils literal notranslate"><span class="pre">ROOT</span></code> based application) which will
|
||||
present the data, as shown here</p>
|
||||
<a class="reference internal image-reference" href="_images/mupp-plot-0.svg"><img alt="_images/mupp-plot-0.svg" height="600px" src="_images/mupp-plot-0.svg" /></a>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">Remove</span> <span class="pre">Collection</span></code>: will remove the selected collection</p>
|
||||
</li>
|
||||
<li><p class="first"><code class="docutils literal notranslate"><span class="pre">Refresh</span> <span class="pre">Collection</span></code>: will reload the collection (<code class="docutils literal notranslate"><span class="pre">db</span></code>- or <code class="docutils literal notranslate"><span class="pre">dat</span></code>-file). This is often useful
|
||||
during beamtime where the collection is growing run-by-run.</p>
|
||||
</li>
|
||||
<li><p class="first">Command history window.</p>
|
||||
</li>
|
||||
<li><p class="first">This is the script command line. Currently it allows to perform the tasks without mouse gambling.
|
||||
In the future much more commands are planed. See the <code class="docutils literal notranslate"><span class="pre">Help</span> <span class="pre">/</span> <span class="pre">Cmd's</span></code> for the currently available
|
||||
commands.</p></li>
|
||||
commands.</p>
|
||||
</li>
|
||||
</ol>
|
||||
<section id="define-variable-dialog">
|
||||
<h3>Define Variable Dialog<a class="headerlink" href="#define-variable-dialog" title="Link to this heading"></a></h3>
|
||||
<img alt="_images/mupp-add-var.svg" src="_images/mupp-add-var.svg" />
|
||||
<ol class="arabic simple">
|
||||
<li><p>Variable text edit window.</p></li>
|
||||
<li><p>Collection link window.</p></li>
|
||||
<li><p>Shows the parameters of the selected collection.</p></li>
|
||||
<li><p>Check if the variable/error variable from the edit window is valid.</p></li>
|
||||
<li><p>Add the variable to the selected collection(s) if the parsing is successful.</p></li>
|
||||
<div class="section" id="define-variable-dialog">
|
||||
<h3>Define Variable Dialog<a class="headerlink" href="#define-variable-dialog" title="Permalink to this headline">¶</a></h3>
|
||||
<img alt="_images/mupp-add-var.svg" src="_images/mupp-add-var.svg" /><ol class="arabic simple">
|
||||
<li>Variable text edit window.</li>
|
||||
<li>Collection link window.</li>
|
||||
<li>Shows the parameters of the selected collection.</li>
|
||||
<li>Check if the variable/error variable from the edit window is valid.</li>
|
||||
<li>Add the variable to the selected collection(s) if the parsing is successful.</li>
|
||||
</ol>
|
||||
<p>A variable defined here is a mathematical expression defined by parameters of loaded collections.
|
||||
Since a parameter also has an associated error, also newly defined variables <strong>always</strong> need
|
||||
@ -160,47 +249,48 @@ to be defined together with a corresponding error variable. If the name of a var
|
||||
as <code class="docutils literal notranslate"><span class="pre">SigmaSC_10</span></code> (see the above snapshot), the error variable need to be named as <code class="docutils literal notranslate"><span class="pre">SigmaSC_10Err</span></code>.</p>
|
||||
<p>Currently the following mathematical functions are defined: <code class="docutils literal notranslate"><span class="pre">max</span></code>, <code class="docutils literal notranslate"><span class="pre">min</span></code>, <code class="docutils literal notranslate"><span class="pre">abs</span></code>, <code class="docutils literal notranslate"><span class="pre">sin</span></code>, <code class="docutils literal notranslate"><span class="pre">cos</span></code>,
|
||||
<code class="docutils literal notranslate"><span class="pre">tan</span></code>, <code class="docutils literal notranslate"><span class="pre">exp</span></code>, <code class="docutils literal notranslate"><span class="pre">log</span></code>, <code class="docutils literal notranslate"><span class="pre">ln</span></code>, <code class="docutils literal notranslate"><span class="pre">pow</span></code>.</p>
|
||||
</section>
|
||||
</section>
|
||||
<section id="the-scripting-interface">
|
||||
<span id="index-2"></span><h2>The Scripting Interface<a class="headerlink" href="#the-scripting-interface" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="the-scripting-interface">
|
||||
<span id="index-2"></span><h2>The Scripting Interface<a class="headerlink" href="#the-scripting-interface" title="Permalink to this headline">¶</a></h2>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">mupp</span></code> can also be operated in a scripting like manner. The use cases are plot updates during run time,
|
||||
or web-based interaction which requests figures. A script is invoked by the command line option <code class="docutils literal notranslate"><span class="pre">-s</span></code> (see
|
||||
<a class="reference internal" href="#mupp-usage"><span class="std std-ref">mupp command line summary</span></a>. Currently the following scripting commands are available:</p>
|
||||
<dl>
|
||||
<dt><strong>loadPath <dir></strong></dt><dd><p>set the load path to <code class="docutils literal notranslate"><span class="pre"><dir></span></code>. Bash variables like $HOME are accepted. This is the path where to look for collection files (<code class="docutils literal notranslate"><span class="pre">db</span></code>- and <code class="docutils literal notranslate"><span class="pre">dat</span></code>-files).</p>
|
||||
</dd>
|
||||
<dt><strong>load <coll></strong></dt><dd><p>will load the collection <code class="docutils literal notranslate"><span class="pre"><coll></span></code>.</p>
|
||||
</dd>
|
||||
<dt><strong>selectAll</strong></dt><dd><p>will select all loaded collections. This means every plot of variable x/y will be carried out to <em>ALL</em> collections.</p>
|
||||
</dd>
|
||||
<dt><strong>select <nn></strong></dt><dd><p>selects collection <code class="docutils literal notranslate"><span class="pre"><nn></span></code>, where <code class="docutils literal notranslate"><span class="pre"><nn></span></code> is either the <em>number</em> of the collections, or its <em>name</em>, <em>e.g.</em>
|
||||
select YBCO-40nm-T5K-FC150mT-Escan.db.</p>
|
||||
</dd>
|
||||
<dt><strong>x <label></strong></dt><dd><p>add <code class="docutils literal notranslate"><span class="pre"><label></span></code> as a <em>x</em>-variable. Only <em>one</em> is allowed.</p>
|
||||
</dd>
|
||||
<dt><strong>y <label(s)></strong></dt><dd><p>add <code class="docutils literal notranslate"><span class="pre"><label(s)></span></code> as <em>y</em>-variable. <em>Multiple</em> labels are possible.</p>
|
||||
</dd>
|
||||
<dt><strong>norm</strong></dt><dd><p>this will normalize all the <em>y</em>-variables by their maximum.</p>
|
||||
</dd>
|
||||
<dt><strong>savePath <dir></strong></dt><dd><p>set the save path to <code class="docutils literal notranslate"><span class="pre"><dir></span></code>. The place where the macros, and/or the plot output will be saved.</p>
|
||||
</dd>
|
||||
<dt><strong>plot <fln></strong></dt><dd><p>where <code class="docutils literal notranslate"><span class="pre"><fln></span></code> is the file name with extension under which the plot should be saved.</p>
|
||||
</dd>
|
||||
<dt><strong>macro <fln></strong></dt><dd><p>where <code class="docutils literal notranslate"><span class="pre"><fln></span></code> is the file name under which the root macro should be saved.</p>
|
||||
</dd>
|
||||
<dt><strong>var <var_name> = <expr></strong></dt><dd><p>defines a variable.
|
||||
<dl class="docutils">
|
||||
<dt><strong>loadPath <dir></strong></dt>
|
||||
<dd>set the load path to <code class="docutils literal notranslate"><span class="pre"><dir></span></code>. Bash variables like $HOME are accepted. This is the path where to look for collection files (<code class="docutils literal notranslate"><span class="pre">db</span></code>- and <code class="docutils literal notranslate"><span class="pre">dat</span></code>-files).</dd>
|
||||
<dt><strong>load <coll></strong></dt>
|
||||
<dd>will load the collection <code class="docutils literal notranslate"><span class="pre"><coll></span></code>.</dd>
|
||||
<dt><strong>selectAll</strong></dt>
|
||||
<dd>will select all loaded collections. This means every plot of variable x/y will be carried out to <em>ALL</em> collections.</dd>
|
||||
<dt><strong>select <nn></strong></dt>
|
||||
<dd>selects collection <code class="docutils literal notranslate"><span class="pre"><nn></span></code>, where <code class="docutils literal notranslate"><span class="pre"><nn></span></code> is either the <em>number</em> of the collections, or its <em>name</em>, <em>e.g.</em>
|
||||
select YBCO-40nm-T5K-FC150mT-Escan.db.</dd>
|
||||
<dt><strong>x <label></strong></dt>
|
||||
<dd>add <code class="docutils literal notranslate"><span class="pre"><label></span></code> as a <em>x</em>-variable. Only <em>one</em> is allowed.</dd>
|
||||
<dt><strong>y <label(s)></strong></dt>
|
||||
<dd>add <code class="docutils literal notranslate"><span class="pre"><label(s)></span></code> as <em>y</em>-variable. <em>Multiple</em> labels are possible.</dd>
|
||||
<dt><strong>norm</strong></dt>
|
||||
<dd>this will normalize all the <em>y</em>-variables by their maximum.</dd>
|
||||
<dt><strong>savePath <dir></strong></dt>
|
||||
<dd>set the save path to <code class="docutils literal notranslate"><span class="pre"><dir></span></code>. The place where the macros, and/or the plot output will be saved.</dd>
|
||||
<dt><strong>plot <fln></strong></dt>
|
||||
<dd>where <code class="docutils literal notranslate"><span class="pre"><fln></span></code> is the file name with extension under which the plot should be saved.</dd>
|
||||
<dt><strong>macro <fln></strong></dt>
|
||||
<dd>where <code class="docutils literal notranslate"><span class="pre"><fln></span></code> is the file name under which the root macro should be saved.</dd>
|
||||
<dt><strong>var <var_name> = <expr></strong></dt>
|
||||
<dd><p class="first">defines a variable.
|
||||
<expr> is a mathematical expression where collection variables are addressed
|
||||
via the ‘$’, e.g. <code class="docutils literal notranslate"><span class="pre">dataT</span></code> is addressed by <code class="docutils literal notranslate"><span class="pre">$dataT</span></code>, etc. An example:</p>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">var</span> <span class="pre">invT</span> <span class="pre">=</span> <span class="pre">1000.0</span> <span class="pre">/</span> <span class="pre">$dataT</span></code></p>
|
||||
<p>Each variable has to be accompanied by its error variable. An error variable
|
||||
is defined by the <code class="docutils literal notranslate"><span class="pre"><var_name></span></code> followed by <code class="docutils literal notranslate"><span class="pre">Err</span></code>
|
||||
For the above example the error variable is</p>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">var</span> <span class="pre">invTErr</span> <span class="pre">=</span> <span class="pre">$invT</span> <span class="pre">*</span> <span class="pre">$dataTErr</span> <span class="pre">/</span> <span class="pre">$dataT</span></code></p>
|
||||
</dd>
|
||||
<dt><strong>col <nn> : <var_name></strong></dt><dd><p>links <var_name> to the collection <nn>, where <nn> is the number of the
|
||||
collection as defined by the order of load, starting with 0.</p>
|
||||
<p class="last"><code class="docutils literal notranslate"><span class="pre">var</span> <span class="pre">invTErr</span> <span class="pre">=</span> <span class="pre">$invT</span> <span class="pre">*</span> <span class="pre">$dataTErr</span> <span class="pre">/</span> <span class="pre">$dataT</span></code></p>
|
||||
</dd>
|
||||
<dt><strong>col <nn> : <var_name></strong></dt>
|
||||
<dd>links <var_name> to the collection <nn>, where <nn> is the number of the
|
||||
collection as defined by the order of load, starting with 0.</dd>
|
||||
</dl>
|
||||
<p>An example script file <code class="docutils literal notranslate"><span class="pre">sigmaSC-vs-temp.txt</span></code> might look like this:</p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span># This is a comment
|
||||
@ -248,9 +338,9 @@ macro SigmaSCVsTemp.C
|
||||
# end
|
||||
</pre></div>
|
||||
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|
||||
</section>
|
||||
<section id="the-usage-summary">
|
||||
<span id="mupp-usage"></span><span id="index-3"></span><h2>The Usage Summary<a class="headerlink" href="#the-usage-summary" title="Link to this heading"></a></h2>
|
||||
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|
||||
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|
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<span id="mupp-usage"></span><span id="index-3"></span><h2>The Usage Summary<a class="headerlink" href="#the-usage-summary" title="Permalink to this headline">¶</a></h2>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span>usage: mupp [OPTIONS] [[--path <fit-param-path>] <fit-param-file-names>]
|
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|
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|
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@ -294,36 +384,73 @@ SCRIPT COMMANDS:
|
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<li class="breadcrumb-item active">Setting up <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> / <code class="docutils literal notranslate"><span class="pre">DKS</span></code>: High Speed Fitting with GPU’s</li>
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<li>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> / <code class="docutils literal notranslate"><span class="pre">DKS</span></code>: High Speed Fitting with GPU’s</li>
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
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<section id="setting-up-musrfit-dks-high-speed-fitting-with-gpu-s">
|
||||
<span id="setup-dks"></span><span id="index-0"></span><h1>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> / <code class="docutils literal notranslate"><span class="pre">DKS</span></code>: High Speed Fitting with GPU’s<a class="headerlink" href="#setting-up-musrfit-dks-high-speed-fitting-with-gpu-s" title="Link to this heading"></a></h1>
|
||||
<div class="section" id="setting-up-musrfit-dks-high-speed-fitting-with-gpu-s">
|
||||
<span id="setup-dks"></span><span id="index-0"></span><h1>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> / <code class="docutils literal notranslate"><span class="pre">DKS</span></code>: High Speed Fitting with GPU’s<a class="headerlink" href="#setting-up-musrfit-dks-high-speed-fitting-with-gpu-s" title="Permalink to this headline">¶</a></h1>
|
||||
<p>In the years 2016/2017 we explored ways to speed up current fitting frameworks, especially <code class="docutils literal notranslate"><span class="pre">musrfit.</span></code>
|
||||
This allows now to analyze histogram sets of high field spectrometers like <code class="docutils literal notranslate"><span class="pre">HAL-9500</span></code> at PSI without
|
||||
the <em>error-prone</em> RRF fitting (see U. Locans and A. Suter,
|
||||
@ -116,37 +195,37 @@ allows Apple macOS users to speed up their fitting code on the CPU. Currently it
|
||||
to get <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> multi-threaded under macOS since Apple doesn’t be default support <code class="docutils literal notranslate"><span class="pre">OpenMP</span></code>. <code class="docutils literal notranslate"><span class="pre">DKS</span></code>
|
||||
enables <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> to utilize <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> instead which is present on macOS by default.</p>
|
||||
<div class="admonition warning">
|
||||
<p class="admonition-title">Warning</p>
|
||||
<p>Before you run into the shop to buy a gamer graphic card or a Tesla card, make sure that you have an
|
||||
<p class="first admonition-title">Warning</p>
|
||||
<p class="last">Before you run into the shop to buy a gamer graphic card or a Tesla card, make sure that you have an
|
||||
appropriate server with a sufficiently strong power supply!</p>
|
||||
</div>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>However, the current <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> version doesn’t yet support all theory functions on the GPU.
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">However, the current <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> version doesn’t yet support all theory functions on the GPU.
|
||||
In case the theory function is not yet available for the GPU, <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> will fall back to the CPU implementation.</p>
|
||||
</div>
|
||||
<p>Conceptually the setup of <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> is as following:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>install the latest hardware driver for your graphic card.</p></li>
|
||||
<li><p>install the GPU SDK which enables number crunching (<code class="docutils literal notranslate"><span class="pre">CUDA</span></code> for NVIDIA, <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> for AMD)</p></li>
|
||||
<li><p>install <code class="docutils literal notranslate"><span class="pre">DKS</span></code></p></li>
|
||||
<li><p>install the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> version which is <code class="docutils literal notranslate"><span class="pre">DKS</span></code> ready</p></li>
|
||||
<li>install the latest hardware driver for your graphic card.</li>
|
||||
<li>install the GPU SDK which enables number crunching (<code class="docutils literal notranslate"><span class="pre">CUDA</span></code> for NVIDIA, <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> for AMD)</li>
|
||||
<li>install <code class="docutils literal notranslate"><span class="pre">DKS</span></code></li>
|
||||
<li>install the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> version which is <code class="docutils literal notranslate"><span class="pre">DKS</span></code> ready</li>
|
||||
</ol>
|
||||
<p>In the following the description for the installation of <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> for the following systems will be discussed in some more detail:</p>
|
||||
<ul class="simple">
|
||||
<li><p>NVIDIA Tesla K40c</p></li>
|
||||
<li><p>AMD Graphic Card (Radeon R9 390X)</p></li>
|
||||
<li><p>macOS in order to get <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> support</p></li>
|
||||
<li>NVIDIA Tesla K40c</li>
|
||||
<li>AMD Graphic Card (Radeon R9 390X)</li>
|
||||
<li>macOS in order to get <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> support</li>
|
||||
</ul>
|
||||
<p>The usage of <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> with GPU acceleration and <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> support is described in the
|
||||
<a class="reference internal" href="user-manual.html#user-manual"><span class="std std-ref">User manual of the μSR data analysis software musrfit</span></a>. The additional
|
||||
<code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> are found <a class="reference internal" href="user-manual.html#msr-commands-block-dks"><span class="std std-ref">here</span></a>.</p>
|
||||
<section id="setting-up-musrfit-dks-for-a-tesla-k40c-nvidia">
|
||||
<span id="index-1"></span><h2>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> for a Tesla K40c (NVIDIA)<a class="headerlink" href="#setting-up-musrfit-dks-for-a-tesla-k40c-nvidia" title="Link to this heading"></a></h2>
|
||||
<div class="section" id="setting-up-musrfit-dks-for-a-tesla-k40c-nvidia">
|
||||
<span id="index-1"></span><h2>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> for a Tesla K40c (NVIDIA)<a class="headerlink" href="#setting-up-musrfit-dks-for-a-tesla-k40c-nvidia" title="Permalink to this headline">¶</a></h2>
|
||||
<p>It is assumed that the Tesla K40c is already physically installed on your system. For now I only
|
||||
will discuss to set it up for a Linux based system. In order to check that your operating systems
|
||||
see the card, enter the following command in the terminal:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>lspci<span class="w"> </span><span class="p">|</span><span class="w"> </span>grep<span class="w"> </span>NVIDIA
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ lspci <span class="p">|</span> grep NVIDIA
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>The response should look something like</p>
|
||||
@ -154,100 +233,100 @@ see the card, enter the following command in the terminal:</p>
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>which means that the OS physically recognizes your card.</p>
|
||||
<section id="driver-installation-for-the-tesla-k40c">
|
||||
<h3>Driver Installation for the Tesla K40c<a class="headerlink" href="#driver-installation-for-the-tesla-k40c" title="Link to this heading"></a></h3>
|
||||
<div class="section" id="driver-installation-for-the-tesla-k40c">
|
||||
<h3>Driver Installation for the Tesla K40c<a class="headerlink" href="#driver-installation-for-the-tesla-k40c" title="Permalink to this headline">¶</a></h3>
|
||||
<p>Next, you will need to download and install the driver for your card. Select the proper operating system,
|
||||
card, etc. from the <a class="reference external" href="http://www.nvidia.com/Download/index.aspx?lang=en-us">NVIDIA download center</a>. At PSI
|
||||
we are running currently Red Hat Enterprise Linux 7.x (RHEL) for which we will get a <code class="docutils literal notranslate"><span class="pre">rpm</span></code> (something like
|
||||
<code class="docutils literal notranslate"><span class="pre">nvidia-diag-driver-local-repo-rhel7-375.66-1.x86_64.rpm</span></code>). Install it and make sure there is no conflict
|
||||
with the nouveau driver of the system.</p>
|
||||
</section>
|
||||
<section id="installation-of-cuda">
|
||||
<span id="index-2"></span><h3>Installation of CUDA<a class="headerlink" href="#installation-of-cuda" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="installation-of-cuda">
|
||||
<span id="index-2"></span><h3>Installation of CUDA<a class="headerlink" href="#installation-of-cuda" title="Permalink to this headline">¶</a></h3>
|
||||
<p>Download the <a class="reference external" href="https://developer.nvidia.com/cuda-downloads">CUDA SDK</a> form NVIDIA for your system. Again,
|
||||
for the RHEL 7.x this is an <code class="docutils literal notranslate"><span class="pre">rpm</span></code>. After the installation of the rpm you should reboot your machine.
