increase libPMusr version to 1.5.0.

Explicit passing of MnStrategy during minimizer initialization

Approved-by: Suter Andreas

.gitignore

@@ -0,0 +1,2 @@
+# ignore all files generated from an in-repo build
+build/

AUTHORS

@@ -1,7 +1,5 @@
 #---------------------------------------------------------------------
 # AUTHORS
-# Andreas Suter, 2009/06/21
-# $Id: AUTHORS 4013 2009-06-21
 #---------------------------------------------------------------------
 
 Andreas Suter <andreas.suter@psi.ch>
@@ -9,8 +7,9 @@ Andreas Suter <andreas.suter@psi.ch>
 
 Bastian M. Wojek
   msr2data; initial testing; full initial documentation; BMWlibs;
-  unified building process on Linux, MacOSX and Windows (Cygwin)
-  through autotools
+
+Zaher Salman <zaher.salman@psi.ch>
+  beta-NMR and web-interface
 
 #---------------------------------------------------------------------
 # this is the end ...

CMakeLists.txt

@@ -0,0 +1,422 @@
+# - musrfit
+cmake_minimum_required(VERSION 3.17)
+
+project(musrfit VERSION 1.9.9 LANGUAGES C CXX)
+
+#--- musrfit specific options -------------------------------------------------
+option(nexus "build optional NeXus support. Needed for ISIS" OFF)
+option(ASlibs "build optional ASlibs" OFF)
+option(BMWlibs "build optional BMWlibs" OFF)
+option(BNMRlibs "build optional beta-NMR libs" OFF)
+option(DummyUserFcn "build optional dummy user function" OFF)
+option(qt_based_tools "try to install Qt based tools (musredit, musrWiz, musrStep, mupp)" ON)
+option(try_OpenMP "try to use OpenMP if available" ON)
+# define qt_version with possible values 'auto' or version '3', '4', '5', '6'
+set(qt_version AUTO CACHE STRING "provide a specific Qt version to be used.")
+set_property(CACHE qt_version PROPERTY STRINGS AUTO 3 4 5 6)
+
+#--- set a default build type if none was specified ---------------------------
+set(default_build_type "Release")
+
+if (NOT CMAKE_BUILD_TYPE AND NOT CMAKE_CONFIGURATION_TYPES)
+  message(STATUS "Setting build type to '${default_build_type}' as none was specified.")
+  set(CMAKE_BUILD_TYPE "${default_build_type}" CACHE
+      STRING "Choose the type of build." FORCE)
+  # Set the possible values of build type for cmake-gui
+  set_property(CACHE CMAKE_BUILD_TYPE PROPERTY STRINGS
+    "Debug" "Release" "MinSizeRel" "RelWithDebInfo")
+endif ()
+
+#--- perform some checks and generate the config.h ----------------------------
+
+#--- the next two lines are needed that the math functions are found ----------
+set(CMAKE_REQUIRED_INCLUDES math.h)
+set(CMAKE_REQUIRED_LIBRARIES m)
+
+include(CheckTypeSize)
+include(CheckIncludeFiles)
+include(CheckFunctionExists)
+check_include_files(alloca.h HAVE_ALLOCA_H)
+check_include_files("sys/ipc.h;sys/shm.h" HAVE_SHMGET)
+check_include_files(dlfcn.h HAVE_DLFCN_H)
+check_function_exists(erf HAVE_ERF)
+check_function_exists(getloadavg HAVE_GETLOADAVG)
+check_include_files(inttypes.h HAVE_INTTYPES_H)
+check_include_files(memory.h HAVE_MEMORY_H)
+check_function_exists(powl HAVE_POWL)
+check_include_files(memory.h HAVE_MEMORY_H)
+check_include_files(stdint.h HAVE_STDINT_H)
+check_include_files(stdlib.h HAVE_STDLIB_H)
+check_include_files(string.h HAVE_STRING_H)
+check_include_files(strings.h HAVE_STRINGS_H)
+check_include_files(sys/stat.h HAVE_SYS_STAT_H)
+check_include_files(sys/types.h HAVE_SYS_TYPES_H)
+check_include_files(sys/unistd.h HAVE_UNISTD_H)
+check_type_size("long double" LONG_DOUBLE)
+check_type_size("double" DOUBLE)
+if (${LONG_DOUBLE} GREATER ${DOUBLE})
+  set(HAVE_LONG_DOUBLE 1)
+  set(HAVE_LONG_DOUBLE_WIDER 1)
+endif (${LONG_DOUBLE} GREATER ${DOUBLE})
+
+#--- check for all the needed packages ----------------------------------------
+
+#--- add path to my own find modules and other stuff
+set(CMAKE_MODULE_PATH ${CMAKE_CURRENT_SOURCE_DIR}/cmake)
+
+#--- check for pkg-config -----------------------------------------------------
+find_package(PkgConfig REQUIRED)
+
+#--- check for git ------------------------------------------------------------
+find_package(Git REQUIRED)
+
+#--- check for ROOT -----------------------------------------------------------
+find_package(ROOT 6.18 REQUIRED COMPONENTS Gui MathMore Minuit2 XMLParser)
+if (ROOT_mathmore_FOUND)
+  execute_process(COMMAND root-config --bindir OUTPUT_VARIABLE ROOT_BINDIR)
+  string(STRIP ${ROOT_BINDIR} ROOT_BINDIR)
+  execute_process(COMMAND root-config --version OUTPUT_VARIABLE ROOT_VERSION)
+  string(STRIP ${ROOT_VERSION} ROOT_VERSION)
+  message("-- Found ROOT: ${ROOT_BINDIR} (found version: ${ROOT_VERSION})")
+  #---Define useful ROOT functions and macros (e.g. ROOT_GENERATE_DICTIONARY)
+  include(${ROOT_USE_FILE})
+endif (ROOT_mathmore_FOUND)
+
+#--- the next check is need to set a flag, since root 6.24 (minuit2) breaks
+#--- the backwards compatibility. ---------------------------------------------
+if (ROOT_VERSION VERSION_LESS "6.23")
+  set(ROOT_GRTEQ_24 0)
+else ()
+  set(ROOT_GRTEQ_24 1)
+endif ()
+set(ROOT_GRTEQ_24 ${ROOT_GRTEQ_24} CACHE INTERNAL "ROOT Version check")
+
+#--- check for boost ----------------------------------------------------------
+find_package(Boost REQUIRED
+  COMPONENTS
+    system
+    filesystem
+)
+message(STATUS "Boost libs: ${Boost_LIBRARIES}")
+
+#--- check for gsl ------------------------------------------------------------
+find_package(GSL REQUIRED)
+
+#--- check for fftw3 ----------------------------------------------------------
+find_package(FFTW3 REQUIRED)
+
+#--- check for libxml2 --------------------------------------------------------
+find_package(LibXml2 REQUIRED)
+
+#--- check for OpenMP ---------------------------------------------------------
+if (try_OpenMP)
+  find_package(OpenMP)
+  if (OpenMP_CXX_FOUND)
+    add_definitions(-DHAVE_GOMP)
+    set(HAVE_GOMP 1 CACHE INTERNAL "Have GOMP")
+  endif (OpenMP_CXX_FOUND)
+endif (try_OpenMP)
+