|
||||
Afterwards you are ready for the installation of <code class="docutils literal notranslate"><span class="pre">DKS</span></code>.</p>
|
||||
</section>
|
||||
<section id="installation-of-dks">
|
||||
<span id="index-3"></span><h3>Installation of DKS<a class="headerlink" href="#installation-of-dks" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="installation-of-dks">
|
||||
<span id="index-3"></span><h3>Installation of DKS<a class="headerlink" href="#installation-of-dks" title="Permalink to this headline">¶</a></h3>
|
||||
<p>For the following list of commands the <code class="docutils literal notranslate"><span class="pre">'$'</span></code> will be given as the command prompt. <em>Do not enter it!</em>
|
||||
Also some comments will be added starting with a <code class="docutils literal notranslate"><span class="pre">'#'</span></code> which can be omitted. They are only there to
|
||||
explain what is going on. <code class="docutils literal notranslate"><span class="pre">DKS</span></code> stands for Dynamical Kernel Scheduler and provides a thin interface
|
||||
allowing host applications to incorporate GPU’s and other hardware accelerators.</p>
|
||||
<p>Details can be found in the papers listed <a class="reference internal" href="cite.html#cite"><span class="std std-ref">here</span></a>.</p>
|
||||
<p>Details can be found in the papers listed <a class="reference internal" href="cite.html#cite"><span class="std std-ref">here</span></a>, or on the <a class="reference external" href="https://gitlab.psi.ch/uldis_l/DKS/wikis/home">DKS wiki page</a>.</p>
|
||||
<p>In brief the installation should be something like this:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># go to whatever directory you would like to clone/install DKS</span>
|
||||
<span class="c1"># For macOS DKS will likely to got to $HOME/Applications to be consistent with the musrfit docu for macOS</span>
|
||||
$<span class="w"> </span><span class="nb">cd</span><span class="w"> </span><span class="nv">$HOME</span>/Apps
|
||||
$<span class="w"> </span>git<span class="w"> </span>clone<span class="w"> </span>git://gitea.psi.ch:LMU/DKS.git
|
||||
$<span class="w"> </span><span class="nb">cd</span><span class="w"> </span>DKS
|
||||
$<span class="w"> </span>mkdir<span class="w"> </span>build
|
||||
$<span class="w"> </span><span class="nb">cd</span><span class="w"> </span>build
|
||||
$<span class="w"> </span>cmake<span class="w"> </span>../<span class="w"> </span>-DENABLE_MUSR<span class="o">=</span><span class="m">1</span><span class="w"> </span>-DCMAKE_INSTALL_PREFIX<span class="o">=</span>../exec
|
||||
$<span class="w"> </span>cmake<span class="w"> </span>--build<span class="w"> </span>./<span class="w"> </span>--clean-first
|
||||
$<span class="w"> </span>make<span class="w"> </span>install
|
||||
$ <span class="nb">cd</span> <span class="nv">$HOME</span>/Apps
|
||||
$ git clone https://gitlab.psi.ch/uldis_l/DKS.git
|
||||
$ <span class="nb">cd</span> DKS
|
||||
$ mkdir build
|
||||
$ <span class="nb">cd</span> build
|
||||
$ cmake ../ -DENABLE_MUSR<span class="o">=</span><span class="m">1</span> -DCMAKE_INSTALL_PREFIX<span class="o">=</span>../exec
|
||||
$ cmake --build ./ --clean-first
|
||||
$ make install
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Since <code class="docutils literal notranslate"><span class="pre">DKS</span></code> is installed in a non-standard path, a couple of additional small steps are required.
|
||||
This will be different for Linux compared to macOS.</p>
|
||||
<p>For <strong>Linux:</strong></p>
|
||||
<p>add the <code class="docutils literal notranslate"><span class="pre">DKS</span></code> library path to <code class="docutils literal notranslate"><span class="pre">/etc/ld.so.conf.d/musrfit-x86_64.conf</span></code> and execute as super user</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>/sbin/ldconfig
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ /sbin/ldconfig
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>For <strong>macOS:</strong></p>
|
||||
<p>add the <code class="docutils literal notranslate"><span class="pre">DKS</span></code> path to <code class="docutils literal notranslate"><span class="pre">$HOME/.profile</span></code>:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="nb">export</span><span class="w"> </span><span class="nv">DKS</span><span class="o">=</span><span class="nv">$HOME</span>/Applications/DKS/exec
|
||||
<span class="nb">export</span><span class="w"> </span><span class="nv">LD_LIBRARY_PATH</span><span class="o">=</span><span class="nv">$DKS</span>/lib:<span class="nv">$LD_LIBRARY_PATH</span>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="nb">export</span> <span class="nv">DKS</span><span class="o">=</span><span class="nv">$HOME</span>/Applications/DKS/exec
|
||||
<span class="nb">export</span> <span class="nv">LD_LIBRARY_PATH</span><span class="o">=</span><span class="nv">$DKS</span>/lib:<span class="nv">$LD_LIBRARY_PATH</span>
|
||||
|
||||
launchctl<span class="w"> </span>setenv<span class="w"> </span>DKS<span class="w"> </span><span class="nv">$DKS</span>
|
||||
launchctl<span class="w"> </span>setenv<span class="w"> </span>LD_LIBRARY_PATH<span class="w"> </span><span class="nv">$LD_LIBRARY_PATH</span>
|
||||
launchctl setenv DKS <span class="nv">$DKS</span>
|
||||
launchctl setenv LD_LIBRARY_PATH <span class="nv">$LD_LIBRARY_PATH</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
<section id="installation-of-musrfit-for-dks">
|
||||
<span id="musrfit-dks-install"></span><h3>Installation of musrfit for DKS<a class="headerlink" href="#installation-of-musrfit-for-dks" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="installation-of-musrfit-for-dks">
|
||||
<span id="musrfit-dks-install"></span><h3>Installation of musrfit for DKS<a class="headerlink" href="#installation-of-musrfit-for-dks" title="Permalink to this headline">¶</a></h3>
|
||||
<p>Most of the installation steps are the same as described for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> without GPU support.
|
||||
Here only the differences are explained. First checkout <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>, then you will need to
|
||||
switch the working branch which is done by</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span><span class="nb">cd</span><span class="w"> </span><span class="nv">$HOME</span>/Apps/musrfit
|
||||
$<span class="w"> </span>git<span class="w"> </span>checkout<span class="w"> </span>dks6
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ <span class="nb">cd</span> <span class="nv">$HOME</span>/Apps/musrfit
|
||||
$ git checkout dks6
|
||||
</pre></div>
|
||||
</div>
|
||||
<section id="install-via-cmake">
|
||||
<h4>Install via cmake<a class="headerlink" href="#install-via-cmake" title="Link to this heading"></a></h4>
|
||||
<div class="section" id="install-via-cmake">
|
||||
<h4>Install via cmake<a class="headerlink" href="#install-via-cmake" title="Permalink to this headline">¶</a></h4>
|
||||
<p>There is on more configuration switch</p>
|
||||
<dl class="simple">
|
||||
<dt><strong>-Ddks=<value></strong></dt><dd><p>it allows to enable/disable <code class="docutils literal notranslate"><span class="pre">DKS</span></code> support. The default is <code class="docutils literal notranslate"><span class="pre"><value>=1</span></code>, <em>i.e.</em> enabled. To disable use <code class="docutils literal notranslate"><span class="pre"><value>=0</span></code>.</p>
|
||||
</dd>
|
||||
<dl class="docutils">
|
||||
<dt><strong>-Ddks=<value></strong></dt>
|
||||
<dd>it allows to enable/disable <code class="docutils literal notranslate"><span class="pre">DKS</span></code> support. The default is <code class="docutils literal notranslate"><span class="pre"><value>=1</span></code>, <em>i.e.</em> enabled. To disable use <code class="docutils literal notranslate"><span class="pre"><value>=0</span></code>.</dd>
|
||||
</dl>
|
||||
<p>For a typical setup on a RHEL or macOS system it could look like this</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>cmake<span class="w"> </span>../<span class="w"> </span>-DCMAKE_INSTALL_PREFIX<span class="o">=</span><span class="nv">$ROOTSYS</span><span class="w"> </span>-DASlibs<span class="o">=</span><span class="m">1</span><span class="w"> </span>-DBMWlibs<span class="o">=</span><span class="m">1</span><span class="w"> </span>-Dnexus<span class="o">=</span><span class="m">1</span><span class="w"> </span>-Ddks<span class="o">=</span><span class="m">1</span>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ cmake ../ -DCMAKE_INSTALL_PREFIX<span class="o">=</span><span class="nv">$ROOTSYS</span> -DASlibs<span class="o">=</span><span class="m">1</span> -DBMWlibs<span class="o">=</span><span class="m">1</span> -Dnexus<span class="o">=</span><span class="m">1</span> -Ddks<span class="o">=</span><span class="m">1</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>After</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>cmake<span class="w"> </span>--build<span class="w"> </span>./<span class="w"> </span>--clean-first<span class="w"> </span>--<span class="w"> </span>-j8
|
||||
$<span class="w"> </span>make<span class="w"> </span>install
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ cmake --build ./ --clean-first -- -j8
|
||||
$ make install
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>and updating the shared library lookup table (<em>only</em> needed for Linux)</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>/sbin/ldconfig<span class="w"> </span><span class="c1"># as superuser / root</span>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ /sbin/ldconfig <span class="c1"># as superuser / root</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>you are done with the setup.</p>
|
||||
</section>
|
||||
</section>
|
||||
</section>
|
||||
<section id="setting-up-musrfit-dks-for-a-amd-graphic-card-radeon-r9-390x">
|
||||
<span id="index-4"></span><h2>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> for a AMD Graphic Card (Radeon R9 390X)<a class="headerlink" href="#setting-up-musrfit-dks-for-a-amd-graphic-card-radeon-r9-390x" title="Link to this heading"></a></h2>
|
||||
<section id="driver-installation-for-an-amd-graphic-card-e-g-radeon-r9-390x">
|
||||
<h3>Driver Installation for an AMD Graphic Card, <em>e.g.</em> Radeon R9 390X<a class="headerlink" href="#driver-installation-for-an-amd-graphic-card-e-g-radeon-r9-390x" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="setting-up-musrfit-dks-for-a-amd-graphic-card-radeon-r9-390x">
|
||||
<span id="index-4"></span><h2>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> for a AMD Graphic Card (Radeon R9 390X)<a class="headerlink" href="#setting-up-musrfit-dks-for-a-amd-graphic-card-radeon-r9-390x" title="Permalink to this headline">¶</a></h2>
|
||||
<div class="section" id="driver-installation-for-an-amd-graphic-card-e-g-radeon-r9-390x">
|
||||
<h3>Driver Installation for an AMD Graphic Card, <em>e.g.</em> Radeon R9 390X<a class="headerlink" href="#driver-installation-for-an-amd-graphic-card-e-g-radeon-r9-390x" title="Permalink to this headline">¶</a></h3>
|
||||
<p>This will depend slightly on the AMD Card and operating system. Here I will summaries how it was done
|
||||
on a RHEL (Linux) system using a Radeon R9 390X.</p>
|
||||
<p>It is assumed that the Radeon R9 390X is already physically installed on your system. For now I only
|
||||
will discuss to set it up for a Linux based system. In order to check that your operating systems see
|
||||
the card, enter the following command in the terminal:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>lspci<span class="w"> </span><span class="p">|</span><span class="w"> </span>grep<span class="w"> </span>AMD
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ lspci <span class="p">|</span> grep AMD
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>The response should look something like</p>
|
||||
@ -256,48 +335,48 @@ the card, enter the following command in the terminal:</p>
|
||||
</div>
|
||||
<p>which means that the OS physically recognizes your card.</p>
|
||||
<p>For RHEL7.x the AMDGPU-PRO driver should be used. It can be downloaded from <a class="reference external" href="http://support.amd.com/en-us/kb-articles/Pages/AMDGPU-PRO-RedHat-Install.aspx">AMD</a>. Unpack the driver</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>tar<span class="w"> </span>-Jxvf<span class="w"> </span>amdgpu-pro-17.10-414273.tar.xz
|
||||
$<span class="w"> </span><span class="nb">cd</span><span class="w"> </span>amdgpu-pro-17.10-414273
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ tar -Jxvf amdgpu-pro-17.10-414273.tar.xz
|
||||
$ <span class="nb">cd</span> amdgpu-pro-17.10-414273
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Install the driver as root</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>./amdgpu-pro-install<span class="w"> </span>--compute<span class="w"> </span>-y
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ./amdgpu-pro-install --compute -y
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Here I assume that the AMD graphic card is only used for computation. You need to add the following command
|
||||
in order that the user <strong>blabla</strong> (change this to the appropriate user name) can access the GPU (otherwise
|
||||
only root works):</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>/sbin/usermod<span class="w"> </span>-a<span class="w"> </span>-G<span class="w"> </span>video<span class="w"> </span>blabla
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ /sbin/usermod -a -G video blabla
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Reboot the machine.</p>
|
||||
</section>
|
||||
<section id="amd-app-software-development-kit-sdk-to-enable-opencl-support">
|
||||
<h3>AMD APP Software Development Kit (SDK) to enable <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> support<a class="headerlink" href="#amd-app-software-development-kit-sdk-to-enable-opencl-support" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="amd-app-software-development-kit-sdk-to-enable-opencl-support">
|
||||
<h3>AMD APP Software Development Kit (SDK) to enable <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> support<a class="headerlink" href="#amd-app-software-development-kit-sdk-to-enable-opencl-support" title="Permalink to this headline">¶</a></h3>
|
||||
<p>The AMD APP Software Development Kit (SDK) is a complete development platform created by AMD to allow you to
|
||||
quickly and easily develop applications accelerated by AMD APP technology. The SDK provides samples, documentation,
|
||||
and other materials to quickly get you started leveraging accelerated compute using <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> or <code class="docutils literal notranslate"><span class="pre">C++</span> <span class="pre">AMP</span></code> in your
|
||||
<code class="docutils literal notranslate"><span class="pre">C/C++</span></code> applications.</p>
|
||||
<p>Download the AMD APP SDK 3.0 from <a class="reference external" href="http://developer.amd.com/tools-and-sdks/opencl-zone/amd-accelerated-parallel-processing-app-sdk/">AMD-SDK</a>.</p>
|
||||
<p>Extract the installer</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>tar<span class="w"> </span>-xvjf<span class="w"> </span>AMD-APP-SDKInstaller-v3.0.130.136-GA-linux64.tar.bz2
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ tar -xvjf AMD-APP-SDKInstaller-v3.0.130.136-GA-linux64.tar.bz2
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Run the installer</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>./AMD-APP-SDK-v3.0.130.136-GA-linux64.sh
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ./AMD-APP-SDK-v3.0.130.136-GA-linux64.sh
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>This will install the AMD APP SDK to <code class="docutils literal notranslate"><span class="pre">/opt/AMDAPPSDK-3.0/</span></code> where you can find the <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code> include
|
||||
and library files, as well as documentation and sample code. The install guide for AMD OpenCL SDK can
|
||||
be found at <a class="reference external" href="http://developer.amd.com/wordpress/media/2012/10/AMD_APP_SDK_InstallationNotes.pdf">AMD SDK Installation Notes</a>.</p>
|
||||
</section>
|
||||
<section id="installation-of-dks-and-musrfit">
|
||||
<h3>Installation of DKS and musrfit<a class="headerlink" href="#installation-of-dks-and-musrfit" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="installation-of-dks-and-musrfit">
|
||||
<h3>Installation of DKS and musrfit<a class="headerlink" href="#installation-of-dks-and-musrfit" title="Permalink to this headline">¶</a></h3>
|
||||
<p>To install <code class="docutils literal notranslate"><span class="pre">DKS</span></code> and <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> follow the instructions <a class="reference internal" href="#musrfit-dks-install"><span class="std std-ref">above</span></a>.</p>
|
||||
</section>
|
||||
</section>
|
||||
<section id="setting-up-musrfit-dks-for-macos-for-opencl-support">
|
||||
<span id="index-5"></span><h2>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> for macOS for OpenCL support<a class="headerlink" href="#setting-up-musrfit-dks-for-macos-for-opencl-support" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="setting-up-musrfit-dks-for-macos-for-opencl-support">
|
||||
<span id="index-5"></span><h2>Setting up <code class="docutils literal notranslate"><span class="pre">musrfit/DKS</span></code> for macOS for OpenCL support<a class="headerlink" href="#setting-up-musrfit-dks-for-macos-for-opencl-support" title="Permalink to this headline">¶</a></h2>
|
||||
<p>Since Apple is not providing an out-of-the-box <code class="docutils literal notranslate"><span class="pre">OpenMP</span></code> support on their macOS compiler framework (Xcode),
|
||||
typically <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> is just running <em>single threaded</em>. Here <code class="docutils literal notranslate"><span class="pre">DKS</span></code> can help since it delivers <code class="docutils literal notranslate"><span class="pre">OpenCL</span></code>
|
||||
support which is present on macOS. Hence, if you would like to run <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> multi-threaded the easiest
|
||||
@ -305,36 +384,73 @@ way is to use <code class="docutils literal notranslate"><span class="pre">DKS</
|
||||
<p>Since there is no graphic card involved, you do not need any graphic card driver of additional SDK.
|
||||
The only thing you need <code class="docutils literal notranslate"><span class="pre">DKS</span></code> and the proper <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> version.</p>
|
||||
<p>The installation instruction for <code class="docutils literal notranslate"><span class="pre">DKS/musrfit</span></code> can be found <a class="reference internal" href="#musrfit-dks-install"><span class="std std-ref">here</span></a>.</p>
|
||||
</section>
|
||||
</section>
|
||||
</div>
|
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|
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<p>© Copyright 2025, Andreas Suter.
|
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<span class="lastupdated">Last updated on Jun 07, 2025.
|
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|
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<p>
|
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© Copyright 2023, Andreas Suter.
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Last updated on Jun 24, 2024.
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<li><a href="index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item active">Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code></li>
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<li><a href="index.html">Docs</a> »</li>
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<li>Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code></li>
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<a href="_sources/tutorial.rst.txt" rel="nofollow"> View page source</a>
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||||
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|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<section id="tutorial-for-musrfit">
|
||||
<span id="index-0"></span><h1>Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#tutorial-for-musrfit" title="Link to this heading"></a></h1>
|
||||
<section id="single-histogram-fit-tutorial">
|
||||
<h2>Single-histogram-fit tutorial<a class="headerlink" href="#single-histogram-fit-tutorial" title="Link to this heading"></a></h2>
|
||||
<div class="section" id="tutorial-for-musrfit">
|
||||
<span id="index-0"></span><h1>Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#tutorial-for-musrfit" title="Permalink to this headline">¶</a></h1>
|
||||
<div class="section" id="single-histogram-fit-tutorial">
|
||||
<h2>Single-histogram-fit tutorial<a class="headerlink" href="#single-histogram-fit-tutorial" title="Permalink to this headline">¶</a></h2>
|
||||
<p>The μSR-data-analysis process using musrfit is based on so-called msr files. These files contain all
|
||||
information needed for the analysis such as names of the data files, a theory function, fit and plot parameters,
|
||||
and so on. It is the idea of this page to explain the basic use of an msr file and the different programs
|
||||
@ -116,8 +194,8 @@ with the source-code distribution in the sub-directory <code class="docutils lit
|
||||
text editor. For convenience the editor <code class="docutils literal notranslate"><span class="pre">musredit</span></code> is provided which offer some msr-file-specific functionalities
|
||||
and additionally serve as front ends to the underlying programs. In the following it is assumed that the file is
|
||||
open within <code class="docutils literal notranslate"><span class="pre">musredit</span></code>.</p>
|
||||
<section id="the-msr-file">
|
||||
<h3>The msr file<a class="headerlink" href="#the-msr-file" title="Link to this heading"></a></h3>
|
||||
<div class="section" id="the-msr-file">
|
||||
<h3>The msr file<a class="headerlink" href="#the-msr-file" title="Permalink to this headline">¶</a></h3>
|
||||
<p>The msr file itself is divided into different blocks; a full description of the format can be found <a class="reference internal" href="user-manual.html#msr-file-format"><span class="std std-ref">here</span></a>.
|
||||
In the file <code class="docutils literal notranslate"><span class="pre">3110_tutorial.msr</span></code> these blocks are successively:</p>
|
||||
<p><a class="reference internal" href="user-manual.html#msr-title-block"><span class="std std-ref">The title</span></a></p>
|
||||
@ -180,7 +258,7 @@ sample holder), each with an amplitude (parameters 10 and 13), a depolarization
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>The THEORY block is used to define a fit-parameter-dependent theory function used to model
|
||||
the decay asymmetry. Different <a class="reference internal" href="user-manual.html#msr-theory-block"><span class="std std-ref">predefined</span></a> and <a class="reference internal" href="user-manual.html#id41"><span class="std std-ref">user-defined</span></a>
|
||||
the decay asymmetry. Different <a class="reference internal" href="user-manual.html#msr-theory-block"><span class="std std-ref">predefined</span></a> and <a class="reference internal" href="user-manual.html#id38"><span class="std std-ref">user-defined</span></a>
|
||||
functions can be combined here. Theory lines following each other are <em>multiplied</em> and the <strong>+</strong> sign
|
||||
is used to add different (here: two) signal contributions. The numbers are the parameter numbers
|
||||
according to the <code class="docutils literal notranslate"><span class="pre">FITPARAMETER</span> <span class="pre">block</span></code>. <code class="docutils literal notranslate"><span class="pre">map</span></code> and <code class="docutils literal notranslate"><span class="pre">fun</span></code> are used to refer to
|
||||
@ -340,13 +418,13 @@ date and time as well as the absolute and normalized values of <span class="math
|
||||
number of degrees of freedom in the fit.
|
||||
These information only have a meaning if the fitting procedure has been executed at
|
||||
least once and the fit has converged!</p>
|
||||
</section>
|
||||
<section id="determine-t0-and-the-data-range-using-musrt0">
|
||||
<h3>Determine t0 and the data range using musrt0<a class="headerlink" href="#determine-t0-and-the-data-range-using-musrt0" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="determine-t0-and-the-data-range-using-musrt0">
|
||||
<h3>Determine t0 and the data range using musrt0<a class="headerlink" href="#determine-t0-and-the-data-range-using-musrt0" title="Permalink to this headline">¶</a></h3>
|
||||
<p>Before the given model can be fitted to the data, the data ranges and time zeros of the different
|
||||
<code class="docutils literal notranslate"><span class="pre">RUN</span> <span class="pre">blocks</span></code> have to be set correctly. This can be achieved using <a class="reference internal" href="user-manual.html#musrt0"><span class="std std-ref">musrt0</span></a>.
|
||||
Starting this program by selecting the <code class="docutils literal notranslate"><span class="pre">musrt0</span></code> button in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> or calling from a terminal</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>musrt0<span class="w"> </span>3110_tutorial.msr
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ musrt0 3110_tutorial.msr
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>opens an interactive window plotting the data of the first RUN block:</p>
|
||||
@ -363,38 +441,38 @@ when the cursor is found at a suitable location:</p>
|
||||
This procedure is repeated until all ranges have been set correctly. When finished with the last histogram
|
||||
the new t0 and data-range values will be written to the msr file. A full description of <code class="docutils literal notranslate"><span class="pre">musrt0</span></code> can be
|
||||
found <a class="reference internal" href="user-manual.html#musrt0"><span class="std std-ref">here</span></a>.</p>
|
||||
</section>
|
||||
<section id="fit-the-model-to-the-data-using-musrfit">
|
||||
<h3>Fit the model to the data using <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#fit-the-model-to-the-data-using-musrfit" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="fit-the-model-to-the-data-using-musrfit">
|
||||
<h3>Fit the model to the data using <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#fit-the-model-to-the-data-using-musrfit" title="Permalink to this headline">¶</a></h3>
|
||||
<p>Now that the basics of the msr file have been introduced and the necessary adjustments have been done one
|
||||
can proceed with fitting the specified model to the data. This is done by selecting the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> icon
|
||||
in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> or calling from a terminal</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>musrfit<span class="w"> </span>3110_tutorial.msr
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ musrfit 3110_tutorial.msr
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>After the fitting procedure has finished the msr file is updated and contains the newly determined values
|
||||
of the fit parameters.</p>
|
||||
</section>
|
||||
<section id="view-the-data-and-the-fit-using-musrview">
|
||||
<h3>View the data and the fit using <code class="docutils literal notranslate"><span class="pre">musrview</span></code><a class="headerlink" href="#view-the-data-and-the-fit-using-musrview" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="view-the-data-and-the-fit-using-musrview">
|
||||
<h3>View the data and the fit using <code class="docutils literal notranslate"><span class="pre">musrview</span></code><a class="headerlink" href="#view-the-data-and-the-fit-using-musrview" title="Permalink to this headline">¶</a></h3>
|
||||
<p>The data and the corresponding fit can be visualized by choosing the <code class="docutils literal notranslate"><span class="pre">musrview</span></code> icon in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> or
|
||||
calling from a terminal</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>musrview<span class="w"> </span>3110_tutorial.msr
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ musrview 3110_tutorial.msr
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>This creates the windows according to the given PLOT blocks in the msr file:</p>
|
||||
<img alt="_images/tutorial-musrview-1.png" src="_images/tutorial-musrview-1.png" />
|
||||
<p>The basic features of <code class="docutils literal notranslate"><span class="pre">musrview</span></code> can be found in the <code class="docutils literal notranslate"><span class="pre">Musrfit</span> <span class="pre">menu</span></code>. They include:</p>
|
||||
<ul class="simple">
|
||||
<li><p>export the shown data and the model to an ASCII file with comma-separated values</p></li>
|
||||
<li><p>presenting the difference between the shown data and the model (keyboard shortcut: <strong>d</strong>)</p></li>
|
||||
<li><p>calculate and show the Fourier transform of the shown data (keyboard shortcut: <strong>f</strong>), <em>e.g.</em> for
|
||||
the asymmetry of the “Up” and “Down” detectors:</p></li>
|
||||
<li>export the shown data and the model to an ASCII file with comma-separated values</li>
|
||||
<li>presenting the difference between the shown data and the model (keyboard shortcut: <strong>d</strong>)</li>
|
||||
<li>calculate and show the Fourier transform of the shown data (keyboard shortcut: <strong>f</strong>), <em>e.g.</em> for
|
||||
the asymmetry of the “Up” and “Down” detectors:</li>
|
||||
</ul>
|
||||
<img alt="_images/tutorial-musrview-FT.png" src="_images/tutorial-musrview-FT.png" />
|
||||
</section>
|
||||
<section id="process-multiple-msr-files-using-msr2data">
|
||||
<h3>Process multiple msr files using <code class="docutils literal notranslate"><span class="pre">msr2data</span></code><a class="headerlink" href="#process-multiple-msr-files-using-msr2data" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="process-multiple-msr-files-using-msr2data">
|
||||
<h3>Process multiple msr files using <code class="docutils literal notranslate"><span class="pre">msr2data</span></code><a class="headerlink" href="#process-multiple-msr-files-using-msr2data" title="Permalink to this headline">¶</a></h3>
|
||||
<p>This short introduction is concluded by calling attention to the program <a class="reference internal" href="msr2data.html#msr2data"><span class="std std-ref">msr2data</span></a>.
|
||||
As the name indicates the main purpose of this program is to extract the <code class="docutils literal notranslate"><span class="pre">FITPARAMETER</span></code> block
|
||||
information from multiple msr files with the same structure and to summarize them in a single
|
||||
@ -409,52 +487,89 @@ and finally summarize the FITPARAMETER block information of all processed files
|
||||
file <code class="docutils literal notranslate"><span class="pre">tutorial-T-dependence.dat</span></code> (simple columns). If further information on the temperature or the
|
||||
applied field is available in the data files these will be included as well in the resulting ASCII file.
|
||||
From the terminal this would be done as follows:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">3110</span><span class="w"> </span><span class="m">3114</span><span class="w"> </span>_tutorial<span class="w"> </span>fit-3110<span class="w"> </span>-o<span class="w"> </span>tutorial-T-dependence.dat<span class="w"> </span>data
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">3110</span> <span class="m">3114</span> _tutorial fit-3110 -o tutorial-T-dependence.dat data
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>To achieve the same in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> (in this snapshot in the <em>dark theme</em>) one selects the <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> icon and fills the form accordingly:</p>
|
||||
<img alt="_images/tutorial-musredit-msr2data.png" src="_images/tutorial-musredit-msr2data.png" />
|
||||
</section>
|
||||
<section id="further-reading">
|
||||
<h3>Further reading<a class="headerlink" href="#further-reading" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
<div class="section" id="further-reading">
|
||||
<h3>Further reading<a class="headerlink" href="#further-reading" title="Permalink to this headline">¶</a></h3>
|
||||
<p>This page only summarizes the very basic features and options of the programs contained in the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> suite.
|
||||
For a complete description please refer to the manuals of <a class="reference internal" href="user-manual.html#musrfit"><span class="std std-ref">musrfit</span></a> (including <a class="reference internal" href="user-manual.html#musrview"><span class="std std-ref">musrview</span></a>,
|
||||
<a class="reference internal" href="user-manual.html#musrt0"><span class="std std-ref">musrt0</span></a>, and <a class="reference internal" href="user-manual.html#musrft"><span class="std std-ref">musrFT</span></a>), <a class="reference internal" href="mupp.html#mupp"><span class="std std-ref">mupp</span></a>, <a class="reference internal" href="musredit.html#musredit-sec"><span class="std std-ref">musredit</span></a>, and <a class="reference internal" href="msr2data.html#msr2data"><span class="std std-ref">msr2data</span></a>.</p>
|
||||
</section>
|
||||
</section>
|
||||
<section id="asymmtery-fit-tutorial">
|
||||
<h2>Asymmtery-fit tutorial<a class="headerlink" href="#asymmtery-fit-tutorial" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="asymmtery-fit-tutorial">
|
||||
<h2>Asymmtery-fit tutorial<a class="headerlink" href="#asymmtery-fit-tutorial" title="Permalink to this headline">¶</a></h2>
|
||||
<p>to be written yet.</p>
|
||||
</section>
|
||||
</section>
|
||||
</div>
|
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<p>© Copyright 2025, Andreas Suter.
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<span class="lastupdated">Last updated on Jun 07, 2025.
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© Copyright 2023, Andreas Suter.
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Last updated on Jun 24, 2024.
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<li class="toctree-l1"><a class="reference internal" href="cite.html">How to Cite <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>?</a></li>
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<li class="toctree-l1"><a class="reference internal" href="tutorial.html">Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code></a></li>
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@ -60,7 +100,7 @@
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</li>
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</li>
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<li class="toctree-l2"><a class="reference internal" href="#supeconducting-gap-integrals-to-calculate-1-lambda-2-vs-t">Supeconducting Gap-Integrals to calculate <span class="math notranslate nohighlight">\(1/\lambda^2\)</span> vs <span class="math notranslate nohighlight">\(T\)</span></a></li>
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<li class="toctree-l2"><a class="reference internal" href="#supeconducting-gap-integrals-to-calculate-vs">Supeconducting Gap-Integrals to calculate <span class="math notranslate nohighlight">\(1/\lambda^2\)</span> vs <span class="math notranslate nohighlight">\(T\)</span></a></li>
|
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<li class="toctree-l2"><a class="reference internal" href="#nonlocal-superconductivity-related-meissner-screening-functions-as-libs">Nonlocal superconductivity related Meissner screening functions (AS libs)</a></li>
|
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<li class="toctree-l2"><a class="reference internal" href="#depth-resolved-information-as-libs">Depth resolved information (AS libs)</a></li>
|
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<li class="toctree-l2"><a class="reference internal" href="#functions-to-analyze-bgr-nmr-data-bnmr-libs">Functions to analyze β-NMR data (BNMR libs)</a><ul>
|
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@ -88,39 +128,77 @@
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
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<section id="documentation-of-user-libs-user-functions">
|
||||
<span id="user-libs"></span><span id="index-0"></span><h1>Documentation of user libs (user functions)<a class="headerlink" href="#documentation-of-user-libs-user-functions" title="Link to this heading"></a></h1>
|
||||
<section id="meissner-profiles-vortex-lattice-related-functions-bmw-libs">
|
||||
<span id="bmw-libs"></span><span id="index-1"></span><h2>Meissner-Profiles / Vortex-Lattice related functions (BMW libs)<a class="headerlink" href="#meissner-profiles-vortex-lattice-related-functions-bmw-libs" title="Link to this heading"></a></h2>
|
||||
<section id="libfitpofb">
|
||||
<span id="index-2"></span><h3>libFitPofB<a class="headerlink" href="#libfitpofb" title="Link to this heading"></a></h3>
|
||||
<section id="introduction">
|
||||
<h4>Introduction<a class="headerlink" href="#introduction" title="Link to this heading"></a></h4>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">libFitPofB</span></code> is a collection of <code class="docutils literal notranslate"><span class="pre">C++</span></code> classes using the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> <a class="reference internal" href="user-manual.html#id41"><span class="std std-ref">user-functions</span></a>
|
||||
<div class="section" id="documentation-of-user-libs-user-functions">
|
||||
<span id="user-libs"></span><span id="index-0"></span><h1>Documentation of user libs (user functions)<a class="headerlink" href="#documentation-of-user-libs-user-functions" title="Permalink to this headline">¶</a></h1>
|
||||
<div class="section" id="meissner-profiles-vortex-lattice-related-functions-bmw-libs">
|
||||
<span id="bmw-libs"></span><span id="index-1"></span><h2>Meissner-Profiles / Vortex-Lattice related functions (BMW libs)<a class="headerlink" href="#meissner-profiles-vortex-lattice-related-functions-bmw-libs" title="Permalink to this headline">¶</a></h2>
|
||||
<div class="section" id="libfitpofb">
|
||||
<span id="index-2"></span><h3>libFitPofB<a class="headerlink" href="#libfitpofb" title="Permalink to this headline">¶</a></h3>
|
||||
<div class="section" id="introduction">
|
||||
<h4>Introduction<a class="headerlink" href="#introduction" title="Permalink to this headline">¶</a></h4>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">libFitPofB</span></code> is a collection of <code class="docutils literal notranslate"><span class="pre">C++</span></code> classes using the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> <a class="reference internal" href="user-manual.html#id38"><span class="std std-ref">user-functions</span></a>
|
||||
interface in order to facilitate the usage in conjunction with <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>. The classes contained in this
|
||||
library generally implement calculations of one-dimensional static magnetic field distributions
|
||||
<span class="math notranslate nohighlight">\(p(B)\)</span> which lead to the muon-spin depolarization functions</p>
|
||||
@ -133,13 +211,13 @@ low-energy μSR (see <a class="reference external" href="https://www.psi.ch/smus
|
||||
In the following the basic usage of the library in <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> is explained—the calculations by themselves are only
|
||||
outlined. For further information please refer to the original literature and/or the source code of the implementation.</p>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>In order to supply certain information needed for the calculations but not suited to be stored in the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">In order to supply certain information needed for the calculations but not suited to be stored in the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>
|
||||
msr files an <code class="docutils literal notranslate"><span class="pre">XML</span></code> configuration file in the working directory is used. For details, see below.</p>
|
||||
</div>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>The implementations in this library heavily rely on <a class="reference external" href="http://fftw.org/">FFTW3</a>. In principle, it always checks what
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">The implementations in this library heavily rely on <a class="reference external" href="http://fftw.org/">FFTW3</a>. In principle, it always checks what
|
||||
is the best way to do efficient Fourier transforms for a given machine before the transforms are actually done. If
|
||||
repeatedly Fourier transforms of the same (sizable) length should be done, it might be worth storing the once
|
||||
obtained information in an external file and just load it the next time this information is needed
|
||||
@ -147,8 +225,8 @@ obtained information in an external file and just load it the next time this inf
|
||||
file has to be specified in the <code class="docutils literal notranslate"><span class="pre">XML</span></code> file.</p>
|
||||
</div>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>The model functions described in the following do generally <em>not behave nicely</em> in conjunction with <code class="docutils literal notranslate"><span class="pre">MINUIT</span></code>
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">The model functions described in the following do generally <em>not behave nicely</em> in conjunction with <code class="docutils literal notranslate"><span class="pre">MINUIT</span></code>
|
||||
function minimizations (or maximizations). The analysis process at the moment in most cases involves some
|
||||
tedious trial-and-error procedure, where the displayed MINUIT information as always deserves attention.