+#--- check for Qt -------------------------------------------------------------
+if (qt_based_tools)
+  # check for any Qt, i.e. AUTO
+  if (qt_version STREQUAL AUTO)
+    # try Qt6
+    find_package(Qt6Core QUIET)
+    if (Qt6Core_FOUND)
+      find_package(Qt6Widgets CONFIG REQUIRED)
+      find_package(Qt6Xml CONFIG REQUIRED)
+      find_package(Qt6Network CONFIG REQUIRED)
+      find_package(Qt6Svg CONFIG REQUIRED)
+      find_package(Qt6PrintSupport CONFIG REQUIRED)
+    endif (Qt6Core_FOUND)
+    # try Qt5
+    if (NOT Qt6Core_FOUND)
+      find_package(Qt5Core QUIET)
+      if (Qt5Core_FOUND)
+        find_package(Qt5Widgets CONFIG REQUIRED)
+        find_package(Qt5Xml CONFIG REQUIRED)
+        find_package(Qt5Network CONFIG REQUIRED)
+        find_package(Qt5Svg CONFIG REQUIRED)
+        find_package(Qt5PrintSupport CONFIG REQUIRED)
+      endif (Qt5Core_FOUND)
+    endif (NOT Qt6Core_FOUND)
+
+    # if Qt6 and Qt5 is not found, try Qt4
+    if (NOT Qt6Core_FOUND AND NOT Qt5Core_FOUND)
+      find_package(Qt4 COMPONENTS QtGui QtWebKit QtXml)
+    endif (NOT Qt6Core_FOUND AND NOT Qt5Core_FOUND)
+
+    # if Qt6, Qt5 and Qt4 is not found try Qt3. Hopefully you never reach this point
+    if (NOT Qt6Core_FOUND AND NOT Qt5Core_FOUND AND Qt4_FOUND)
+      find_package(Qt3)
+    endif (NOT Qt6Core_FOUND AND NOT Qt5Core_FOUND AND Qt4_FOUND)
+  endif (qt_version STREQUAL AUTO)
+
+  # check specifically for Qt6
+  if (qt_version STREQUAL 6)
+    find_package(Qt6Core)
+    if (Qt6Core_FOUND)
+      find_package(Qt6Widgets CONFIG REQUIRED)
+      find_package(Qt6Xml CONFIG REQUIRED)
+      find_package(Qt6Network CONFIG REQUIRED)
+      find_package(Qt6Svg CONFIG REQUIRED)
+      find_package(Qt6PrintSupport CONFIG REQUIRED)
+    else (Qt6Core_FOUND)
+      message(FATAL_ERROR "Couldn't find the specifically requested Qt6 version.")
+    endif (Qt6Core_FOUND)
+  endif (qt_version STREQUAL 6)
+
+ # check specifically for Qt5
+  if (qt_version STREQUAL 5)
+    find_package(Qt5Core)
+    if (Qt5Core_FOUND)
+      find_package(Qt5Widgets CONFIG REQUIRED)
+      find_package(Qt5Xml CONFIG REQUIRED)
+      find_package(Qt5Network CONFIG REQUIRED)
+      find_package(Qt5Svg CONFIG REQUIRED)
+      find_package(Qt5PrintSupport CONFIG REQUIRED)
+    else (Qt5Core_FOUND)
+      message(FATAL_ERROR "Couldn't find the specifically requested Qt5 version.")
+    endif (Qt5Core_FOUND)
+  endif (qt_version STREQUAL 5)
+
+  # check specifically for Qt4
+  if (qt_version STREQUAL 4)
+    find_package(Qt4 COMPONENTS QtGui QtWebKit QtXml)
+    if (NOT Qt4_FOUND)
+      message(FATAL_ERROR "Couldn't find the specifically requested Qt4 version.")
+    endif (NOT Qt4_FOUND)
+  endif (qt_version STREQUAL 4)
+
+  # check specifically for Qt3
+  if (qt_version STREQUAL 3)
+    find_package(Qt3)
+    if (NOT QT_FOUND)
+      message(FATAL_ERROR "Couldn't find the specifically requested Qt3 version.")
+    endif (NOT QT_FOUND)
+  endif (qt_version STREQUAL 3)
+endif (qt_based_tools)
+
+#--- if NeXus check also for HDF4, HDF5, and MXML -----------------------------
+if (nexus)
+  find_package(HDF5 COMPONENTS CXX REQUIRED)
+  if (HAVE_HDF4)
+    find_package(HDF4 REQUIRED)
+  endif (HAVE_HDF4)  
+  find_package(NEXUS REQUIRED)
+  add_definitions(-DPNEXUS_ENABLED)
+endif (nexus)
+
+#--- check for Cuba lib if BMWlibs are enabled --------------------------------
+#//as35 probably always stick to the internal one ...
+
+#--- all checks done -> feed config.h -----------------------------------------
+set(HAVE_CONFIG_H 1 CACHE INTERNAL "config.h is available")
+configure_file(${CMAKE_SOURCE_DIR}/cmake/config.h.in ${CMAKE_CURRENT_BINARY_DIR}/config.h)
+
+#--- check if project source is a git repo ------------------------------------
+if (EXISTS "${CMAKE_SOURCE_DIR}/.git/HEAD")
+  message(STATUS "is a git repo")
+  set(IS_GIT_REPO 1)
+else ()
+  message(STATUS "is NOT a git repo")
+  set(IS_GIT_REPO 0)
+endif ()
+
+#--- start create git-revision.h ----------------------------------------------
+if (IS_GIT_REPO)
+  execute_process(COMMAND sh ${CMAKE_SOURCE_DIR}/src/git_revision.sh)
+
+  set(HAVE_GIT_REV_H "-DHAVE_GIT_REV_H")  
+  set(GIT_REV_H "git-revision.h")
+else (IS_GIT_REPO)
+  set(HAVE_GIT_REV_H "")  
+  set(GIT_REV_H "")
+endif (IS_GIT_REPO)
+
+#--- end create git-revision.h ------------------------------------------------
+
+#--- rpath related things -----------------------------------------------------
+# use, i.e. don't skip the full RPATH for the build tree
+set(CMAKE_SKIP_BUILD_RPATH FALSE)
+
+# when building, don't use the install RPATH already
+# (but later on when installing)
+set(CMAKE_BUILD_WITH_INSTALL_RPATH FALSE)
+
+set(CMAKE_INSTALL_RPATH "${CMAKE_INSTALL_PREFIX}/lib")
+
+# add the automatically determined parts of the RPATH
+# which point to directories outside the build tree to the install RPATH
+set(CMAKE_INSTALL_RPATH_USE_LINK_PATH TRUE)
+
+# the RPATH to be used when installing, but only if it's not a system directory
+list(FIND CMAKE_PLATFORM_IMPLICIT_LINK_DIRECTORIES "${CMAKE_INSTALL_PREFIX}/lib" isSystemDir)
+if("${isSystemDir}" STREQUAL "-1")
+    set(CMAKE_INSTALL_RPATH "${CMAKE_INSTALL_PREFIX}/lib")
+endif("${isSystemDir}" STREQUAL "-1")
+set(rpath ${CMAKE_INSTALL_RPATH})
+string(APPEND rpath ";/usr/local/lib")
+set(CMAKE_INSTALL_RPATH "${rpath}")
+
+#--- propagate to the sub-directories -----------------------------------------
+add_subdirectory(src)
+
+#--- write summary of the installation
+cmake_host_system_information(RESULT PROCESSOR QUERY PROCESSOR_DESCRIPTION)
+
+message("")
+message("|-----------------------------------------------------------------------|")
+message("|                                                                       |")
+message("|                            Summary                                    |")
+message("|                                                                       |")