|
||||
This is especially true if small effects should be analyzed (<em>e.g.</em> small diamagnetic shifts in superconductors).
|
||||
@ -156,15 +234,15 @@ The parameter uncertainty in many cases has to be estimated independently. Due t
|
||||
the use of the fit option of <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> <em>cannot</em> be advised.</p>
|
||||
</div>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>If these classes still prove useful and results obtained through them are part of scientific publications,
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">If these classes still prove useful and results obtained through them are part of scientific publications,
|
||||
an acknowledgment of the use of the library is appreciated.</p>
|
||||
</div>
|
||||
</section>
|
||||
<section id="le-mgrsr">
|
||||
<h4>LE-μSR<a class="headerlink" href="#le-mgrsr" title="Link to this heading"></a></h4>
|
||||
<section id="one-dimensional-london-model-for-the-meissner-state-of-isotropic-superconductors">
|
||||
<span id="index-3"></span><h5>One-dimensional London model for the Meissner state of isotropic superconductors<a class="headerlink" href="#one-dimensional-london-model-for-the-meissner-state-of-isotropic-superconductors" title="Link to this heading"></a></h5>
|
||||
</div>
|
||||
<div class="section" id="le-mgrsr">
|
||||
<h4>LE-μSR<a class="headerlink" href="#le-mgrsr" title="Permalink to this headline">¶</a></h4>
|
||||
<div class="section" id="one-dimensional-london-model-for-the-meissner-state-of-isotropic-superconductors">
|
||||
<span id="index-3"></span><h5>One-dimensional London model for the Meissner state of isotropic superconductors<a class="headerlink" href="#one-dimensional-london-model-for-the-meissner-state-of-isotropic-superconductors" title="Permalink to this headline">¶</a></h5>
|
||||
<p>The models for analyzing LE-μSR data assume the magnetic induction <span class="math notranslate nohighlight">\(B(z)\)</span> to vary only in the
|
||||
dimension parallel to the momentum of the incident muons. In such a case the magnetic field distribution is given by</p>
|
||||
<div class="math notranslate nohighlight">
|
||||
@ -189,11 +267,11 @@ of a <code class="docutils literal notranslate"><span class="pre">musrfit</span>
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</p></li>
|
||||
<li><p>applied field (G)</p></li>
|
||||
<li><p>thickness of the dead layer (nm)</p></li>
|
||||
<li><p>magnetic field penetration depth (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</li>
|
||||
<li>applied field (G)</li>
|
||||
<li>thickness of the dead layer (nm)</li>
|
||||
<li>magnetic field penetration depth (nm)</li>
|
||||
</ol>
|
||||
<p id="index-5"><strong>Superconducting thin film (one layer)</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libFitPofB</span> <span class="n">TLondon1D1L</span> <span class="mi">1</span> <span class="mi">2</span> <span class="mi">3</span> <span class="mi">4</span> <span class="mi">5</span> <span class="mi">6</span> <span class="p">[</span><span class="n">a</span> <span class="n">b</span><span class="p">]</span>
|
||||
@ -201,17 +279,17 @@ of a <code class="docutils literal notranslate"><span class="pre">musrfit</span>
|
||||
</div>
|
||||
<p>The mandatory parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</p></li>
|
||||
<li><p>applied field (G)</p></li>
|
||||
<li><p>thickness of the dead layer (nm)</p></li>
|
||||
<li><p>thickness of the actually superconducting layer (nm)</p></li>
|
||||
<li><p>magnetic field penetration depth (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</li>
|
||||
<li>applied field (G)</li>
|
||||
<li>thickness of the dead layer (nm)</li>
|
||||
<li>thickness of the actually superconducting layer (nm)</li>
|
||||
<li>magnetic field penetration depth (nm)</li>
|
||||
</ol>
|
||||
<p>The optional parameters are:</p>
|
||||
<ol class="loweralpha simple">
|
||||
<li><p>fraction f<sub>1</sub> of muons in the thin film contributing to the signal (0 ≤ f<sub>1</sub> ≤ 1)</p></li>
|
||||
<li><p>fraction f<sub>s</sub> of muons in the substrate contributing to the signal (0 ≤ f<sub>s</sub> ≤ 1)</p></li>
|
||||
<li>fraction f<sub>1</sub> of muons in the thin film contributing to the signal (0 ≤ f<sub>1</sub> ≤ 1)</li>
|
||||
<li>fraction f<sub>s</sub> of muons in the substrate contributing to the signal (0 ≤ f<sub>s</sub> ≤ 1)</li>
|
||||
</ol>
|
||||
<p id="index-6"><strong>Superconducting thin-film bilayer heterostructure</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libFitPofB</span> <span class="n">TLondon1D2L</span> <span class="mi">1</span> <span class="mi">2</span> <span class="mi">3</span> <span class="mi">4</span> <span class="mi">5</span> <span class="mi">6</span> <span class="mi">7</span> <span class="mi">8</span> <span class="p">[</span><span class="n">a</span> <span class="n">b</span> <span class="n">c</span><span class="p">]</span>
|
||||
@ -219,20 +297,20 @@ of a <code class="docutils literal notranslate"><span class="pre">musrfit</span>
|
||||
</div>
|
||||
<p>The mandatory parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</p></li>
|
||||
<li><p>applied field (G)</p></li>
|
||||
<li><p>thickness of the dead layer (nm)</p></li>
|
||||
<li><p>thickness of the actually superconducting first layer (nm)</p></li>
|
||||
<li><p>thickness of the actually superconducting second layer (nm)</p></li>
|
||||
<li><p>magnetic field penetration depth of the first layer (nm)</p></li>
|
||||
<li><p>magnetic field penetration depth of the second layer (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</li>
|
||||
<li>applied field (G)</li>
|
||||
<li>thickness of the dead layer (nm)</li>
|
||||
<li>thickness of the actually superconducting first layer (nm)</li>
|
||||
<li>thickness of the actually superconducting second layer (nm)</li>
|
||||
<li>magnetic field penetration depth of the first layer (nm)</li>
|
||||
<li>magnetic field penetration depth of the second layer (nm)</li>
|
||||
</ol>
|
||||
<p>The optional parameters are:</p>
|
||||
<ol class="loweralpha simple">
|
||||
<li><p>fraction f<sub>1</sub> of muons in the dead and first layer contributing to the signal (0 ≤ f<sub>1</sub> ≤ 1)</p></li>
|
||||
<li><p>fraction f<sub>2</sub> of muons in the second layer contributing to the signal (0 ≤ f<sub>2</sub> ≤ 1)</p></li>
|
||||
<li><p>fraction f<sub>s</sub> of muons in the substrate contributing to the signal (0 ≤ f<sub>s</sub> ≤ 1)</p></li>
|
||||
<li>fraction f<sub>1</sub> of muons in the dead and first layer contributing to the signal (0 ≤ f<sub>1</sub> ≤ 1)</li>
|
||||
<li>fraction f<sub>2</sub> of muons in the second layer contributing to the signal (0 ≤ f<sub>2</sub> ≤ 1)</li>
|
||||
<li>fraction f<sub>s</sub> of muons in the substrate contributing to the signal (0 ≤ f<sub>s</sub> ≤ 1)</li>
|
||||
</ol>
|
||||
<p id="index-7"><strong>Superconducting thin-film trilayer heterostructure</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libFitPofB</span> <span class="n">TLondon1D3L</span> <span class="mi">1</span> <span class="mi">2</span> <span class="mi">3</span> <span class="mi">4</span> <span class="mi">5</span> <span class="mi">6</span> <span class="mi">7</span> <span class="mi">8</span> <span class="mi">9</span> <span class="mi">10</span> <span class="p">[</span><span class="n">a</span> <span class="n">b</span> <span class="n">c</span> <span class="n">d</span><span class="p">]</span>
|
||||
@ -240,30 +318,30 @@ of a <code class="docutils literal notranslate"><span class="pre">musrfit</span>
|
||||
</div>
|
||||
<p>The mandatory parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</p></li>
|
||||
<li><p>applied field (G)</p></li>
|
||||
<li><p>thickness of the dead layer (nm)</p></li>
|
||||
<li><p>thickness of the actually superconducting first layer (nm)</p></li>
|
||||
<li><p>thickness of the actually superconducting second layer (nm)</p></li>
|
||||
<li><p>thickness of the actually superconducting third layer (nm)</p></li>
|
||||
<li><p>magnetic field penetration depth of the first layer (nm)</p></li>
|
||||
<li><p>magnetic field penetration depth of the second layer (nm)</p></li>
|
||||
<li><p>magnetic field penetration depth of the third layer (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>muon implantation energy as specified in the <a class="reference internal" href="#bmwlibs-xml"><span class="std std-ref">XML startup</span></a> file (keV)</li>
|
||||
<li>applied field (G)</li>
|
||||
<li>thickness of the dead layer (nm)</li>
|
||||
<li>thickness of the actually superconducting first layer (nm)</li>
|
||||
<li>thickness of the actually superconducting second layer (nm)</li>
|
||||
<li>thickness of the actually superconducting third layer (nm)</li>
|
||||
<li>magnetic field penetration depth of the first layer (nm)</li>
|
||||
<li>magnetic field penetration depth of the second layer (nm)</li>
|
||||
<li>magnetic field penetration depth of the third layer (nm)</li>
|
||||
</ol>
|
||||
<p>The optional parameters are:</p>
|
||||
<ol class="loweralpha simple">
|
||||
<li><p>fraction f<sub>1</sub> of muons in the dead and first layer contributing to the signal (0 ≤ f<sub>1</sub> ≤ 1)</p></li>
|
||||
<li><p>fraction f<sub>2</sub> of muons in the second layer contributing to the signal (0 ≤ f<sub>2</sub> ≤ 1)</p></li>
|
||||
<li><p>fraction f<sub>3</sub> of muons in the third layer contributing to the signal (0 ≤ f<sub>3</sub> ≤ 1)</p></li>
|
||||
<li><p>fraction f<sub>s</sub> of muons in the substrate contributing to the signal (0 ≤ f<sub>s</sub> ≤ 1)</p></li>
|
||||
<li>fraction f<sub>1</sub> of muons in the dead and first layer contributing to the signal (0 ≤ f<sub>1</sub> ≤ 1)</li>
|
||||
<li>fraction f<sub>2</sub> of muons in the second layer contributing to the signal (0 ≤ f<sub>2</sub> ≤ 1)</li>
|
||||
<li>fraction f<sub>3</sub> of muons in the third layer contributing to the signal (0 ≤ f<sub>3</sub> ≤ 1)</li>
|
||||
<li>fraction f<sub>s</sub> of muons in the substrate contributing to the signal (0 ≤ f<sub>s</sub> ≤ 1)</li>
|
||||
</ol>
|
||||
</section>
|
||||
</section>
|
||||
<section id="bulk-mgrsr">
|
||||
<h4>Bulk μSR<a class="headerlink" href="#bulk-mgrsr" title="Link to this heading"></a></h4>
|
||||
<section id="field-distributions-in-the-mixed-state-of-isotropic-superconductors">
|
||||
<span id="index-8"></span><h5>Field distributions in the mixed state of isotropic superconductors<a class="headerlink" href="#field-distributions-in-the-mixed-state-of-isotropic-superconductors" title="Link to this heading"></a></h5>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="bulk-mgrsr">
|
||||
<h4>Bulk μSR<a class="headerlink" href="#bulk-mgrsr" title="Permalink to this headline">¶</a></h4>
|
||||
<div class="section" id="field-distributions-in-the-mixed-state-of-isotropic-superconductors">
|
||||
<span id="index-8"></span><h5>Field distributions in the mixed state of isotropic superconductors<a class="headerlink" href="#field-distributions-in-the-mixed-state-of-isotropic-superconductors" title="Permalink to this headline">¶</a></h5>
|
||||
<p>When investigating superconductors in the mixed state by means of conventional μSR a
|
||||
two-dimensional flux-line lattice is probed randomly by the muons. The spatial field
|
||||
distributions within such an ordered lattice are modeled using the Fourier series</p>
|
||||
@ -297,10 +375,10 @@ The muon-spin depolarization functions finally are calculated using the followin
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>mean magnetic induction (G)</p></li>
|
||||
<li><p>magnetic penetration depth (nm)</p></li>
|
||||
<li><p>Ginzburg-Landau coherence length (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>mean magnetic induction (G)</li>
|
||||
<li>magnetic penetration depth (nm)</li>
|
||||
<li>Ginzburg-Landau coherence length (nm)</li>
|
||||
</ol>
|
||||
<p id="index-10"><strong>2D triangular vortex lattice, modified London model</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libFitPofB</span> <span class="n">TBulkTriVortexML</span> <span class="mi">1</span> <span class="mi">2</span> <span class="mi">3</span> <span class="mi">4</span>
|
||||
@ -308,10 +386,10 @@ The muon-spin depolarization functions finally are calculated using the followin
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>mean magnetic induction (G)</p></li>
|
||||
<li><p>magnetic penetration depth (nm)</p></li>
|
||||
<li><p>Ginzburg-Landau coherence length (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>mean magnetic induction (G)</li>
|
||||
<li>magnetic penetration depth (nm)</li>
|
||||
<li>Ginzburg-Landau coherence length (nm)</li>
|
||||
</ol>
|
||||
<p id="index-11"><strong>2D triangular vortex lattice, analytic Ginzburg-Landau model</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libFitPofB</span> <span class="n">TBulkTriVortexAGL</span> <span class="mi">1</span> <span class="mi">2</span> <span class="mi">3</span> <span class="mi">4</span>
|
||||
@ -319,10 +397,10 @@ The muon-spin depolarization functions finally are calculated using the followin
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>mean magnetic induction (G)</p></li>
|
||||
<li><p>magnetic penetration depth (nm)</p></li>
|
||||
<li><p>Ginzburg-Landau coherence length (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>mean magnetic induction (G)</li>
|
||||
<li>magnetic penetration depth (nm)</li>
|
||||
<li>Ginzburg-Landau coherence length (nm)</li>
|
||||
</ol>
|
||||
<p id="index-12"><strong>2D triangular vortex lattice, numerical Ginzburg-Landau model</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libFitPofB</span> <span class="n">TBulkTriVortexNGL</span> <span class="mi">1</span> <span class="mi">2</span> <span class="mi">3</span> <span class="mi">4</span>
|
||||
@ -330,14 +408,14 @@ The muon-spin depolarization functions finally are calculated using the followin
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>phase (deg)</p></li>
|
||||
<li><p>mean magnetic induction (G)</p></li>
|
||||
<li><p>magnetic penetration depth (nm)</p></li>
|
||||
<li><p>Ginzburg-Landau coherence length (nm)</p></li>
|
||||
<li>phase (deg)</li>
|
||||
<li>mean magnetic induction (G)</li>
|
||||
<li>magnetic penetration depth (nm)</li>
|
||||
<li>Ginzburg-Landau coherence length (nm)</li>
|
||||
</ol>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>In order to improve the convergence of <code class="docutils literal notranslate"><span class="pre">MIGRAD</span></code> it has proven useful to use the log-likelihood
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">In order to improve the convergence of <code class="docutils literal notranslate"><span class="pre">MIGRAD</span></code> it has proven useful to use the log-likelihood
|
||||
maximization instead of the <span class="math notranslate nohighlight">\(\chi^2\)</span> minimization routines and to choose sufficiently large
|
||||
initial steps for the parameters. Calling <code class="docutils literal notranslate"><span class="pre">MINOS</span></code> in conjunction with these functions is futile.</p>
|
||||
</div>
|
||||
@ -350,44 +428,47 @@ initial steps for the parameters. Calling <code class="docutils literal notransl
|
||||
<span class="n">SAVE</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
</section>
|
||||
<section id="the-xml-startup-file">
|
||||
<span id="bmwlibs-xml"></span><span id="index-13"></span><h4>The XML startup file<a class="headerlink" href="#the-xml-startup-file" title="Link to this heading"></a></h4>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="the-xml-startup-file">
|
||||
<span id="bmwlibs-xml"></span><span id="index-13"></span><h4>The XML startup file<a class="headerlink" href="#the-xml-startup-file" title="Permalink to this headline">¶</a></h4>
|
||||
<p><code class="docutils literal notranslate"><span class="pre">BMW_startup.xml</span></code> is a configuration file located in the working directory. In this file some settings
|
||||
like the time and field resolution of the calculations as well as the present muon implantation profiles
|
||||
for a LE-μSR analysis have to be defined. The following XML tags are allowed to define settings:</p>
|
||||
<dl>
|
||||
<dt><strong><debug>ONE_OR_ZERO</debug></strong></dt><dd><p>activate the debugging output of the settings read from the XML file by setting 1, deactivate it with 0.</p>
|
||||
</dd>
|
||||
<dt><strong><wisdom>PATH_TO_FILE</wisdom></strong></dt><dd><p>specify the <code class="docutils literal notranslate"><span class="pre">PATH_TO_FILE</span></code> to an <a class="reference external" href="http://fftw.org/fftw3_doc/Wisdom.html#Wisdom">FFTW3 wisdom file</a>
|
||||
that should be used; if the <code class="docutils literal notranslate"><span class="pre">PATH_TO_FILE</span></code> is invalid, no <code class="docutils literal notranslate"><span class="pre">FFTW3</span></code> wisdom will be used.</p>
|
||||
</dd>
|
||||
<dt><strong><delta_t>ResT</delta_t></strong></dt><dd><p>set the time resolution <code class="docutils literal notranslate"><span class="pre">ResT</span></code> for the calculated depolarization function in microseconds.</p>
|
||||
</dd>
|
||||
<dt><strong><delta_B>ResB</delta_B></strong></dt><dd><p>set the field resolution <code class="docutils literal notranslate"><span class="pre">ResB</span></code> for the calculated field distribution in Gauss.</p>
|
||||
</dd>
|
||||
<dt><strong><VortexLattice></VortexLattice></strong></dt><dd><p>set the parameters used for the calculation of the spatial field distribution of a vortex lattice.</p>
|
||||
<dl class="simple">
|
||||
<dt><strong><N_VortexGrid>N</N_VortexGrid></strong></dt><dd><p>specify the number of points <strong>N</strong> (in each of the two dimensions) for which the fields within the
|
||||
vortex lattice are calculated (inside a <strong><VortexLattice></strong> environment)</p>
|
||||
</dd>
|
||||
<dl class="docutils">
|
||||
<dt><strong><debug>ONE_OR_ZERO</debug></strong></dt>
|
||||
<dd>activate the debugging output of the settings read from the XML file by setting 1, deactivate it with 0.</dd>
|
||||
<dt><strong><wisdom>PATH_TO_FILE</wisdom></strong></dt>
|
||||
<dd>specify the <code class="docutils literal notranslate"><span class="pre">PATH_TO_FILE</span></code> to an <a class="reference external" href="http://fftw.org/fftw3_doc/Wisdom.html#Wisdom">FFTW3 wisdom file</a>
|
||||
that should be used; if the <code class="docutils literal notranslate"><span class="pre">PATH_TO_FILE</span></code> is invalid, no <code class="docutils literal notranslate"><span class="pre">FFTW3</span></code> wisdom will be used.</dd>
|
||||
<dt><strong><delta_t>ResT</delta_t></strong></dt>
|
||||
<dd>set the time resolution <code class="docutils literal notranslate"><span class="pre">ResT</span></code> for the calculated depolarization function in microseconds.</dd>
|
||||
<dt><strong><delta_B>ResB</delta_B></strong></dt>
|
||||
<dd>set the field resolution <code class="docutils literal notranslate"><span class="pre">ResB</span></code> for the calculated field distribution in Gauss.</dd>
|
||||
<dt><strong><VortexLattice></VortexLattice></strong></dt>
|
||||
<dd><p class="first">set the parameters used for the calculation of the spatial field distribution of a vortex lattice.</p>
|
||||
<dl class="last docutils">
|
||||
<dt><strong><N_VortexGrid>N</N_VortexGrid></strong></dt>
|
||||
<dd>specify the number of points <strong>N</strong> (in each of the two dimensions) for which the fields within the
|
||||
vortex lattice are calculated (inside a <strong><VortexLattice></strong> environment)</dd>
|
||||
</dl>
|
||||
</dd>
|
||||
<dt><strong><LEM></LEM></strong></dt><dd><p>set the parameters used for the calculation of LE-μSR field distributions</p>
|
||||
<dl>
|
||||
<dt><strong><data_path>DATA_PATH_PREFIX</data_path></strong></dt><dd><p>specify the <code class="docutils literal notranslate"><span class="pre">DATA_PATH_PREFIX</span></code> to the <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> implantation profiles (inside a <strong><LEM></strong> environment)</p>
|
||||
</dd>
|
||||
<dt><strong><N_theory>N_THEORY</N_theory></strong></dt><dd><p>specify the number of points <strong>N_THEORY</strong> for which <em>B(z)</em> is calculated (inside a <strong><LEM></strong> environment)
|
||||
The specification of this number is not needed if the calculation of the inverse of <em>B(z)</em> is implemented!</p>
|
||||
</dd>
|
||||
<dt><strong><energy_list></energy_list></strong></dt><dd><p>set the energies for which <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> implantation profiles are available (inside a <strong><LEM></strong> environment)</p>
|
||||
<dl class="simple">
|
||||
<dt><strong><energy_label>LABEL</energy_label></strong></dt><dd><p>specify the <strong>LABEL</strong> within the file name of a available <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> <code class="docutils literal notranslate"><span class="pre">RGE</span></code> file (inside a <strong><energy_list></strong> environment)
|
||||
The expected name of the <code class="docutils literal notranslate"><span class="pre">RGE</span></code> file will be: <code class="docutils literal notranslate"><span class="pre">DATA_PATH_PREFIX</span> <span class="pre">+</span> <span class="pre">LABEL</span> <span class="pre">+</span> <span class="pre">.rge</span></code></p>
|
||||
</dd>
|
||||
<dt><strong><energy>E</energy></strong></dt><dd><p>specify the muon energy <em>E</em> (in keV) belonging to the <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> <code class="docutils literal notranslate"><span class="pre">RGE</span></code> file given above (inside a <strong><energy_list></strong> environment)</p>
|
||||
</dd>
|
||||
<dt><strong><LEM></LEM></strong></dt>
|
||||
<dd><p class="first">set the parameters used for the calculation of LE-μSR field distributions</p>
|
||||
<dl class="last docutils">
|
||||
<dt><strong><data_path>DATA_PATH_PREFIX</data_path></strong></dt>
|
||||
<dd>specify the <code class="docutils literal notranslate"><span class="pre">DATA_PATH_PREFIX</span></code> to the <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> implantation profiles (inside a <strong><LEM></strong> environment)</dd>
|
||||
<dt><strong><N_theory>N_THEORY</N_theory></strong></dt>
|
||||
<dd>specify the number of points <strong>N_THEORY</strong> for which <em>B(z)</em> is calculated (inside a <strong><LEM></strong> environment)
|
||||
The specification of this number is not needed if the calculation of the inverse of <em>B(z)</em> is implemented!</dd>
|
||||
<dt><strong><energy_list></energy_list></strong></dt>
|
||||
<dd><p class="first">set the energies for which <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> implantation profiles are available (inside a <strong><LEM></strong> environment)</p>
|
||||
<dl class="last docutils">
|
||||
<dt><strong><energy_label>LABEL</energy_label></strong></dt>
|
||||
<dd>specify the <strong>LABEL</strong> within the file name of a available <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> <code class="docutils literal notranslate"><span class="pre">RGE</span></code> file (inside a <strong><energy_list></strong> environment)
|
||||
The expected name of the <code class="docutils literal notranslate"><span class="pre">RGE</span></code> file will be: <code class="docutils literal notranslate"><span class="pre">DATA_PATH_PREFIX</span> <span class="pre">+</span> <span class="pre">LABEL</span> <span class="pre">+</span> <span class="pre">.rge</span></code></dd>
|
||||
<dt><strong><energy>E</energy></strong></dt>
|
||||
<dd>specify the muon energy <em>E</em> (in keV) belonging to the <code class="docutils literal notranslate"><span class="pre">TRIM.SP</span></code> <code class="docutils literal notranslate"><span class="pre">RGE</span></code> file given above (inside a <strong><energy_list></strong> environment)</dd>
|
||||
</dl>
|
||||
</dd>
|
||||
</dl>
|
||||
@ -396,43 +477,43 @@ The expected name of the <code class="docutils literal notranslate"><span class=
|
||||
<p>An example XML file looks as follows:</p>
|
||||
<div class="highlight-xml notranslate"><div class="highlight"><pre><span></span><span class="cp"><?xml version="1.0" encoding="UTF-8"?></span>
|
||||
<span class="nt"><BMW></span>
|
||||
<span class="w"> </span><span class="nt"><debug></span>0<span class="nt"></debug></span>
|
||||
<span class="w"> </span><span class="nt"><wisdom></span>/home/user/WordsOfWisdom.dat<span class="nt"></wisdom></span>
|
||||
<span class="w"> </span><span class="nt"><delta_t></span>0.01<span class="nt"></delta_t></span>
|
||||
<span class="w"> </span><span class="nt"><delta_B></span>0.5<span class="nt"></delta_B></span>
|
||||
<span class="w"> </span><span class="nt"><VortexLattice></span>
|
||||
<span class="w"> </span><span class="nt"><N_VortexGrid></span>1024<span class="nt"></N_VortexGrid></span>
|
||||
<span class="w"> </span><span class="nt"></VortexLattice></span>
|
||||
<span class="w"> </span><span class="nt"><LEM></span>
|
||||
<span class="w"> </span><span class="nt"><data_path></span>/home/user/TrimSP/some-sample-<span class="nt"></data_path></span>
|
||||
<span class="w"> </span><span class="nt"><N_theory></span>5000<span class="nt"></N_theory></span>
|
||||
<span class="w"> </span><span class="nt"><energy_list></span>
|
||||
<span class="w"> </span><span class="nt"><energy_label></span>02_0<span class="nt"></energy_label></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>2.0<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy_label></span>03_0<span class="nt"></energy_label></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>3.0<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy_label></span>03_6<span class="nt"></energy_label></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>3.6<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy_label></span>05_0<span class="nt"></energy_label></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>5.0<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy_label></span>05_3<span class="nt"></energy_label></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>5.3<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"></energy_list></span>
|
||||
<span class="w"> </span><span class="nt"></LEM></span>
|
||||
<span class="nt"><debug></span>0<span class="nt"></debug></span>
|
||||
<span class="nt"><wisdom></span>/home/user/WordsOfWisdom.dat<span class="nt"></wisdom></span>
|
||||
<span class="nt"><delta_t></span>0.01<span class="nt"></delta_t></span>
|
||||
<span class="nt"><delta_B></span>0.5<span class="nt"></delta_B></span>
|
||||
<span class="nt"><VortexLattice></span>
|
||||
<span class="nt"><N_VortexGrid></span>1024<span class="nt"></N_VortexGrid></span>
|
||||
<span class="nt"></VortexLattice></span>
|
||||
<span class="nt"><LEM></span>
|
||||
<span class="nt"><data_path></span>/home/user/TrimSP/some-sample-<span class="nt"></data_path></span>
|
||||
<span class="nt"><N_theory></span>5000<span class="nt"></N_theory></span>
|
||||
<span class="nt"><energy_list></span>
|
||||
<span class="nt"><energy_label></span>02_0<span class="nt"></energy_label></span>
|
||||
<span class="nt"><energy></span>2.0<span class="nt"></energy></span>
|
||||
<span class="nt"><energy_label></span>03_0<span class="nt"></energy_label></span>
|
||||
<span class="nt"><energy></span>3.0<span class="nt"></energy></span>
|
||||
<span class="nt"><energy_label></span>03_6<span class="nt"></energy_label></span>
|
||||
<span class="nt"><energy></span>3.6<span class="nt"></energy></span>
|
||||
<span class="nt"><energy_label></span>05_0<span class="nt"></energy_label></span>
|
||||
<span class="nt"><energy></span>5.0<span class="nt"></energy></span>
|
||||
<span class="nt"><energy_label></span>05_3<span class="nt"></energy_label></span>
|
||||
<span class="nt"><energy></span>5.3<span class="nt"></energy></span>
|
||||
<span class="nt"></energy_list></span>
|
||||
<span class="nt"></LEM></span>
|
||||
<span class="nt"></BMW></span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
</section>
|
||||
</section>
|
||||
<section id="supeconducting-gap-integrals-to-calculate-1-lambda-2-vs-t">
|
||||
<span id="gap-integral-libs"></span><span id="index-14"></span><h2>Supeconducting Gap-Integrals to calculate <span class="math notranslate nohighlight">\(1/\lambda^2\)</span> vs <span class="math notranslate nohighlight">\(T\)</span><a class="headerlink" href="#supeconducting-gap-integrals-to-calculate-1-lambda-2-vs-t" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="supeconducting-gap-integrals-to-calculate-vs">
|
||||
<span id="gap-integral-libs"></span><span id="index-14"></span><h2>Supeconducting Gap-Integrals to calculate <span class="math notranslate nohighlight">\(1/\lambda^2\)</span> vs <span class="math notranslate nohighlight">\(T\)</span><a class="headerlink" href="#supeconducting-gap-integrals-to-calculate-vs" title="Permalink to this headline">¶</a></h2>
|
||||
<p>The details about the various superconducting gap-integrals are found in the
|
||||
pdf-file <strong>GapIntegrals.pdf</strong> which can be found in the musrfit source under
|
||||
<code class="docutils literal notranslate"><span class="pre"><musrfit-dir>/src/external/libGapIntegrals/</span></code>.</p>
|
||||
</section>
|
||||
<section id="nonlocal-superconductivity-related-meissner-screening-functions-as-libs">
|
||||
<span id="nonlocal-libs"></span><span id="index-15"></span><h2>Nonlocal superconductivity related Meissner screening functions (AS libs)<a class="headerlink" href="#nonlocal-superconductivity-related-meissner-screening-functions-as-libs" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="nonlocal-superconductivity-related-meissner-screening-functions-as-libs">
|
||||
<span id="nonlocal-libs"></span><span id="index-15"></span><h2>Nonlocal superconductivity related Meissner screening functions (AS libs)<a class="headerlink" href="#nonlocal-superconductivity-related-meissner-screening-functions-as-libs" title="Permalink to this headline">¶</a></h2>
|
||||
<p>This library allows to calculate the magnetic field profile <span class="math notranslate nohighlight">\(B(z)\)</span> for nonlocal superconductors.
|
||||
For details see <a class="reference external" href="http://dx.doi.org/10.1103/PhysRevLett.95.197201">A. Suter, et al., PRB 72, 024506 (2005)</a>, and references therein.</p>
|
||||
<p>The provided function calculates the muon spin polarization</p>
|
||||
@ -445,45 +526,45 @@ The corresponding user function is called as</p>
|
||||
</div>
|
||||
<p>with the parameters</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>implantation energy in (keV).</p></li>
|
||||
<li><p>reduced temperature <span class="math notranslate nohighlight">\(t=T/T_c\)</span>.</p></li>
|
||||
<li><p>thickness in (nm).</p></li>
|
||||
<li><p>electron mean path, <span class="math notranslate nohighlight">\(\ell\)</span> in (nm).</p></li>
|
||||
<li><p>superconducting coherence length, <span class="math notranslate nohighlight">\(\xi\)</span> in (nm).</p></li>
|
||||
<li><p>London penetration length, <span class="math notranslate nohighlight">\(\lambda_{\rm L}\)</span> in (nm).</p></li>
|
||||
<li><p>external magnetic field strength in (G).</p></li>
|
||||
<li><p>the effective detector phase, <span class="math notranslate nohighlight">\(\varphi\)</span> in <span class="math notranslate nohighlight">\((^\circ)\)</span>.</p></li>
|
||||
<li><p>a “dead layer” thickness in (nm).</p></li>
|
||||
<li>implantation energy in (keV).</li>
|
||||
<li>reduced temperature <span class="math notranslate nohighlight">\(t=T/T_c\)</span>.</li>
|
||||
<li>thickness in (nm).</li>
|
||||
<li>electron mean path, <span class="math notranslate nohighlight">\(\ell\)</span> in (nm).</li>
|
||||
<li>superconducting coherence length, <span class="math notranslate nohighlight">\(\xi\)</span> in (nm).</li>
|
||||
<li>London penetration length, <span class="math notranslate nohighlight">\(\lambda_{\rm L}\)</span> in (nm).</li>
|
||||
<li>external magnetic field strength in (G).</li>
|
||||
<li>the effective detector phase, <span class="math notranslate nohighlight">\(\varphi\)</span> in <span class="math notranslate nohighlight">\((^\circ)\)</span>.</li>
|
||||
<li>a “dead layer” thickness in (nm).</li>
|
||||
</ol>
|
||||
<p>Typically this function needs to be multiplied by a Gaussian in order to take into account: nuclear dipole broadening, partial trapped flux, etc.</p>
|
||||
<p>In order to find the muon stopping profile, <span class="math notranslate nohighlight">\(n(z,E)\)</span>, needed for the calculation, the library needs to find the corresponding trimsp
|
||||
rge-files (muon stoppping profiles). For this the library reads at start-up the following xml-file (example):</p>
|
||||
<div class="highlight-xml notranslate"><div class="highlight"><pre><span></span><span class="cp"><?xml version="1.0" encoding="UTF-8"?></span>
|
||||
<span class="nt"><nonlocal</span><span class="w"> </span><span class="na">xmlns=</span><span class="s">"http://nemu.web.psi.ch/musrfit/nonlocal"</span><span class="nt">></span>
|
||||
<span class="w"> </span><span class="nt"><comment></span>
|
||||
<span class="w"> </span>nonlocal_startup.xml
|
||||
<span class="w"> </span><span class="nt"></comment></span>
|
||||
<span class="w"> </span><span class="nt"><nonlocal_par></span>
|
||||
<span class="w"> </span><span class="nt"><fourier_points></span>262144<span class="nt"></fourier_points></span>
|
||||
<span class="w"> </span><span class="nt"></nonlocal_par></span>
|
||||
<span class="w"> </span><span class="nt"><trim_sp></span>
|
||||
<span class="w"> </span><span class="nt"><data_path></span>./profiles/<span class="nt"></data_path></span>
|
||||
<span class="w"> </span><span class="nt"><rge_fln_pre></span>Sn_E<span class="nt"></rge_fln_pre></span>
|
||||
<span class="w"> </span><span class="nt"><energy_list></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>1000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>2000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>4000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>6000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>8000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>10000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>12000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>14100<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>18000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>22000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>25000<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"><energy></span>27300<span class="nt"></energy></span>
|
||||
<span class="w"> </span><span class="nt"></energy_list></span>
|
||||
<span class="w"> </span><span class="nt"></trim_sp></span>
|
||||
<span class="nt"><nonlocal</span> <span class="na">xmlns=</span><span class="s">"http://nemu.web.psi.ch/musrfit/nonlocal"</span><span class="nt">></span>
|
||||
<span class="nt"><comment></span>
|
||||
nonlocal_startup.xml
|
||||
<span class="nt"></comment></span>
|
||||
<span class="nt"><nonlocal_par></span>
|
||||
<span class="nt"><fourier_points></span>262144<span class="nt"></fourier_points></span>
|
||||
<span class="nt"></nonlocal_par></span>
|
||||
<span class="nt"><trim_sp></span>
|
||||
<span class="nt"><data_path></span>./profiles/<span class="nt"></data_path></span>
|
||||
<span class="nt"><rge_fln_pre></span>Sn_E<span class="nt"></rge_fln_pre></span>
|
||||
<span class="nt"><energy_list></span>
|
||||
<span class="nt"><energy></span>1000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>2000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>4000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>6000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>8000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>10000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>12000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>14100<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>18000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>22000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>25000<span class="nt"></energy></span>
|
||||
<span class="nt"><energy></span>27300<span class="nt"></energy></span>
|
||||
<span class="nt"></energy_list></span>
|
||||
<span class="nt"></trim_sp></span>
|
||||
<span class="nt"></nonlocal></span>
|
||||
</pre></div>
|
||||
</div>
|
||||
@ -493,9 +574,9 @@ contains all the information needed to load the proper muon stopping profiles. <
|
||||
muon stopping profile for an energy of <span class="math notranslate nohighlight">\(E=1000\)</span> (eV).</p>
|
||||
<p>The name of the xml-file has to be <code class="docutils literal notranslate"><span class="pre">nonlocal_startup.xml</span></code> and needs to be placed in the directory where the analysis takes place, i.e.