+message("|-----------------------------------------------------------------------|")
+message("")
+message(" System:    ${CMAKE_HOST_SYSTEM_NAME} ${CMAKE_SYSTEM_PROCESSOR} - ${CMAKE_HOST_SYSTEM_VERSION}")
+message(" Processor: ${PROCESSOR} (${CMAKE_SYSTEM_PROCESSOR})")
+message(" ----------")
+message("")
+message(" musrfit Version: ${musrfit_VERSION}")
+message(" ----------------")
+message("")
+message(" Build Type: ${CMAKE_BUILD_TYPE}")
+message(" -----------")
+message("")
+message(" Requirements:")
+message(" -------------")
+message("")
+message(" FFTW3   found in ${FFTW3_INCLUDE}, Version: ${FFTW_VERSION}")
+message(" GSL     found in ${GSL_INCLUDE_DIRS}, Version: ${GSL_VERSION}")
+message(" BOOST   found in ${Boost_INCLUDE_DIRS}, Version: ${Boost_VERSION}")
+message(" LibXML2 found in ${LIBXML2_INCLUDE_DIR}, Version: ${LIBXML2_VERSION_STRING}")
+message(" ROOT    found in ${ROOT_INCLUDE_DIRS}, Version: ${ROOT_VERSION}")
+if (OpenMP_FOUND)
+  if (OpenMP_CXX_VERSION)
+    message(" OpenMP  found Version: ${OpenMP_CXX_VERSION}")
+  else (OpenMP_CXX_VERSION)
+    message(" OpenMP  found")
+  endif (OpenMP_CXX_VERSION)
+endif (OpenMP_FOUND)
+
+if (nexus)
+  message("")
+  if (HAVE_HDF4)
+    message(" HDF4    found in ${HDF4_INCLUDE_DIRS}")
+  else (HAVE_HDF4)
+    message(" HDF4    not present.")	  
+  endif (HAVE_HDF4)	  
+  message(" HDF5    found in ${HDF5_INCLUDE_DIRS}, Version: ${HDF5_VERSION}")
+  message(" NeXus   found in ${NEXUS_INCLUDE_DIR}, Version: ${NEXUS_VERSION_STRING}")
+endif (nexus)
+
+message("")
+if (qt_based_tools)
+  if (Qt6Core_FOUND)
+    message(" Qt      found in  ${Qt6Core_INCLUDE_DIRS}, Version: ${Qt6Core_VERSION}")
+  else (Qt6Core_FOUND)
+    if (Qt5Core_FOUND)
+      message(" Qt      found in  ${Qt5Core_INCLUDE_DIRS}, Version: ${Qt5Core_VERSION}")
+    else (Qt5Core_FOUND)
+      if (Qt4_FOUND)
+        message(" Qt      found Version: ${QT_VERSION_MAJOR}.${QT_VERSION_MINOR}.${QT_VERSION_PATCH}")
+      else (Qt4_FOUND)
+        if (QT_FOUND)
+          message(" Qt      found Version: ${QT_VERSION}")
+        endif (QT_FOUND)
+      endif (Qt4_FOUND)
+    endif (Qt5Core_FOUND)
+  endif (Qt6Core_FOUND)
+endif (qt_based_tools)
+message("")
+message(" Features:")
+message(" ---------")
+message("")
+message(" Supported muSR file formates:")
+message("   MusrRoot                           : yes")
+message("   ROOT (LEM)                         : yes")
+message("   MUD (triumf)                       : yes")
+message("   PSI-BIN                            : yes")
+message("   PSI-MDU                            : yes")
+message("   WKM (deprecated)                   : yes")
+if (nexus)
+  message("   NeXus                              : yes")
+else (nexus)
+  message("   NeXus                              : no")
+endif (nexus)
+
+message("")
+message(" External user-function libraries:")
+if (ASlibs)
+  message("   ASlibs                             : yes")
+else (ASlibs)
+  message("   ASlibs                             : no")
+endif (ASlibs)
+if (BMWlibs)
+  message("   BMWlibs                            : yes")
+else (BMWlibs)
+  message("   BMWlibs                            : no")
+endif (BMWlibs)
+if (BNMRlibs)
+  message("   BNMRlibs                           : yes")
+else (BNMRlibs)
+  message("   BNMRlibs                           : no")
+endif (BNMRlibs)
+if (DummyUserFcn)
+  message("   PDummyUserFcn                      : yes")
+endif (DummyUserFcn)
+
+if (qt_based_tools)
+if (Qt6Core_FOUND)
+  message("")
+  message(" Qt6 based tools:")
+  message("   musredit, musrStep, musrWiz, mupp  : yes")
+elseif (Qt5Core_FOUND)
+  message("")
+  message(" Qt5 based tools:")
+  message("   musredit, musrStep, musrWiz, mupp  : yes")
+elseif (Qt4_FOUND)
+  message("")
+  message(" Qt4 based tools (deprecated):")
+  message("   musredit                           : yes")
+else ()
+  message("")
+  message(" Qt3 based tools (outdated):")
+  message("   musrgui                            : yes")
+endif ()
+if (NOT Qt6Core_FOUND AND NOT Qt5Core_FOUND AND NOT Qt4_FOUND AND NOT QT_FOUND)
+  message("")
+  message(" NO Qt based tools will be installed since Qt is not found or not installed on the system")
+endif (NOT Qt6Core_FOUND AND NOT Qt5Core_FOUND AND NOT Qt4_FOUND AND NOT QT_FOUND)
+else (qt_based_tools)
+  message("")
+  message(" Qt based tools (musredit, musrStep, musrWiz, mupp) have been disabled")
+endif (qt_based_tools)
+message("")
+message(" Installation directories:")
+message(" -------------------------")
+message("")
+message(" Programs                : ${CMAKE_INSTALL_PREFIX}/bin")
+message(" XML configuration files : " $ENV{HOME} "/.musrfit")
+message(" Documentation           : ${CMAKE_INSTALL_PREFIX}/share/doc/musrfit")
+message("")
+message("-------------------------------------------------------------------------")
+message("")
+
+#--- cpack specific info ......................................................
+file(TO_NATIVE_PATH ${PROJECT_SOURCE_DIR} PROJECT_SOURCE_DIR_NATIVE)
+file(TO_NATIVE_PATH ${PROJECT_BINARY_DIR} PROJECT_BINARY_DIR_NATIVE)
+string(REPLACE "\\" "\\\\" PROJECT_SOURCE_DIR_NATIVE_D ${PROJECT_SOURCE_DIR_NATIVE})
+string(REPLACE "\\" "\\\\" PROJECT_BINARY_DIR_NATIVE_D ${PROJECT_BINARY_DIR_NATIVE})
+
+configure_file(${CMAKE_SOURCE_DIR}/cmake/CPackOptions.cmake.in ${CMAKE_CURRENT_BINARY_DIR}/CPackOptions.cmake @ONLY)
+set (CPACK_PROJECT_CONFIG_FILE "${PROJECT_BINARY_DIR}/CPackOptions.cmake")
+#set (CPACK_GENERATOR TGZ) # not use ZIP on UNIX as problem with symlinks
+#set (CPACK_SOURCE_GENERATOR TGZ) # not use ZIP on UNIX as problem with symlinks
+if (UNIX)
+  set (CPACK_GENERATOR ${CPACK_GENERATOR};RPM)
+endif ()
+# Include of CPack must always be last
+include(CPack)
+
+#--- end ----------------------------------------------------------------------

ChangeLog

@@ -2,6 +2,258 @@
 # ChangeLog
 #---------------------------------------------------------------------
 
+The ChangeLog will describe feature changes rather than coding detail changes.
+
+For detailed information about changes have a look here:
+
+https://gitlab.psi.ch/nemu/musrfit/activity
+
+or 
+
+https://bitbucket.org/muonspin/musrfit/commits/all
+
+Release of V1.9.9, 2025/06/08
+=============================
+
+add THEORY functions for local Gaussian / global Lorentzian, and a simple F-mu-F function.
+
+Release of V1.9.8, 2025/03/24
+=============================
+
+add a user interface option to export data from a msr-file view (single- or multiple files).
+
+Release of V1.9.7, 2025/01/18
+=============================
+
+allow spaces in RUN block path-filename
+
+Release of V1.9.6, 2024/12/02
+=============================
+
+added jump to block feature in musredit.
+
+
+Release of V1.9.5, 2024/06/24
+=============================
+
+yaml export of ALL fit-parameters, as initiated by R.M.L. McFadden.
+
+Release of V1.9.4, 2024/06/08
+=============================
+
+enable OpenMP for macOS.
+
+Release of V1.9.3, 2024/04/19
+=============================
+
+fix of function string generation from AST.
+
+Release of V1.9.2, 2023/10/25
+=============================
+
+switch over to smart pointers wherever possible.
+
+Release of V1.9.1, 2023/05/16
+=============================
+
+add option [-c, --count] to dump_header which will dump the number of counts
+per detector and the total number of counts. Currently for MusrRoot data format
+only. For the other data formats it will be implement asap
+
+Release of V1.9.0, 2023/02/17
+=============================
+
+add depth profile user lib:
+A.F.A. Simões, et al.
+Muon implantation experiments in films: obtaining depth-resolved information
+Review of Scientific Instruments. 2020; 91(2): 023906 (7 pp.).
+
+
+Release of V1.8.2, 2022/12/03
+=============================
+
+add feature that mupp_plotter can show/hide lines between the data points.
+
+Release of V1.8.1, 2022/11/07
+=============================
+
+adopted to the newer Qt versions.
+
+Release of V1.8.0, 2022/05/22
+=============================
+
+new: addRun - allows to add runs and write it to file
+refactoring of Class_MuSR_PSI: (i) class variables and methods renamed according to ROOT
+rules. (ii) start to modernize to newer c++ standards.
+
+Release of V1.7.6, 2021/10/02
+=============================
+
+new: choose number of threads from the commandline for OpenMP. 
+
+Release of V1.7.5, 2021/09/22
+=============================
+
+make sure that phases stay within +-360 degrees. 
+
+Release of V1.7.4, 2021/06/16
+=============================
+
+allow in asymmetry fits #forward groups != #backward groups
+
+Release of V1.7.3, 2021/06/01
+=============================
+
+making musrfit Apple Silicon M1 ready. Currently there is still an open issue 
+with NeXus (HDF4 only).
+
+Release of V1.7.2, 2021/04/16
+=============================
+
+add a full dummy user function class with a global part. This can be used as 
+a starting point to develop new polarization functions. 
+Currently no rge-handling present.
+
+Release of V1.7.1, 2021/04/09
+=============================
+
+update of the docu. More version info. Dealing with the upcoming ROOT V6.24.
+
+Release of V1.7.0, 2021/04/30
+=============================
+
+Centralize the rge-handling for user functions.
+
+Release of V1.6.5, 2021/01/22
+=============================
+
+Add Qt6 version of musredit, mupp, etc.
+
+Release of V1.6.4, 2020/08/29
+=============================
+
+Allow to view time spectra and Fourier theory only calculated at the data points 
+via the option '-1' or '--one_to_one'.
+
+Release of V1.6.3, 2020/07/27
+=============================
+
+A single asymmetry plot allows to toggle the color of the theory function line 
+by the key 't'.
+
+Release of V1.6.2, 2020/06/17
+=============================
+
+Functions not only can use parameters and maps but now also meta data from the 
+data files like, field (B or b), energy (En or en), or temperature (T<x> pr t<x>
+where <x> is a number starting from 0, e.g. t0).
+
+Release of V1.6.1, 2020/05/25
+=============================
+
+For asymmetry fits: allow alpha, beta in the RUN block to be functions.
+
+Release of V1.6.0, 2020/05/16
+=============================
+
+Allow to transform parameter vectors of run collections for mupp. 
+This allows for instance to calculate the superfluid density directly from the
+depolarization rate and plot it.
+
+Release of V1.5.2, 2020/02/03
+=============================
+
+Implemented a SECTOR command. It allows to get chisq/maxLH information from 
+different time sector slots.
+
+Release of V1.5.0, 2019/05/15
+=============================
+
+Added beta-NMR support (thanks to Zaher Salman).
+
+Release of V1.4.2, 2019/03/08
+=============================
+
+The tool chain support for automake is removed. Only the cmake tool chain is
+supported from now one. 
+
+Release of V1.2.0, 2017/10/26
+=============================
+
+Adopted to be ready for rpm builds in a first step. This will be followed by debian style
+packages.
+
+Release of V1.1.0, 2017/10/26
+=============================
+
+Added full DKS support, i.e. additionally to CUDA also OpenCL for GPU's and CPU's in place.
+
+Release of V1.0.0, 2017/05/18
+=============================
+
+I feel that musrfit has majored enough to lift it to its first full version, i.e. V1.0.0.
+
+A lot of bug fixing went into it since 0.18.0. It is now also fully ROOT 6 compatible which
+is also the main supported version now.
+
+New features: 
+
+* musrWiz:  a wizard which will help the user to get started to generate msr-files.
+* musrStep: a little helper program which allows to reset the step size of a msr-file.
+            This is useful if you deal with a lot of detectors (e.g. HAL-9500 at PSI).
+* auto-phase correction of Fourier transforms: this is still in its early stage but will
+            eventually provide a real phase corrected Fourier transform, which will allow
+            a real Fourier detector average.
+* the startup file handling has improved substantially.        
+
+changes since 0.18.0
+===================================
+
+changes since 0.17.0
+===================================
+NEW 2016-12-18 for maxLH it is now possible to get the per-run-block maxLH,
+               and the expected maxLH.
+NEW 2016-12-18 musrview allows no to show directly the Fourier transform,
+               and the averaged data/Fourier transform.
+NEW 2016-12-18 added a first full version of an automatic phase correction 
+               for the real part of the Fourier transform. It is based on
+               the algorithm published in JMR 158, 164 (2002).
+NEW 2016-12-18 a couple of improvements in dump_header: (i) it is not
+               only searching in the current directory, but also in all
+               default paths defined in musrfit_startup.xml. (ii) it is
+               now possible also to give only run numbers instead of the
+               full file name.
+NEW 2016-08-24 in musrview it is now possible to enable/disable a
+               crosshair cursor by pressing 'c'.
+NEW 2016-04-28 updated licence info in musredit and added paramList 
+               feature to the msr2data GUI.
+NEW 2016-04-28 msr2data gets a new option: paramList which allows to 
+               extract a subset of all the parameters of a collection
+               of msr-files.
+NEW 2016-04-22 Added the theory function muMinusExpTF for mu minus fits
+NEW 2016-02-23 It is now possible to export the averaged data/Fourier
+CHANGED 2016-12-18 updated the docu.
+CHANGED 2016-12-18 a couple of little improvements in musredit.
+CHANGED 2016-08-10 drop NeXus support for Version < 4.4
+CHANGED 2016-04-26 start-/endTimeBin are now class members. This reduces 
+               the number of recalculations.
+FIXED 2016-08-02 run lists are now properly loaded if containing nS-nE elements.
+
+changes since 0.16.0
+===================================
+NEW 2016-01-22 update of the docu which now describes the RRF option.
+CHANGED 2016-02-17 move the startup XML-files to $HOME/.musrfit
+               rather than having it within $prefix/bin. Increase
+               therefore the version number to 0.17.0
+CHANGED 2016-02-16 if the LEM file is created 2012 or later and the
+               data-file-format tag is still ROOT-NPP or ROOT-PPC, it
+               will automatically switched to MUSR-ROOT. This way red/green
+               issues should be prevented. (see MUSR-314).
+CHANGED 2016-02-16 start migrating the icons of musredit_qt5 to the breeze
+               icons (https://github.com/NitruxSA/breeze-icon-theme).
+               At the same time I start to redesign the musrfit specific
+               icons accordingly (not yet happy with it, but ...).
+
 changes since 0.15.0
 ===================================
 NEW 2016-01-22 add RRF fit option. At the same time, the version has been
@@ -82,6 +334,8 @@ NEW 2015-02-13 first implementation of a standalone Fourier transform/plotter:
                A first simple minded lifetime correction is implemented as well.                
 NEW 2015-02-04 Integration of libBNMR for fitting beta-NMR relaxation data
 	       into automake of musrfit.
+NEW 2015-01-17 adding a branch for ROOT 6.x. This needs some minor adaptations due
+               to the new rootcint/rootclang and the stricter c++11.
 NEW 2014-12-18 first implementation of a GLOBAL block which allows to shorten
                a typical msr-file. Duplicate entries from the RUN blocks can be
                added here. Furthermore, the 'lifetimecorrection' flag is 