|
||||
in the directory of all the msr-files.</p>
|
||||
</section>
|
||||
<section id="depth-resolved-information-as-libs">
|
||||
<span id="depthprof-lib"></span><span id="index-16"></span><h2>Depth resolved information (AS libs)<a class="headerlink" href="#depth-resolved-information-as-libs" title="Link to this heading"></a></h2>
|
||||
</div>
|
||||
<div class="section" id="depth-resolved-information-as-libs">
|
||||
<span id="depthprof-lib"></span><span id="index-16"></span><h2>Depth resolved information (AS libs)<a class="headerlink" href="#depth-resolved-information-as-libs" title="Permalink to this headline">¶</a></h2>
|
||||
<p>A method to extract depth-resolved information from the implantation energy dependence of the experimental parameters in a low-energy
|
||||
muon spin spectroscopy experiment. For details see <a class="reference external" href="https://doi.org/10.1063/1.5126529">A. F. A. Simões, et al. Review of Scientific Instruments. 2020; 91(2): 023906 (7 pp.)</a>.</p>
|
||||
<p>If you have a layered material (e.g. <span class="math notranslate nohighlight">\(N\)</span> layers), properties like the asymmetry might depend on the layer in which the muons are stopped.
|
||||
@ -509,8 +590,8 @@ Hence the measured property as function of energy is</p>
|
||||
<div class="math notranslate nohighlight">
|
||||
\[f(E) = \sum_{i=1}^N p_{i}(E) \cdot f_i.\]</div>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>Currently it is recommended to read in the data in ASCII or DAT format as a non-μSR fit <a class="reference internal" href="user-manual.html#non-musr-fit"><span class="std std-ref">(fit type 8)</span></a>.</p>
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">Currently it is recommended to read in the data in ASCII or DAT format as a non-μSR fit <a class="reference internal" href="user-manual.html#non-musr-fit"><span class="std std-ref">(fit type 8)</span></a>.</p>
|
||||
</div>
|
||||
<p>The user library for the depth profile analysis looks for a <strong>3 layer material</strong>, assuming one is looking for the diamagnetic fraction, like</p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="c1">###############################################################</span>
|
||||
@ -531,33 +612,33 @@ Hence the measured property as function of energy is</p>
|
||||
<p>In order to find the muon stopping profile, <span class="math notranslate nohighlight">\(n(z,E)\)</span>, needed for the calculation, the library needs to find the corresponding trimsp
|
||||
rge-files (muon stoppping profiles). For this the library reads at start-up the following xml-file (example):</p>
|
||||
<div class="highlight-xml notranslate"><div class="highlight"><pre><span></span><span class="cp"><?xml version="1.0" encoding="UTF-8"?></span>
|
||||
<span class="nt"><depthProf</span><span class="w"> </span><span class="na">xmlns=</span><span class="s">"http://nemu.web.psi.ch/musrfit/depthProf"</span><span class="nt">></span>
|
||||
<span class="w"> </span><span class="nt"><comment></span>
|
||||
<span class="w"> </span>TrimSp<span class="w"> </span>information
|
||||
<span class="w"> </span><span class="nt"></comment></span>
|
||||
<span class="w"> </span><span class="nt"><trim_sp></span>
|
||||
<span class="w"> </span><span class="nt"><data_path></span>./TRIMSP/<span class="nt"></data_path></span>
|
||||
<span class="w"> </span><span class="nt"><rge_fln_pre></span>SiO2_70nm2.0_30nm2.2_SiC_E<span class="nt"></rge_fln_pre></span>
|
||||
<span class="w"> </span><span class="nt"><energy_vect</span><span class="w"> </span><span class="na">start=</span><span class="s">"1000"</span><span class="w"> </span><span class="na">stop=</span><span class="s">"22000"</span><span class="w"> </span><span class="na">step=</span><span class="s">"1000"</span><span class="nt">/></span>
|
||||
<span class="w"> </span><span class="nt"></trim_sp></span>
|
||||
<span class="nt"><depthProf</span> <span class="na">xmlns=</span><span class="s">"http://nemu.web.psi.ch/musrfit/depthProf"</span><span class="nt">></span>
|
||||
<span class="nt"><comment></span>
|
||||
TrimSp information
|
||||
<span class="nt"></comment></span>
|
||||
<span class="nt"><trim_sp></span>
|
||||
<span class="nt"><data_path></span>./TRIMSP/<span class="nt"></data_path></span>
|
||||
<span class="nt"><rge_fln_pre></span>SiO2_70nm2.0_30nm2.2_SiC_E<span class="nt"></rge_fln_pre></span>
|
||||
<span class="nt"><energy_vect</span> <span class="na">start=</span><span class="s">"1000"</span> <span class="na">stop=</span><span class="s">"22000"</span> <span class="na">step=</span><span class="s">"1000"</span><span class="nt">/></span>
|
||||
<span class="nt"></trim_sp></span>
|
||||
<span class="nt"></depthProf></span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
<section id="functions-to-analyze-bgr-nmr-data-bnmr-libs">
|
||||
<span id="bnmr-libs"></span><span id="index-17"></span><h2>Functions to analyze β-NMR data (BNMR libs)<a class="headerlink" href="#functions-to-analyze-bgr-nmr-data-bnmr-libs" title="Link to this heading"></a></h2>
|
||||
<p>This is a collection of <code class="docutils literal notranslate"><span class="pre">C++</span></code> classes using the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> <a class="reference internal" href="user-manual.html#id41"><span class="std std-ref">user-functions</span></a>
|
||||
</div>
|
||||
<div class="section" id="functions-to-analyze-bgr-nmr-data-bnmr-libs">
|
||||
<span id="bnmr-libs"></span><span id="index-17"></span><h2>Functions to analyze β-NMR data (BNMR libs)<a class="headerlink" href="#functions-to-analyze-bgr-nmr-data-bnmr-libs" title="Permalink to this headline">¶</a></h2>
|
||||
<p>This is a collection of <code class="docutils literal notranslate"><span class="pre">C++</span></code> classes using the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> <a class="reference internal" href="user-manual.html#id38"><span class="std std-ref">user-functions</span></a>
|
||||
interface in order to facilitate the usage in conjunction with <code class="docutils literal notranslate"><span class="pre">musrfit</span></code>. It consists of two libraries:</p>
|
||||
<ul class="simple">
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">libBNMR</span></code> contains functions to fit spin lattice relaxation (SLR) data.</p></li>
|
||||
<li><p><code class="docutils literal notranslate"><span class="pre">libLineProfile</span></code> contains functions to fit resonance lineshapes.</p></li>
|
||||
<li><code class="docutils literal notranslate"><span class="pre">libBNMR</span></code> contains functions to fit spin lattice relaxation (SLR) data.</li>
|
||||
<li><code class="docutils literal notranslate"><span class="pre">libLineProfile</span></code> contains functions to fit resonance lineshapes.</li>
|
||||
</ul>
|
||||
<div class="admonition note">
|
||||
<p class="admonition-title">Note</p>
|
||||
<p>Currently it is recommended to read in the data in ASCII format as a non-μSR fit <a class="reference internal" href="user-manual.html#non-musr-fit"><span class="std std-ref">(fit type 8)</span></a>.</p>
|
||||
<p class="first admonition-title">Note</p>
|
||||
<p class="last">Currently it is recommended to read in the data in ASCII format as a non-μSR fit <a class="reference internal" href="user-manual.html#non-musr-fit"><span class="std std-ref">(fit type 8)</span></a>.</p>
|
||||
</div>
|
||||
<section id="libbnmr">
|
||||
<span id="index-18"></span><h3>libBNMR<a class="headerlink" href="#libbnmr" title="Link to this heading"></a></h3>
|
||||
<div class="section" id="libbnmr">
|
||||
<span id="index-18"></span><h3>libBNMR<a class="headerlink" href="#libbnmr" title="Permalink to this headline">¶</a></h3>
|
||||
<p>In β-NMR the SLR is usually measured by implanting a pulse of <span class="math notranslate nohighlight">\(^8\)</span>Li with a length <span class="math notranslate nohighlight">\(t_0\)</span> into the sample.
|
||||
The asymmetry is measured both during the pulse and afterwards. For a a general spin relaxation function <span class="math notranslate nohighlight">\(f(t)\)</span> the time evolution of the asymmetry is then given by [<a class="reference external" href="http://dx.doi.org/10.1103/PhysRevLett.96.147601">Z. Salman, et al., PRL 96, 147601 (2006)</a>]:</p>
|
||||
<div class="math notranslate nohighlight" id="slr">
|
||||
@ -566,8 +647,8 @@ The asymmetry is measured both during the pulse and afterwards. For a a general
|
||||
\frac{\int_0^{t_0}e^{-(t_0-t')/\tau_{\mathrm{Li}}}f(t-t')dt'}{\int_0^{t_0}e^{-t'/\tau_{\mathrm{Li}}}dt'} & t> t_0,
|
||||
\end{matrix}\right.\end{split}\]</div>
|
||||
<p>where <span class="math notranslate nohighlight">\(\tau_{\mathrm{Li}}=1.21\)</span>s is the <span class="math notranslate nohighlight">\(^8\)</span>Li lifetime.</p>
|
||||
<section id="functions">
|
||||
<h4>Functions<a class="headerlink" href="#functions" title="Link to this heading"></a></h4>
|
||||
<div class="section" id="functions">
|
||||
<h4>Functions<a class="headerlink" href="#functions" title="Permalink to this headline">¶</a></h4>
|
||||
<p>The <code class="docutils literal notranslate"><span class="pre">libBNMR</span></code> library currently contains the following functions:</p>
|
||||
<p id="index-20"><strong>Exponential relaxation</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libBNMR</span> <span class="n">ExpRlx</span> <span class="mi">1</span> <span class="mi">2</span>
|
||||
@ -575,8 +656,8 @@ The asymmetry is measured both during the pulse and afterwards. For a a general
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>pulse length <span class="math notranslate nohighlight">\(t_0\)</span> (s)</p></li>
|
||||
<li><p>relaxation rate <span class="math notranslate nohighlight">\(\lambda\)</span> (s<span class="math notranslate nohighlight">\(^{-1}\)</span>)</p></li>
|
||||
<li>pulse length <span class="math notranslate nohighlight">\(t_0\)</span> (s)</li>
|
||||
<li>relaxation rate <span class="math notranslate nohighlight">\(\lambda\)</span> (s<span class="math notranslate nohighlight">\(^{-1}\)</span>)</li>
|
||||
</ol>
|
||||
<p>This function implements <span class="math notranslate nohighlight">\(f(t)=e^{-\lambda t}\)</span>.</p>
|
||||
<p id="index-21"><strong>Stretched exponential relaxation</strong></p>
|
||||
@ -585,15 +666,15 @@ The asymmetry is measured both during the pulse and afterwards. For a a general
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>pulse length <span class="math notranslate nohighlight">\(t_0\)</span> (s)</p></li>
|
||||
<li><p>relaxation rate <span class="math notranslate nohighlight">\(\lambda\)</span> (s<span class="math notranslate nohighlight">\(^{-1}\)</span>)</p></li>
|
||||
<li><p>stretching exponent <span class="math notranslate nohighlight">\(\beta\)</span></p></li>
|
||||
<li>pulse length <span class="math notranslate nohighlight">\(t_0\)</span> (s)</li>
|
||||
<li>relaxation rate <span class="math notranslate nohighlight">\(\lambda\)</span> (s<span class="math notranslate nohighlight">\(^{-1}\)</span>)</li>
|
||||
<li>stretching exponent <span class="math notranslate nohighlight">\(\beta\)</span></li>
|
||||
</ol>
|
||||
<p>This function implements <span class="math notranslate nohighlight">\(f(t)=e^{-(\lambda t)^{\beta}}\)</span>.</p>
|
||||
</section>
|
||||
</section>
|
||||
<section id="liblineprofile">
|
||||
<span id="index-22"></span><h3>libLineProfile<a class="headerlink" href="#liblineprofile" title="Link to this heading"></a></h3>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="liblineprofile">
|
||||
<span id="index-22"></span><h3>libLineProfile<a class="headerlink" href="#liblineprofile" title="Permalink to this headline">¶</a></h3>
|
||||
<p>In addition to some simple line shapes <code class="docutils literal notranslate"><span class="pre">libLineProfile</span></code> contains functions to fit chemical shift anisotropies in the powder average.
|
||||
Their functional form can be found in <a class="reference external" href="http://dx.doi.org/10.1007/978-3-642-68756-3_2">M. Mehring, Principles of High Resolution NMR in Solids (Springer 1983)</a>.</p>
|
||||
<p>For an axially symmetric interaction it is given by:</p>
|
||||
@ -618,8 +699,8 @@ m&=\left\{\begin{matrix}
|
||||
\\
|
||||
K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\end{split}\]</div>
|
||||
<p><span class="math notranslate nohighlight">\(K(m)\)</span> is the complete elliptic integral of the first kind.</p>
|
||||
<section id="id1">
|
||||
<h4>Functions<a class="headerlink" href="#id1" title="Link to this heading"></a></h4>
|
||||
<div class="section" id="id1">
|
||||
<h4>Functions<a class="headerlink" href="#id1" title="Permalink to this headline">¶</a></h4>
|
||||
<p>The <code class="docutils literal notranslate"><span class="pre">libLineProfile</span></code> library currently contains the following functions:</p>
|
||||
<p id="index-25"><strong>Gaussian</strong></p>
|
||||
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">userFcn</span> <span class="n">libLineProfile</span> <span class="n">LineGauss</span> <span class="mi">1</span> <span class="mi">2</span>
|
||||
@ -627,8 +708,8 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></p></li>
|
||||
<li><p>FWHM of the line <span class="math notranslate nohighlight">\(\sigma\)</span></p></li>
|
||||
<li>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></li>
|
||||
<li>FWHM of the line <span class="math notranslate nohighlight">\(\sigma\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is 1.</div>
|
||||
@ -642,8 +723,8 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></p></li>
|
||||
<li><p>FWHM of the line <span class="math notranslate nohighlight">\(w\)</span></p></li>
|
||||
<li>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></li>
|
||||
<li>FWHM of the line <span class="math notranslate nohighlight">\(w\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is 1.</div>
|
||||
@ -657,8 +738,8 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></p></li>
|
||||
<li><p>FWHM of the line <span class="math notranslate nohighlight">\(w\)</span></p></li>
|
||||
<li>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></li>
|
||||
<li>FWHM of the line <span class="math notranslate nohighlight">\(w\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is 1.</div>
|
||||
@ -672,9 +753,9 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></p></li>
|
||||
<li><p>width of the line <span class="math notranslate nohighlight">\(w\)</span></p></li>
|
||||
<li><p>skewness parameter <span class="math notranslate nohighlight">\(a\)</span></p></li>
|
||||
<li>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></li>
|
||||
<li>width of the line <span class="math notranslate nohighlight">\(w\)</span></li>
|
||||
<li>skewness parameter <span class="math notranslate nohighlight">\(a\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is 1.</div>
|
||||
@ -688,9 +769,9 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></p></li>
|
||||
<li><p>width left of the center <span class="math notranslate nohighlight">\(w_1\)</span></p></li>
|
||||
<li><p>width right of the center <span class="math notranslate nohighlight">\(w_2\)</span></p></li>
|
||||
<li>center of the line <span class="math notranslate nohighlight">\(f_0\)</span></li>
|
||||
<li>width left of the center <span class="math notranslate nohighlight">\(w_1\)</span></li>
|
||||
<li>width right of the center <span class="math notranslate nohighlight">\(w_2\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is 1.</div>
|
||||
@ -704,9 +785,9 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>frequency for the field oriented paralell to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></p></li>
|
||||
<li><p>frequency for the field oriented perpendicular to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></p></li>
|
||||
<li><p>FWHM of the Lorentzian <span class="math notranslate nohighlight">\(w\)</span></p></li>
|
||||
<li>frequency for the field oriented paralell to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></li>
|
||||
<li>frequency for the field oriented perpendicular to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></li>
|
||||
<li>FWHM of the Lorentzian <span class="math notranslate nohighlight">\(w\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is <span class="math notranslate nohighlight">\(\sim\)</span>1.</div>
|
||||
@ -721,9 +802,9 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p>frequency for the field oriented paralell to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></p></li>
|
||||
<li><p>frequency for the field oriented perpendicular to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></p></li>
|
||||
<li><p>FWHM of the Gaussian <span class="math notranslate nohighlight">\(\sigma\)</span></p></li>
|
||||
<li>frequency for the field oriented paralell to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></li>
|
||||
<li>frequency for the field oriented perpendicular to the symmetry axis <span class="math notranslate nohighlight">\(f_\parallel\)</span></li>
|
||||
<li>FWHM of the Gaussian <span class="math notranslate nohighlight">\(\sigma\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is <span class="math notranslate nohighlight">\(\sim\)</span>1.</div>
|
||||
@ -738,10 +819,10 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p><span class="math notranslate nohighlight">\(f_1\)</span></p></li>
|
||||
<li><p><span class="math notranslate nohighlight">\(f_1\)</span></p></li>
|
||||
<li><p><span class="math notranslate nohighlight">\(f_3\)</span> frequencies along the principal axes</p></li>
|
||||
<li><p>FWHM of the Lorentzian <span class="math notranslate nohighlight">\(w\)</span></p></li>
|
||||
<li><span class="math notranslate nohighlight">\(f_1\)</span></li>
|
||||
<li><span class="math notranslate nohighlight">\(f_1\)</span></li>
|
||||
<li><span class="math notranslate nohighlight">\(f_3\)</span> frequencies along the principal axes</li>
|
||||
<li>FWHM of the Lorentzian <span class="math notranslate nohighlight">\(w\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is <span class="math notranslate nohighlight">\(\sim\)</span>1.</div>
|
||||
@ -756,10 +837,10 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
</div>
|
||||
<p>The parameters are:</p>
|
||||
<ol class="arabic simple">
|
||||
<li><p><span class="math notranslate nohighlight">\(f_1\)</span></p></li>
|
||||
<li><p><span class="math notranslate nohighlight">\(f_1\)</span></p></li>
|
||||
<li><p><span class="math notranslate nohighlight">\(f_3\)</span> frequencies along the principal axes</p></li>
|
||||
<li><p>FWHM of the Gaussian <span class="math notranslate nohighlight">\(\sigma\)</span></p></li>
|
||||
<li><span class="math notranslate nohighlight">\(f_1\)</span></li>
|
||||
<li><span class="math notranslate nohighlight">\(f_1\)</span></li>
|
||||
<li><span class="math notranslate nohighlight">\(f_3\)</span> frequencies along the principal axes</li>
|
||||
<li>FWHM of the Gaussian <span class="math notranslate nohighlight">\(\sigma\)</span></li>
|
||||
</ol>
|
||||
<div class="line-block">
|
||||
<div class="line">The height of the peak is <span class="math notranslate nohighlight">\(\sim\)</span>1.</div>
|
||||
@ -768,38 +849,75 @@ K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},\en
|
||||
<div class="math notranslate nohighlight">
|
||||
\[A(f)= I(f)\circledast\left( e^{-\frac{4\ln 2 (f-f_0)^2}{ \sigma^2}} \right)\]</div>
|
||||
<p>with <span class="math notranslate nohighlight">\(I(f)\)</span> defined <a class="reference internal" href="#ianiso"><span class="std std-ref">above</span></a>. Note that <span class="math notranslate nohighlight">\(f_1<f_2<f_3\)</span> is not required by the code.</p>
|
||||
</section>
|
||||
</section>
|
||||
</section>
|
||||
</section>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
|
||||
|
||||
</div>
|
||||
|
||||
</div>
|
||||
<footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
|
||||
<a href="user-manual.html" class="btn btn-neutral float-left" title="User manual" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
|
||||
<a href="setup-standard.html" class="btn btn-neutral float-right" title="Setting up musrfit on Different Platforms" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
|
||||
<footer>
|
||||
|
||||
<div class="rst-footer-buttons" role="navigation" aria-label="footer navigation">
|
||||
|
||||
<a href="setup-standard.html" class="btn btn-neutral float-right" title="Setting up musrfit on Different Platforms" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a>
|
||||
|
||||
|
||||
<a href="user-manual.html" class="btn btn-neutral" title="User manual" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a>
|
||||
|
||||
</div>
|
||||
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Andreas Suter.