INSTALL

@@ -1,18 +1,47 @@
 #---------------------------------------------------------------------
 # INSTALL
-# AS/BMW, 2014/02/11; 2011/01/27
 #---------------------------------------------------------------------
 
-To get it all build:
+In the following it is assumed that the system variable ROOTSYS is already
+defined and pointing to the place where CERN/ROOT is installed.
 
-   sh autogen.sh
-   ./configure --prefix=/opt/cern/root       (or where ever musrfit should be installed)
-   make
+#----------------------------------
+# Install via cmake tool chain
+#----------------------------------
+
+cmake minimal required version is 3.6.
+
+musrfit supports only out-of-source cmake build! Hence, go to the musrfit
+directory and
+
+   mkdir build
+   cd build 
+   cmake ../ -DCMAKE_INSTALL_PREFIX=$ROOTSYS (or where ever musrfit should be installed)
+   cmake --build ./ --clean-first
    make install                              (as superuser -- maybe)
+   /sbin/ldconfig                            (as superuser)
     
-In the optimal case, everything is set up ;-)
+cmake configuration allows a couple of switches.  For details check the documentation at 
 
-More information about the software requirements and the installation can be found at:
+   http://lmu.web.psi.ch/musrfit/user/MUSR/MusrFitSetup.html
+
+An example with NeXus support and BMWlibs needed would look like this
+
+   mkdir build
+   cd build
+   cmake ../ -Dnexus=1 -DBMWlibs=1 -DCMAKE_INSTALL_PREFIX=$ROOTSYS 
+   cmake --build ./ --clean-first
+   make install                              (as superuser -- maybe)
+   /sbin/ldconfig                            (as superuser)
+
+In the optimal case everything is ready to be used ;-)
+
+#----------------------------------
+# Link to the documentation
+#----------------------------------
+
+More information regarding software requirements and the installation process 
+can be found here:
 
    http://lmu.web.psi.ch/musrfit/user/MUSR/MusrFitSetup.html
 

Makefile.am

@@ -1,45 +0,0 @@
-## Process this file with automake to create Makefile.in
-
-SUBDIRS = src
-
-EXTRA_DIST = autogen.sh acinclude.m4
-
-# The following is to install the documentation
-# It is a bit lengthy because one cannot simply install whole directories (except copying them recursively -- which also takes the .svn directories...)
-DOCDIRS = templates \
-          examples \
-          examples/data \
-          examples/ASlibs \
-          examples/ASlibs/data \
-          examples/ASlibs/profiles \
-          examples/BMWlibs \
-          examples/BMWlibs/data \
-          examples/BMWlibs/profiles \
-          html/user \
-          html/user/MUSR \
-          html/user/pub/Main/SmiliesPluginPSI \
-          html/user/pub/Main/WebPreferences \
-          html/user/pub/MUSR/LibFitPofB \
-          html/user/pub/MUSR/LibZFRelaxation \
-          html/user/pub/MUSR/Msr2Data \
-          html/user/pub/MUSR/MusrFit \
-          html/user/pub/MUSR/MusrGui \
-          html/user/pub/MUSR/QuickStart \
-          html/user/pub/MUSR/TutorialSingleHisto \
-          html/user/pub/System/DocumentGraphics \
-          html/user/pub/System/HeadlinesPlugin \
-          html/user/pub/System/PatternSkin \
-          html/user/pub/System/PatternSkinTheme2009 \
-          html/user/pub/System/PsiSkin \
-          html/user/pub/System/SkinTemplates
-          #html/technical
-
-install-data-hook:
-	@$(NORMAL_INSTALL)
-	for DIR in $(DOCDIRS); do $(MKDIR_P) $(DOCDIR)/$$DIR; $(INSTALL_DATA) doc/$$DIR/*.* $(DOCDIR)/$$DIR; done
-	$(MKDIR_P) $(DOCDIR)/latex_images
-	$(INSTALL_DATA) src/musredit/latex_images/*.png $(DOCDIR)/latex_images
-
-uninstall-hook:
-	@$(NORMAL_UNINSTALL)
-	rm -rf $(DOCDIR)