|
||||
<span class="lastupdated">Last updated on Jun 07, 2025.
|
||||
</span></p>
|
||||
<p>
|
||||
© Copyright 2023, Andreas Suter.
|
||||
Last updated on Jun 24, 2024.
|
||||
|
||||
</p>
|
||||
</div>
|
||||
|
||||
Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
|
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<a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
|
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provided by <a href="https://readthedocs.org">Read the Docs</a>.
|
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|
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Built with <a href="http://sphinx-doc.org/">Sphinx</a> using a <a href="https://github.com/rtfd/sphinx_rtd_theme">theme</a> provided by <a href="https://readthedocs.org">Read the Docs</a>.
|
||||
|
||||
</footer>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
|
||||
</section>
|
||||
|
||||
</div>
|
||||
<script>
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
<script type="text/javascript">
|
||||
var DOCUMENTATION_OPTIONS = {
|
||||
URL_ROOT:'./',
|
||||
VERSION:'1.9.5',
|
||||
LANGUAGE:'None',
|
||||
COLLAPSE_INDEX:false,
|
||||
FILE_SUFFIX:'.html',
|
||||
HAS_SOURCE: true,
|
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SOURCELINK_SUFFIX: '.txt'
|
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};
|
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</script>
|
||||
<script type="text/javascript" src="_static/jquery.js"></script>
|
||||
<script type="text/javascript" src="_static/underscore.js"></script>
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<script type="text/javascript" src="_static/doctools.js"></script>
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<script type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.1/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script>
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|
||||
|
||||
|
||||
|
||||
<script type="text/javascript" src="_static/js/theme.js"></script>
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<script type="text/javascript">
|
||||
jQuery(function () {
|
||||
SphinxRtdTheme.Navigation.enable(true);
|
||||
});
|
||||
|
||||
File diff suppressed because it is too large
Load Diff
@ -22,6 +22,38 @@ if (nexus)
|
||||
endif (nexus)
|
||||
set(MUSRFIT_LIBS ${MUSRFIT_LIBS} PMusr)
|
||||
|
||||
#--- start create git-revision.h ----------------------------------------------
|
||||
if (IS_GIT_REPO)
|
||||
configure_file(
|
||||
${CMAKE_SOURCE_DIR}/cmake/configure_musrfit_version_file.cmake.in
|
||||
${CMAKE_CURRENT_BINARY_DIR}/configure_musrfit_version_file.cmake
|
||||
@ONLY
|
||||
)
|
||||
|
||||
add_custom_command(
|
||||
OUTPUT ${CMAKE_CURRENT_BINARY_DIR}/git-revision.h
|
||||
COMMAND ${CMAKE_COMMAND} -P
|
||||
${CMAKE_CURRENT_BINARY_DIR}/configure_musrfit_version_file.cmake
|
||||
DEPENDS
|
||||
${CMAKE_CURRENT_BINARY_DIR}/configure_musrfit_version_file.cmake
|
||||
${CMAKE_SOURCE_DIR}/cmake/git-revision.h.in
|
||||
COMMENT "Configuring git-revision.h"
|
||||
VERBATIM
|
||||
)
|
||||
|
||||
add_custom_target(
|
||||
configure_musrfit_version ALL
|
||||
DEPENDS ${CMAKE_CURRENT_BINARY_DIR}/git-revision.h
|
||||
)
|
||||
set(HAVE_GIT_REV_H "-DHAVE_GIT_REV_H")
|
||||
set(GIT_REV_H "git-revision.h")
|
||||
else (IS_GIT_REPO)
|
||||
set(HAVE_GIT_REV_H "")
|
||||
set(GIT_REV_H "")
|
||||
endif (IS_GIT_REPO)
|
||||
|
||||
#--- end create git-revision.h ------------------------------------------------
|
||||
|
||||
#--- add all executables ------------------------------------------------------
|
||||
add_executable(addRun ${GIT_REV_H} addRun.cpp)
|
||||
target_compile_options(addRun BEFORE PRIVATE "-DHAVE_CONFIG_H" "${HAVE_GIT_REV_H}")
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -73,7 +73,7 @@ set(prefix "${CMAKE_INSTALL_PREFIX}")
|
||||
set(exec_prefix "\$\{prefix\}")
|
||||
set(libdir "\$\{exec_prefix\}/lib")
|
||||
set(includedir "\$\{prefix\}/include")
|
||||
set(MUSR_VERSION "1.5.0")
|
||||
set(MUSR_VERSION "1.4.0")
|
||||
set(MUSR_LIBRARY_NAME "PMusr")
|
||||
configure_file("PMusr.pc.in" "PMusr.pc" @ONLY)
|
||||
set(USERFCN_LIBRARY_NAME "PUserFcnBase")
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2009-2025 by Bastian M. Wojek / Andreas Suter *
|
||||
* Copyright (C) 2009-2024 by Bastian M. Wojek / Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
@ -3244,10 +3244,7 @@ Bool_t PMsrHandler::HandleRunEntry(PMsrLines &lines)
|
||||
while ((iter != lines.end()) && !error) {
|
||||
// remove potential comment at the end of lines
|
||||
str = iter->fLine;
|
||||
Ssiz_t idx = str.Index("#");
|
||||
if (idx != -1)
|
||||
str.Remove(idx);
|
||||
idx = str.Index("(");
|
||||
Ssiz_t idx = str.Index("(");
|
||||
if (idx != -1)
|
||||
str.Remove(idx);
|
||||
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
@ -260,7 +260,6 @@ PRawRunDataSet::PRawRunDataSet()
|
||||
*/
|
||||
void PRawRunDataSet::Clear()
|
||||
{
|
||||
fTitle = TString("n/a");
|
||||
fName = TString("n/a");
|
||||
fHistoNo = -1;
|
||||
fTimeZeroBin = 0.0;
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
@ -935,14 +935,7 @@ void PMusrCanvas::Done(Int_t status)
|
||||
void PMusrCanvas::HandleCmdKey(Int_t event, Int_t x, Int_t y, TObject *selected)
|
||||
{
|
||||
if (event != kKeyPress)
|
||||
return;
|
||||
|
||||
// this is a workaround which should prevent that the key event is executed if
|
||||
// a text/latex is written into the canvas.
|
||||
if (selected) {
|
||||
if (!strcmp(selected->GetTitle(), "dataTheoryPad"))
|
||||
return;
|
||||
}
|
||||
return;
|
||||
|
||||
if (fBatchMode) {
|
||||
if (fStartWithAvg) { // this is needed to get the averaging in the batch mode
|
||||
@ -1936,8 +1929,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_DATA:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "x, diff, errDiff" << std::endl;
|
||||
fout << "% x, diff, errDiff" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size()-1; i++) {
|
||||
fout << "x" << i << " , diff" << i << ", errDiff" << i << ", ";
|
||||
}
|
||||
@ -1947,8 +1941,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_REAL:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "x, F_diffRe" << std::endl;
|
||||
fout << "% x, F_diffRe" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size()-1; i++) {
|
||||
fout << "freq" << i << ", F_diffRe" << i << ", ";
|
||||
}
|
||||
@ -1958,8 +1953,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_IMAG:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "x, F_diffIm" << std::endl;
|
||||
fout << "% x, F_diffIm" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size()-1; i++) {
|
||||
fout << "freq" << i << ", F_diffIm" << i << ", ";
|
||||
}
|
||||
@ -1969,8 +1965,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_REAL_AND_IMAG:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "x, F_diffRe, F_diffIm" << std::endl;
|
||||
fout << "% x, F_diffRe, F_diffIm" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size()/2; i++) {
|
||||
fout << "freq" << i << ", F_diffRe" << i << ", ";
|
||||
}
|
||||
@ -1983,8 +1980,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_PWR:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "x, F_diffPwr" << std::endl;
|
||||
fout << "% x, F_diffPwr" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size()-1; i++) {
|
||||
fout << "freq" << i << ", F_diffPwr" << i << ", ";
|
||||
}
|
||||
@ -1994,8 +1992,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_PHASE:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "x, F_diffPhase" << std::endl;
|
||||
fout << "% x, F_diffPhase" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size()-1; i++) {
|
||||
fout << "freq" << i << ", F_diffPhase" << i << ", ";
|
||||
}
|
||||
@ -2044,22 +2043,24 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "% xData, data, errData, xTheory, theory" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size(); i++) {
|
||||
if (i % 2 == 0)
|
||||
fout << "xData" << i/2 << ", data" << i/2 << ", errData" << i/2 << ", ";
|
||||
fout << "xData" << i/2 << " , data" << i/2 << ", errData" << i/2 << ", ";
|
||||
else
|
||||
if (i == dumpVector.size()-1)
|
||||
fout << "xTheory" << (i-1)/2 << ", theory" << (i-1)/2 << std::endl;
|
||||
fout << "xTheory" << (i-1)/2 << " , theory" << (i-1)/2 << std::endl;
|
||||
else
|
||||
fout << "xTheory" << (i-1)/2 << ", theory" << (i-1)/2 << ", ";
|
||||
fout << "xTheory" << (i-1)/2 << " , theory" << (i-1)/2 << ", ";
|
||||
}
|
||||
}
|
||||
break;
|
||||
case PV_FOURIER_REAL:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "freq, F_Re, freqTheo, F_theoRe" << std::endl;
|
||||
fout << "% freq, F_Re, freqTheo, F_theoRe" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size(); i++) {
|
||||
if (i % 2 == 0)
|
||||
fout << "freq" << i/2 << ", F_Re" << i/2 << ", ";
|
||||
@ -2074,7 +2075,7 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_IMAG:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "freq, F_Im, freqTheo, F_theoIm" << std::endl;
|
||||
fout << "% freq, F_Im, freqTheo, F_theoIm" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size(); i++) {
|
||||
@ -2091,8 +2092,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_REAL_AND_IMAG:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "freq, F_Re, freqTheo, F_theoRe, freq, F_Im, freqTheo, F_theoIm" << std::endl;
|
||||
fout << "% freq, F_Re, freqTheo, F_theoRe, freq, F_Im, freqTheo, F_theoIm" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size(); i++) {
|
||||
if (i % 4 == 0)
|
||||
fout << "freq" << i/4 << ", F_Re" << i/4 << ", ";
|
||||
@ -2111,8 +2113,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_PWR:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "freq, F_Pwr, freqTheo, F_theoPwr" << std::endl;
|
||||
fout << "% freq, F_Pwr, freqTheo, F_theoPwr" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size(); i++) {
|
||||
if (i % 2 == 0)
|
||||
fout << "freq" << i/2 << ", F_Pwr" << i/2 << ", ";
|
||||
@ -2127,8 +2130,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
|
||||
case PV_FOURIER_PHASE:
|
||||
if (fAveragedView) {
|
||||
fout << "% from averaged view" << std::endl;
|
||||
fout << "freq, F_Phase, freqTheo, F_theoPhase" << std::endl;
|
||||
fout << "% freq, F_Phase, freqTheo, F_theoPhase" << std::endl;
|
||||
} else {
|
||||
fout << "% ";
|
||||
for (UInt_t i=0; i<dumpVector.size(); i++) {
|
||||
if (i % 2 == 0)
|
||||
fout << "freq" << i/2 << ", F_Phase" << i/2 << ", ";
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -9,7 +9,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2018-2025 by Zaher Salman *
|
||||
* Copyright (C) 2018-2024 by Zaher Salman *
|
||||
* zaher.salman@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
@ -1891,10 +1891,6 @@ Bool_t PRunDataHandler::ReadRootFile()
|
||||
}
|
||||
}
|
||||
|
||||
header->Get("RunInfo/Sample Orientation", str, ok);
|
||||
if (ok)
|
||||
runData.SetOrientation(str);
|
||||
|
||||
// check further for LEM specific stuff in RunInfo
|
||||
|
||||
header->Get("RunInfo/Moderator HV", prop, ok);
|
||||
@ -2055,15 +2051,11 @@ Bool_t PRunDataHandler::ReadRootFile()
|
||||
}
|
||||
|
||||
dataSet.Clear();
|
||||
dataSet.SetTitle(histo->GetTitle());
|
||||
dataSet.SetName(histo->GetTitle());
|
||||
dataSet.SetHistoNo(redGreenOffsets[i]+j+1);
|
||||
|
||||
// get detector info
|
||||
path.Form("DetectorInfo/Detector%03d/", redGreenOffsets[i]+j+1);
|
||||
pathName = path + "Name";
|
||||
header->Get(pathName, str, ok);
|
||||
if (ok)
|
||||
dataSet.SetName(str);
|
||||
pathName = path + "Time Zero Bin";
|
||||
header->Get(pathName, dval, ok);
|
||||
if (ok)
|
||||
@ -5586,30 +5578,6 @@ Bool_t PRunDataHandler::WritePsiBinFile(TString fln)
|
||||
Int_t ival = 0;
|
||||
PRawRunDataSet *dataSet;
|
||||
UInt_t size = fData[0].GetNoOfHistos();
|
||||
// collect histo names in order to see if they are still unique after cropping to 4 char.