README

@@ -1,35 +1,43 @@
 README
+------
 
-musrfit - muSR data analysis package
+musrfit - muSR and beta-NMR data analysis package
 
 Contents
 --------
 
 This is a data analysis package to analyze time differential muSR and beta-NMR data. 
-Currently it allows the following things:
+Currently it allows the following:
 
-* setting up most commonly used fitting functions for muSR and beta-NMR
-* fitting data, including global fits
-* showing the fit results and the residuals
-* showing the Fourier transform of the data
-* extracting easily the fitting parameters to be used in other programs (gnuplot, qtiplot/origin, ...)
-* allows to generate fitting input files for follow-up runs
-* allows to generate global fitting input files based on a single run template
-* allows to implement more sophisticated user functions 
+* set up most commonly used fitting functions for muSR and beta-NMR
+* fit data, including global fits
+* show the fit results and the residuals
+* show the Fourier transform of the data
+* easily extract the fit parameters and import in other programs (gnuplot, qtiplot/origin, ...)
+* generate input fitting files for follow-up runs
+* generate global input fitting files based on a single run template
+* implement more sophisticated user functions 
   (e.g. GL vortex lattice, Meissner screening including low-energy muon stopping profiles)
 
-Currently supported platforms:
+Currently supported platforms
+-----------------------------
 
 * Linux
 * Mac OS X
-* Windows - not really, only for the very brave ones
+* Windows 10 1809 or newer - current state is for the commited ones
+* Web based implementation - http://musruser.psi.ch/cgi-bin/musrfit.cgi
 
 Documentation
+-------------
 
 For a more exhaustive user documentation see:
 
-  http://lmu.web.psi.ch/musrfit/user/MUSR/WebHome.html
+  http://lmu.web.psi.ch/musrfit/user/html/index.html
 
-Contact
+Contacts
 
   <andreas.suter@psi.ch>
+
+  For the beta-NMR related parts, please contact
+
+  <zaher.salman@psi.ch>

README.md

@@ -1,32 +1,37 @@
-# musrfit - muSR data analysis package #
+# musrfit - muSR and beta-NMR data analysis package #
 
 ### Contents ###
 
 This is a data analysis package to analyze time differential muSR and beta-NMR data.
-Currently it allows the following things:
+Currently it allows the following:
 
-* setting up most commonly used fitting functions for muSR and beta-NMR
-* fitting data, including global fits
-* showing the fit results and the residuals
-* showing the Fourier transform of the data
-* extracting easily the fitting parameters to be used in other programs (gnuplot, qtiplot/origin, ...)
-* allows to generate fitting input files for follow-up runs
-* allows to generate global fitting input files based on a single run template
-* allows to implement more sophisticated user functions 
+* set up most commonly used fitting functions for muSR and beta-NMR
+* fit data, including global fits
+* show the fit results and the residuals
+* show the Fourier transform of the data
+* easily extract the fit parameters and import in other programs (gnuplot, qtiplot/origin, ...)
+* generate input fitting files for follow-up runs
+* generate global input fitting files based on a single run template
+* implement more sophisticated user functions
   (e.g. GL vortex lattice, Meissner screening including low-energy muon stopping profiles)
 
 ### Currently supported platforms: ###
 
 * Linux
 * Mac OS X
-* Windows - not really, only for the very brave ones
+* Windows 10 1809 or newer - current state is for the commited ones
+* Web based implementation - http://musruser.psi.ch/cgi-bin/musrfit.cgi
 
 ### Documentation ####
 
 For a more exhaustive user documentation see:
 
-  http://lmu.web.psi.ch/musrfit/user/MUSR/WebHome.html
+  http://lmu.web.psi.ch/musrfit/user/html/index.html
 
-### Contact ###
+### Contacts ###
 
 <andreas.suter@psi.ch>
+
+For the beta-NMR related parts, please contact Zaher Salman
+<zaher.salman@psi.ch>
+

acinclude.m4

@@ -1,128 +0,0 @@
-dnl -*- mode: autoconf -*- 
-dnl
-dnl $Id: root.m4,v 1.3 2005/03/21 21:42:21 rdm Exp $
-dnl $Author: rdm $
-dnl $Date: 2005/03/21 21:42:21 $
-dnl
-dnl Autoconf macro to check for existence or ROOT on the system
-dnl Synopsis:
-dnl
-dnl  ROOT_PATH([MINIMUM-VERSION, [ACTION-IF-FOUND, [ACTION-IF-NOT-FOUND]]])
-dnl
-dnl Some examples: 
-dnl 
-dnl    ROOT_PATH(3.03/05, , AC_MSG_ERROR(Your ROOT version is too old))
-dnl    ROOT_PATH(, AC_DEFINE([HAVE_ROOT]))
-dnl 
-dnl The macro defines the following substitution variables
-dnl
-dnl    ROOTCONF           full path to root-config
-dnl    ROOTEXEC           full path to root
-dnl    ROOTCINT           full path to rootcint
-dnl    ROOTLIBDIR         Where the ROOT libraries are 
-dnl    ROOTINCDIR         Where the ROOT headers are 
-dnl    ROOTETCDIR         Where the ROOT configuration is
-dnl    ROOTCFLAGS         Extra compiler flags
-dnl    ROOTLIBS           ROOT basic libraries 
-dnl    ROOTGLIBS          ROOT basic + GUI libraries
-dnl    ROOTAUXLIBS        Auxilary libraries and linker flags for ROOT
-dnl    ROOTAUXCFLAGS      Auxilary compiler flags 
-dnl    ROOTRPATH          Same as ROOTLIBDIR
-dnl
-dnl The macro will fail if root-config and rootcint isn't found.
-dnl
-dnl Christian Holm Christensen <cholm@nbi.dk>
-dnl
-AC_DEFUN([ROOT_PATH],
-[
-  AC_ARG_WITH([rootsys],
-              [AC_HELP_STRING([--with-rootsys],
-			      [top of the ROOT installation directory])],
-    			      [user_rootsys=$withval],
-			      [user_rootsys="none"])
-  if test ! x"$user_rootsys" = xnone; then
-    rootbin="$user_rootsys/bin"
-  elif test ! x"$ROOTSYS" = x ; then 
-    rootbin="$ROOTSYS/bin"
-  else 
-   rootbin=$PATH
-  fi
-  AC_PATH_PROG(ROOTCONF, root-config , no, $rootbin)
-  AC_PATH_PROG(ROOTEXEC, root , no, $rootbin)
-  AC_PATH_PROG(ROOTCINT, rootcint , no, $rootbin)
-	
-  if test ! x"$ROOTCONF" = "xno" && \
-     test ! x"$ROOTCINT" = "xno" ; then 
-
-    # define some variables 
-    ROOTLIBDIR=`$ROOTCONF --libdir`
-    ROOTINCDIR=`$ROOTCONF --incdir`
-    ROOTETCDIR=`$ROOTCONF --etcdir`
-    ROOTCFLAGS=`$ROOTCONF --noauxcflags --cflags` 
-    ROOTLIBS=`$ROOTCONF --noauxlibs --noldflags --libs`
-    ROOTGLIBS=`$ROOTCONF --noauxlibs --noldflags --glibs`
-    ROOTAUXCFLAGS=`$ROOTCONF --auxcflags`
-    ROOTAUXLIBS=`$ROOTCONF --auxlibs`
-    ROOTRPATH=$ROOTLIBDIR
-    ROOTVERSION=`$ROOTCONF --version`
-    ROOTSOVERSION=`dirname $ROOTVERSION`
-	
-    if test $1 ; then 
-      AC_MSG_CHECKING(whether ROOT version >= [$1])
-      vers=`$ROOTCONF --version | tr './' ' ' | awk 'BEGIN { FS = " "; } { printf "%d", ($''1 * 1000 + $''2) * 1000 + $''3;}'`
-      requ=`echo $1 | tr './' ' ' | awk 'BEGIN { FS = " "; } { printf "%d", ($''1 * 1000 + $''2) * 1000 + $''3;}'`
-      if test $vers -lt $requ ; then 
-        AC_MSG_RESULT(no)
-	no_root="yes"
-      else 
-        AC_MSG_RESULT(yes)
-      fi
-    fi
-  else
-    # otherwise, we say no_root
-    no_root="yes"
-  fi
-
-  AC_SUBST(ROOTLIBDIR)
-  AC_SUBST(ROOTINCDIR)
-  AC_SUBST(ROOTETCDIR)
-  AC_SUBST(ROOTCFLAGS)
-  AC_SUBST(ROOTLIBS)
-  AC_SUBST(ROOTGLIBS) 
-  AC_SUBST(ROOTAUXLIBS)
-  AC_SUBST(ROOTAUXCFLAGS)
-  AC_SUBST(ROOTRPATH)
-  AC_SUBST(ROOTVERSION)
-  AC_SUBST(ROOTSOVERSION)
-
-  if test "x$no_root" = "x" ; then 
-    ifelse([$2], , :, [$2])     
-  else 
-    ifelse([$3], , :, [$3])     
-  fi
-])
-
-#
-# Macro to check if ROOT has a specific feature:
-#
-#   ROOT_FEATURE(FEATURE,[ACTION_IF_HAVE,[ACTION_IF_NOT]])
-#
-# For example 
-#
-#   ROOT_FEATURE([ldap],[AC_DEFINE([HAVE_ROOT_LDAP])])
-# 
-AC_DEFUN([ROOT_FEATURE],
-[
-  AC_REQUIRE([ROOT_PATH])
-  feat=$1
-  res=`$ROOTCONF --has-$feat` 
-  if test "x$res" = "xyes" ; then 
-    ifelse([$2], , :, [$2])     
-  else 
-    ifelse([$3], , :, [$3])     
-  fi
-])
-
-#
-# EOF
-#

autogen.sh

@@ -1,101 +0,0 @@
-#! /bin/sh
- 
-# autogen.sh
-#
-# Copyright (c) 2009  BMW
-# Copyright (c) 2002  Daniel Elstner  <daniel.elstner@gmx.net>
-#
-# This program is free software; you can redistribute it and/or modify
-# it under the terms of the GNU General Public License VERSION 2 as
-# published by the Free Software Foundation.  You are not allowed to
-# use any other version of the license; unless you got the explicit
-# permission from the author to do so.
-#
-# This program is distributed in the hope that it will be useful,
-# but WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-# GNU General Public License for more details.
-#
-# You should have received a copy of the GNU General Public License
-# along with this program; if not, write to the Free Software
-# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
-
-PATHTOAUTOCONF=$(which autoconf)
-PATHTOAUTOMAKE=$(which automake)
-PATHTOLIBTOOL=$(which libtoolize)
-PATHTOGLIBTOOL=
-if [ "$PATHTOLIBTOOL" = "" ]; then
-  PATHTOGLIBTOOL=$(which glibtoolize)
-fi
-
-if [ "$PATHTOAUTOCONF" = "" ]; then
-  echo
-  echo ">> GNU autoconf has not been found!"
-  echo ">> Please install it first and then re-run the script!"
-  echo
-  exit 1
-elif [ "$PATHTOAUTOMAKE" = "" ]; then
-  echo
-  echo ">> GNU automake has not been found!"
-  echo ">> Please install it first and then re-run the script!"
-  echo
-  exit 1
-elif [ "$PATHTOLIBTOOL" = "" ] && [ "$PATHTOGLIBTOOL" = "" ]; then
-  echo
-  echo ">> GNU libtool has not been found!"
-  echo ">> Please install it first and then re-run the script!"
-  echo
-  exit 1
-fi
-
-if [ "$PATHTOLIBTOOL" = "" ]; then
-  LIBTOOLIZE="glibtoolize"
-else
-  LIBTOOLIZE="libtoolize"
-fi
-
-dir=`echo "$0" | sed 's,[^/]*$,,'`
-test "x${dir}" = "x" && dir='.'
-
-if test "x`cd "${dir}" 2>/dev/null && pwd`" != "x`pwd`"
-then
-    echo "This script must be executed directly from the source directory!"
-    exit 1
-fi
-
-if !(test -d admin); then
-  mkdir admin
-fi
-
-rm -f config.cache
-
-if test -e admin/depcomp          && \
-   test -e admin/install-sh       && \
-   test -e admin/ltmain.sh        && \
-   test -e admin/missing          && \
-   test -e aclocal.m4
-then
-    echo ">> autoreconf"          && \
-    autoreconf                    && exit 0
-else
-    echo ""                       && \
-    echo "+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++" && \
-    echo "+ This script prepares the building environment for the configuration of    +" && \
-    echo "+ musrfit. During this process some informative messages might appear which +" && \
-    echo "+ can safely be ignored as long as they are not tagged as errors.           +" && \
-    echo "+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++" && \
-    echo ""                       && \
-    echo ">> libtoolize"          && \
-    $LIBTOOLIZE --force           && \
-    echo ">> aclocal"             && \
-    aclocal                       && \
-    echo ">> autoconf"		  && \
-    autoconf                      && \
-    echo ">> autoheader"          && \
-    autoheader			  && \
-    echo ">> automake"		  && \
-    automake --add-missing --gnu  && exit 0
-fi
-
-exit 1
-