|
||||
PStringVector hName, hNCrop;
|
||||
TString sCrop;
|
||||
for (UInt_t i=0; i<size; i++) {
|
||||
dataSet = fData[0].GetDataSet(i, false); // i.e. the false means, that i is the index and NOT the histo number
|
||||
// detector name
|
||||
str = dataSet->GetName();
|
||||
hName.push_back(str);
|
||||
sCrop = str;
|
||||
sCrop.Remove(4);
|
||||
hNCrop.push_back(sCrop);
|
||||
}
|
||||
// check cropped for uniqueness
|
||||
ival = 1;
|
||||
for (UInt_t i=0; i<size; i++) {
|
||||
for (UInt_t j=i+1; j<size; j++) {
|
||||
if (hNCrop[i] == hNCrop[j]) {
|
||||
std::string nn = std::to_string(ival);
|
||||
hNCrop[j][3] = nn[0];
|
||||
ival++;
|
||||
}
|
||||
}
|
||||
}
|
||||
// handle rest of the detectors
|
||||
for (UInt_t i=0; i<size; i++) {
|
||||
dataSet = fData[0].GetDataSet(i, false); // i.e. the false means, that i is the index and NOT the histo number
|
||||
if (dataSet == nullptr) { // something is really wrong
|
||||
@ -5619,7 +5587,10 @@ Bool_t PRunDataHandler::WritePsiBinFile(TString fln)
|
||||
}
|
||||
|
||||
// detector name
|
||||
psibin.PutNameHisto(hNCrop[i].Data(), i);
|
||||
str = dataSet->GetName();
|
||||
if (!str.CompareTo("n/a"))
|
||||
str.Form("Detector%3d", i+1);
|
||||
psibin.PutNameHisto(str.Data(), i);
|
||||
// time zero bin
|
||||
ival = static_cast<Int_t>(dataSet->GetTimeZeroBin()/fAny2ManyInfo->rebin);
|
||||
psibin.PutT0Int(i, ival);
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
@ -661,7 +661,6 @@ Bool_t PStartupHandler::WriteDefaultStartupFile(bool reset_startup_file)
|
||||
fout << " <comment>" << std::endl;
|
||||
fout << " Defines default settings for the musrfit package" << std::endl;
|
||||
fout << " </comment>" << std::endl;
|
||||
fout << " <data_path>/psi.ch/group/lmu/public/data/lem/his</data_path>" << std::endl;
|
||||
fout << " <data_path>/afs/psi.ch/project/nemu/data/his</data_path>" << std::endl;
|
||||
fout << " <data_path>/afs/psi.ch/project/nemu/data/wkm</data_path>" << std::endl;
|
||||
fout << " <data_path>/afs/psi.ch/project/bulkmusr/data/misc</data_path>" << std::endl;
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
@ -29,7 +29,6 @@
|
||||
|
||||
#include <iostream>
|
||||
#include <vector>
|
||||
#include <cmath>
|
||||
|
||||
#include <TObject.h>
|
||||
#include <TString.h>
|
||||
@ -426,15 +425,6 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
case THEORY_DYNAMIC_LORENTZ_KT_LF:
|
||||
return DynamicLorentzKTLF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_ZF:
|
||||
return DynamicGauLorKTZFFast(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_LF:
|
||||
return DynamicGauLorKTLFFast(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_KT_LF:
|
||||
return DynamicGauLorKTLF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_COMBI_LGKT:
|
||||
return CombiLGKT(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
@ -472,19 +462,16 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
return SkewedGauss(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_STATIC_ZF_NK:
|
||||
return StaticNKZF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
return StaticNKZF (t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_STATIC_TF_NK:
|
||||
return StaticNKTF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
return StaticNKTF (t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_ZF_NK:
|
||||
return DynamicNKZF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
return DynamicNKZF (t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_TF_NK:
|
||||
return DynamicNKTF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_F_MU_F:
|
||||
return FmuF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
return DynamicNKTF (t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_POLYNOM:
|
||||
return Polynom(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues) +
|
||||
@ -524,12 +511,6 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
return StaticLorentzKTLF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_LORENTZ_KT_LF:
|
||||
return DynamicLorentzKTLF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_ZF:
|
||||
return DynamicGauLorKTZFFast(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_LF:
|
||||
return DynamicGauLorKTLFFast(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_KT_LF:
|
||||
return DynamicGauLorKTLF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_COMBI_LGKT:
|
||||
return CombiLGKT(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_STR_KT:
|
||||
@ -564,8 +545,6 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
return DynamicNKTF (t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_MU_MINUS_EXP:
|
||||
return MuMinusExpTF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_F_MU_F:
|
||||
return FmuF(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_POLYNOM:
|
||||
return Polynom(t, paramValues, funcValues) * fMul->Func(t, paramValues, funcValues);
|
||||
case THEORY_USER_FCN:
|
||||
@ -601,12 +580,6 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
return StaticLorentzKTLF(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_LORENTZ_KT_LF:
|
||||
return DynamicLorentzKTLF(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_ZF:
|
||||
return DynamicGauLorKTZFFast(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_LF:
|
||||
return DynamicGauLorKTLFFast(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_KT_LF:
|
||||
return DynamicGauLorKTLF(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_COMBI_LGKT:
|
||||
return CombiLGKT(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_STR_KT:
|
||||
@ -641,8 +614,6 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
return DynamicNKTF (t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_MU_MINUS_EXP:
|
||||
return MuMinusExpTF(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_F_MU_F:
|
||||
return FmuF(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_POLYNOM:
|
||||
return Polynom(t, paramValues, funcValues) + fAdd->Func(t, paramValues, funcValues);
|
||||
case THEORY_USER_FCN:
|
||||
@ -676,12 +647,6 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
return StaticLorentzKTLF(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_LORENTZ_KT_LF:
|
||||
return DynamicLorentzKTLF(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_ZF:
|
||||
return DynamicGauLorKTZFFast(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_FAST_KT_LF:
|
||||
return DynamicGauLorKTLFFast(t, paramValues, funcValues);
|
||||
case THEORY_DYNAMIC_GAULOR_KT_LF:
|
||||
return DynamicGauLorKTLF(t, paramValues, funcValues);
|
||||
case THEORY_COMBI_LGKT:
|
||||
return CombiLGKT(t, paramValues, funcValues);
|
||||
case THEORY_STR_KT:
|
||||
@ -716,8 +681,6 @@ Double_t PTheory::Func(Double_t t, const PDoubleVector& paramValues, const PDoub
|
||||
return DynamicNKTF(t, paramValues, funcValues);
|
||||
case THEORY_MU_MINUS_EXP:
|
||||
return MuMinusExpTF(t, paramValues, funcValues);
|
||||
case THEORY_F_MU_F:
|
||||
return FmuF(t, paramValues, funcValues);
|
||||
case THEORY_POLYNOM:
|
||||
return Polynom(t, paramValues, funcValues);
|
||||
case THEORY_USER_FCN:
|
||||
@ -1670,220 +1633,6 @@ Double_t PTheory::DynamicLorentzKTLF(Double_t t, const PDoubleVector& paramValue
|
||||
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p>Local Gaussian, global Lorentzian approximation in the limit
|
||||
* \f[ \nu_c \gg \gamma_\mu \Delta_{\rm L} \f] in ZF.
|
||||
* For details see "Muon Spin Rotation, Relaxation, and Resonance",
|
||||
* A. Yaouanc and P. Dalmas Sec. 6.4, Eq.(6.89).
|
||||
*
|
||||
* @param t time in \f$(\mu\mathrm{s})\f$, or x-axis value for non-muSR fit
|
||||
* @param paramValues parameter values
|
||||
* @param funcValues vector with the functions (i.e. functions of the parameters)
|
||||
*
|
||||
* @return Polarization value of this function
|
||||
*/
|
||||
Double_t PTheory::DynamicGauLorKTZFFast(Double_t t, const PDoubleVector& paramValues, const PDoubleVector& funcValues) const
|
||||
{
|
||||
// expected parameters: damping hopping [tshift]
|
||||
|
||||
Double_t val[3];
|
||||
|
||||
assert(fParamNo.size() <= 3);
|
||||
|
||||
// check if FUNCTIONS are used
|
||||
for (UInt_t i=0; i<fParamNo.size(); i++) {
|
||||
if (fParamNo[i] < MSR_PARAM_FUN_OFFSET) { // parameter or resolved map
|
||||
val[i] = paramValues[fParamNo[i]];
|
||||
} else { // function
|
||||
val[i] = funcValues[fParamNo[i]-MSR_PARAM_FUN_OFFSET];
|
||||
}
|
||||
}
|
||||
|
||||
Double_t tt;
|
||||
if (fParamNo.size() == 2) // no tshift
|
||||
tt = t;
|
||||
else // tshift present
|
||||
tt = t-val[2];
|
||||
|
||||
Double_t nut = val[1]*tt;
|
||||
return exp(-sqrt(4.0*pow(val[0]/val[1], 2.0)*(exp(-nut)-1.0+nut)));
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p>Local Gaussian, global Lorentzian approximation in the limit
|
||||
* \f[ \nu_c \gg \gamma_\mu \Delta_{\rm L} \f] in LF.
|
||||
* For details see "Muon Spin Rotation, Relaxation, and Resonance",
|
||||
* A. Yaouanc and P. Dalmas Sec. 6.4, Eq.(6.93).
|
||||
*
|
||||
* @param t time in \f$(\mu\mathrm{s})\f$, or x-axis value for non-muSR fit
|
||||
* @param paramValues parameter values
|
||||
* @param funcValues vector with the functions (i.e. functions of the parameters)
|
||||
*
|
||||
* @return Polarization value of this function
|
||||
*/
|
||||
Double_t PTheory::DynamicGauLorKTLFFast(Double_t t, const PDoubleVector& paramValues, const PDoubleVector& funcValues) const
|
||||
{
|
||||
// expected parameters: frequency damping hopping [tshift]
|
||||
|
||||
Double_t val[4];
|
||||
|
||||
assert(fParamNo.size() <= 4);
|
||||
|
||||
// check if FUNCTIONS are used
|
||||
for (UInt_t i=0; i<fParamNo.size(); i++) {
|
||||
if (fParamNo[i] < MSR_PARAM_FUN_OFFSET) { // parameter or resolved map
|
||||
val[i] = paramValues[fParamNo[i]];
|
||||
} else { // function
|
||||
val[i] = funcValues[fParamNo[i]-MSR_PARAM_FUN_OFFSET];
|
||||
}
|
||||
}
|
||||
|
||||
Double_t tt;
|
||||
if (fParamNo.size() == 3) // no tshift
|
||||
tt = t;
|
||||
else // tshift present
|
||||
tt = t-val[3];
|
||||
|
||||
Double_t w0 = TMath::TwoPi()*val[0];
|
||||
Double_t w0_2 = w0*w0;
|
||||
Double_t nu_2 = val[2]*val[2];
|
||||
Double_t nu_t = val[2]*tt;
|
||||
Double_t w0_t = w0*tt;
|
||||
Double_t Gamma_t = ((w0_2+nu_2)*nu_t+(w0_2-nu_2)*(1.0-exp(-nu_t)*cos(w0_t))-2.0*val[2]*w0*exp(-nu_t)*sin(w0_t))/pow(w0_2+nu_2,2.0);
|
||||
if (Gamma_t < 0.0)
|
||||
Gamma_t = 0.0;
|
||||
|
||||
return exp(-sqrt(4.0*val[1]*val[1]*Gamma_t));
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p>Local Gaussian, global Lorentzian in LF.
|
||||
* For details see "Muon Spin Rotation, Relaxation, and Resonance",
|
||||
* A. Yaouanc and P. Dalmas Sec. 6.4, Eq.(6.86).
|
||||
*
|
||||
* @param t time in \f$(\mu\mathrm{s})\f$, or x-axis value for non-muSR fit
|
||||
* @param paramValues parameter values
|
||||
* @param funcValues vector with the functions (i.e. functions of the parameters)
|
||||
*
|
||||
* @return Polarization value of this function
|
||||
*/
|
||||
Double_t PTheory::DynamicGauLorKTLF(Double_t t, const PDoubleVector& paramValues, const PDoubleVector& funcValues) const
|
||||
{
|
||||
// expected parameters: frequency damping hopping [tshift]
|
||||
|
||||
Double_t val[4];
|
||||
|
||||
assert(fParamNo.size() <= 4);
|
||||
|
||||
// check if FUNCTIONS are used
|
||||
for (UInt_t i=0; i<fParamNo.size(); i++) {
|
||||
if (fParamNo[i] < MSR_PARAM_FUN_OFFSET) { // parameter or resolved map
|
||||
val[i] = paramValues[fParamNo[i]];
|
||||
} else { // function
|
||||
val[i] = funcValues[fParamNo[i]-MSR_PARAM_FUN_OFFSET];
|
||||
}
|
||||
}
|
||||
|
||||
Double_t tt;
|
||||
if (fParamNo.size() == 3) // no tshift
|
||||
tt = t;
|
||||
else // tshift present
|
||||
tt = t-val[3];
|
||||
|
||||
// check if the parameter values have changed, and if yes recalculate DynamicGaussKTLF
|
||||
Bool_t newParam = false;
|
||||
for (UInt_t i=0; i<3; i++) {
|
||||
if (val[i] != fPrevParam[i]) {
|
||||
newParam = true;
|
||||
break;
|
||||
}
|
||||
}
|
||||
|
||||
if (newParam) { // new parameters found, hence calculate DynamicGauLorKTLF
|
||||
// keep parameters
|
||||
for (UInt_t i=0; i<3; i++)
|
||||
fPrevParam[i] = val[i];
|
||||
|
||||
// reset GL LF polarzation vector
|
||||
fDyn_GL_LFFuncValue.clear();
|
||||
fDyn_GL_LFFuncValue.resize(20000); // Tmax=20us, dt=1ns
|
||||
|
||||
PDoubleVector rr={0.2, 0.4, 0.6, 0.8, 1.0, 1.25, 1.5, 1.75, 2.0, 2.5, 3.0, 4.0, 5.0, 7.5, 10.0,
|
||||
12.8125, 15.625, 18.4375, 21.25, 26.875, 32.5, 43.75, 55.0, 77.5, 100.0};
|
||||
Double_t par[3] = {val[0], val[1], val[2]};
|
||||
Double_t sqrtTwoInv = 1.0/sqrt(2.0);
|
||||
Bool_t isOneVec{false};
|
||||
Bool_t useKeren{false};
|
||||
Double_t scale, up{0.0}, low{-1.0};
|
||||
|
||||
for (UInt_t i=0; i<rr.size(); i++) {
|
||||
useKeren = false;
|
||||
isOneVec = false;
|
||||
|
||||
// Delta_G = rr * Delta_L
|
||||
par[1] = rr[i] * val[1];
|
||||
|
||||
// check if all parameters == 0
|
||||
if ((par[0] == 0.0) && (par[1] == 0.0) && (par[2] == 0.0)) {
|
||||
isOneVec = true;
|
||||
}
|
||||
|
||||
// make sure that damping and hopping are positive definite
|
||||
if (par[1] < 0.0)
|
||||
par[1] = -par[1];
|
||||
if (par[2] < 0.0)
|
||||
par[2] = -par[2];
|
||||
|
||||
// check that Delta != 0, if not (i.e. stupid parameter) return 1, which is the correct limit
|
||||
if (fabs(par[1]) < 1.0e-6) {
|
||||
isOneVec = true;
|
||||
}
|
||||
|
||||
// check if Keren approximation can be used
|
||||
if (par[2]/par[1] > 5.0) // nu/Delta > 5.0
|
||||
useKeren = true;
|
||||
|
||||
if (!useKeren && !isOneVec) {
|
||||
CalculateDynKTLF(par, 0); // 0 means Gauss
|
||||
}
|
||||
|
||||
// calculate polarization vector for the given parameters
|
||||
up = -std::erf(sqrtTwoInv/rr[i]);
|
||||
scale = up - low;
|
||||
low = up;
|
||||
|
||||
const Double_t dt=0.001;
|
||||
for (UInt_t i=0; i<20000; i++) {
|
||||
if (isOneVec) {
|
||||
fDyn_GL_LFFuncValue[i] += scale;
|
||||
} else if (useKeren && !isOneVec) {// see PRB50, 10039 (1994)
|
||||
Double_t wL = TWO_PI * par[0];
|
||||
Double_t wL2 = wL*wL;
|
||||
Double_t nu2 = par[2]*par[2];
|
||||
Double_t Gamma_t = 2.0*par[1]*par[1]/((wL2+nu2)*(wL2+nu2))*
|
||||
((wL2+nu2)*val[2]*i*dt
|
||||
+ (wL2-nu2)*(1.0 - TMath::Exp(-val[2]*i*dt)*TMath::Cos(wL*i*dt))
|
||||
- 2.0*val[2]*wL*TMath::Exp(-val[2]*i*dt)*TMath::Sin(wL*i*dt));
|
||||
fDyn_GL_LFFuncValue[i] += scale*TMath::Exp(-Gamma_t);
|
||||
} else if (!useKeren && !isOneVec) {
|
||||
fDyn_GL_LFFuncValue[i] += scale*GetDynKTLFValue(i*dt);
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
|
||||
// get the proper value from the look-up table
|
||||
Double_t result{1.0};
|
||||
if (tt>=0)
|
||||
result=GetDyn_GL_KTLFValue(tt);
|
||||
|
||||
return result;
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p> theory function: dynamic Lorentzain Kubo-Toyabe in longitudinal applied field
|
||||
@ -2712,49 +2461,6 @@ Double_t PTheory::DynamicNKTF(Double_t t, const PDoubleVector& paramValues, cons
|
||||
return result;
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p>F-\f$\mu\f-F polaritation function.
|
||||
* For details see e.g. "Muon Spectroscopy - An Introduction", S. Blundell, etal.
|
||||
*
|
||||
* @param t time in \f$(\mu\mathrm{s})\f$, or x-axis value for non-muSR fit
|
||||
* @param paramValues parameter values
|
||||
* @param funcValues vector with the functions (i.e. functions of the parameters)
|
||||
|
||||
* @return Polarization value of this function
|
||||
*/
|
||||
Double_t PTheory::FmuF(Double_t t, const PDoubleVector& paramValues, const PDoubleVector& funcValues) const
|
||||
{
|
||||
// expected paramters: w_d [0], [tshift [1]]
|
||||
|
||||
Double_t val[2];
|
||||
|
||||
assert(fParamNo.size() <= 2);
|
||||
|
||||
if (t < 0.0)
|
||||
return 1.0;
|
||||
|
||||
// check if FUNCTIONS are used
|
||||
for (UInt_t i=0; i<fParamNo.size(); i++) {
|
||||
if (fParamNo[i] < MSR_PARAM_FUN_OFFSET) { // parameter or resolved map
|
||||
val[i] = paramValues[fParamNo[i]];
|
||||
} else { // function
|
||||
val[i] = funcValues[fParamNo[i]-MSR_PARAM_FUN_OFFSET];
|
||||
}
|
||||
}
|
||||
|
||||
Double_t tt;
|
||||
if (fParamNo.size() == 1) // no tshift
|
||||
tt = t;
|
||||
else // tshift present
|
||||
tt = t-val[1];
|
||||
|
||||
const Double_t sqrt3 = sqrt(3.0);
|
||||
const Double_t wd_t = val[0]*tt;
|
||||
|
||||
return (3.0+cos(sqrt3*wd_t)+(1.0-1.0/sqrt3)*cos(((3.0-sqrt3)/2.0)*wd_t)+(1.0+1.0/sqrt3)*cos(((3.0 + sqrt3)/2.0)*wd_t))/6.0;
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p> theory function: polynom
|
||||
@ -3137,44 +2843,19 @@ void PTheory::CalculateDynKTLF(const Double_t *val, Int_t tag) const
|
||||
Double_t PTheory::GetDynKTLFValue(const Double_t t) const
|
||||
{
|
||||
if (t < 0.0)
|
||||
return 1.0;
|
||||
return 0.0;
|
||||
|
||||
UInt_t idx = static_cast<UInt_t>(t/fDynLFdt);
|
||||
|
||||
if (idx + 2 > fDynLFFuncValue.size())
|
||||
return fDynLFFuncValue.back();
|
||||
|
||||
// linearly interpolate between the two relevant function bins
|
||||
// linearly interpolate between the two relvant function bins
|
||||
Double_t df = (fDynLFFuncValue[idx+1]-fDynLFFuncValue[idx])*(t/fDynLFdt-static_cast<Double_t>(idx));
|
||||
|
||||
return fDynLFFuncValue[idx]+df;
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p>Gets value of the dynamic local Gauss / global Lorentzian Kubo-Toyabe LF function.
|
||||
*
|
||||
* <b>return:</b> function value
|
||||
*
|
||||
* \param t time in (usec)
|
||||
*/
|
||||
Double_t PTheory::GetDyn_GL_KTLFValue(const Double_t t) const
|
||||
{
|
||||
if (t < 0.0)
|
||||
return 1.0;
|
||||
|
||||
const Double_t dt=0.001; // 1ns
|
||||
UInt_t idx = static_cast<UInt_t>(t/dt);
|
||||
|
||||
if (idx + 2 > fDyn_GL_LFFuncValue.size())
|
||||
return fDyn_GL_LFFuncValue.back();
|
||||
|
||||
// linearly interpolate between the two relevant function bins
|
||||
Double_t df = (fDyn_GL_LFFuncValue[idx+1]-fDyn_GL_LFFuncValue[idx])*(t/dt-static_cast<Double_t>(idx));
|
||||
|
||||
return fDyn_GL_LFFuncValue[idx]+df;
|
||||
}
|
||||
|
||||
//--------------------------------------------------------------------------
|
||||
/**
|
||||
* <p> theory function: MuMinusExpTF
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
@ -8,7 +8,7 @@
|
||||
***************************************************************************/
|
||||
|
||||
/***************************************************************************
|
||||
* Copyright (C) 2007-2025 by Andreas Suter *
|
||||
* Copyright (C) 2007-2024 by Andreas Suter *
|
||||
* andreas.suter@psi.ch *
|
||||
* *
|
||||
* This program is free software; you can redistribute it and/or modify *
|
||||
|
||||
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Reference in New Issue
Block a user