cmake/CPackOptions.cmake.in

@@ -0,0 +1,43 @@
+# musrfit - cpack
+
+include(CPackComponent)
+
+set (CPACK_PACKAGE_NAME "musrfit-root6")
+set (CPACK_PACKAGE_VENDOR "Paul Scherrer Institute - LMU - LEM")
+set (CPACK_PACKAGE_DIRECTOR "@CMAKE_CURRENT_BINARY_DIR@/pack")
+set (CPACK_PACKAGE_VERSION_MAJOR "@PROJECT_VERSION_MAJOR@")
+set (CPACK_PACKAGE_VERSION_MINOR "@PROJECT_VERSION_MINOR@")
+set (CPACK_PACKAGE_VERSION_PATCH "@PROJECT_VERSION_PATCH@")
+set (CPACK_PACKAGE_CONTACT "<andreas.suter@psi.ch>")
+set (CPACK_PACKAGE_DESCRIPTION_FILE "@PROJECT_SOURCE_DIR@/README.md")
+set (CPACK_PACKAGE_DESCRIPTION_SUMMARY "musrfit - muSR data analysis package")
+set (CPACK_PACKAGE_HOMEPAGE_URL "http://lmu.web.psi.ch/musrfit/user/html/index.html")
+set (CPACK_PACKAGE_CHECKSUM "MD5")
+set (CPACK_RESOURCE_FILE_LICENSE "@PROJECT_SOURCE_DIR@/COPYING")
+set (CPACK_RESOURCE_FILE_README "@PROJECT_SOURCE_DIR@/README.md")
+set (CPACK_RESOURCE_FILE_WELCOME "@PROJECT_SOURCE_DIR@/cmake/welcome.txt")
+
+set (CPACK_RPM_EXCLUDE_FROM_AUTO_FILELIST_ADDITION "@CMAKE_INSTALL_PREFIX@;@CMAKE_INSTALL_PREFIX@/bin;@CMAKE_INSTALL_PREFIX@/include;@CMAKE_INSTALL_PREFIX@/share;@CMAKE_INSTALL_PREFIX@/lib64;@CMAKE_INSTALL_PREFIX@/lib;@CMAKE_INSTALL_PREFIX@/pkgconfig")
+
+# we do not have any absolute paths, so do not need DESTDIR
+set (CPACK_SET_DESTDIR "OFF")
+set (CPACK_PACKAGE_RELOCATABLE "true")
+
+if (${CPACK_GENERATOR} STREQUAL "RPM")
+  set (CPACK_RPM_PACKAGE_REQUIRES "root >= 6.22.00") 
+  set (CPACK_INSTALL_PREFIX "@CMAKE_INSTALL_PREFIX@")
+  set (CPACK_PACKAGING_INSTALL_PREFIX "@CMAKE_INSTALL_PREFIX@")
+  set (CPACK_RPM_FILE_NAME "RPM-DEFAULT")
+  set (CPACK_RPM_PACKAGE_RELEASE "1")
+  # next variable for RHEL, CentOS, Fedora
+  set (CPACK_RPM_PACKAGE_RELEASE_DIST "el8")
+  set (CPACK_RPM_PACKAGE_LICENSE "GPLv2")
+  set (CPACK_RPM_PACKAGE_VENDOR "Paul Scherrer Institute - LMU - LEM")
+  set (CPACK_RPM_CHANGELOG_FILE "@PROJECT_SOURCE_DIR@/cmake/ChangeLogRPM")
+  set (CPACK_RPM_POST_INSTALL_SCRIPT_FILE "@PROJECT_SOURCE_DIR@/cmake/post_install.sh")
+  set (CPACK_RPM_POST_UNINSTALL_SCRIPT_FILE "@PROJECT_SOURCE_DIR@/cmake/post_uninstall.sh")
+endif ()
+
+if (${CPACK_GENERATOR} STREQUAL "DEB")
+  # to be populated yet
+endif ()

cmake/ChangeLogRPM

@@ -0,0 +1,4 @@
+* Mon Mar 11 2019 Andreas Suter <andreas.suter@psi.ch> - 1.4.2-2
+- minor version update
+* Mon Jan 14 2019 Andreas Suter <andreas.suter@psi.ch> - 1.4.0-1
+- first cpack/cmake version

cmake/FindFFTW3.cmake

@@ -0,0 +1,220 @@
+# - Find fftw3 library
+# Find the native FFTW3 includes and library
+# This module defines
+#  FFTW3_INCLUDE, where to find fftw3.h, etc.
+# ---
+#  FFTW3_LIBRARY, library to link against to use FFTW3
+#  FFTW3_OMP_LIBRARY, library to link against to use FFTW3_omp
+#  FFTW3_THREADS_LIBRARY, library to link against to use FFTW3_threads
+#  FFTW3_FOUND, if false, do not try to use FFTW3.
+#  FFTW3_OMP_FOUND, if false, do not try to use OpenMP FFTW3.
+#  FFTW3_THREADS_FOUND, if false, do not try to use threaded FFTW3.
+# ---
+#  FFTW3L_LIBRARY, library to link against to use FFTW3l
+#  FFTW3L_OMP_LIBRARY, library to link against to use FFTW3l_omp
+#  FFTW3L_THREADS_LIBRARY, library to link against to use FFTW3l_threads
+#  FFTW3L_FOUND, if false, do not try to use FFTW3l.
+#  FFTW3L_OMP_FOUND, if false, do not try to use OpenMP FFTW3l.
+#  FFTW3L_THREADS_FOUND, if false, do not try to use threaded FFTW3l.
+# ---
+#  FFTW3F_LIBRARY, library to link against to use FFTW3f
+#  FFTW3F_OMP_LIBRARY, library to link against to use FFTW3f_omp
+#  FFTW3F_THREADS_LIBRARY, library to link against to use FFTW3f_threads
+#  FFTW3F_FOUND, if false, do not try to use FFTW3f.
+#  FFTW3F_OMP_FOUND, if false, do not try to use OpenMP FFTW3f.
+#  FFTW3F_THREADS_FOUND, if false, do not try to use threaded FFTW3f.
+# ---
+#  FFTW3Q_LIBRARY, library to link against to use FFTW3q
+#  FFTW3Q_OMP_LIBRARY, library to link against to use FFTW3q_omp
+#  FFTW3Q_THREADS_LIBRARY, library to link against to use FFTW3q_threads
+#  FFTW3Q_FOUND, if false, do not try to use FFTW3q.
+#  FFTW3Q_OMP_FOUND, if false, do not try to use OpenMP FFTW3q.
+#  FFTW3Q_THREADS_FOUND, if false, do not try to use threaded FFTW3q.
+
+function(add_imported_library lib_name library headers)
+  add_library(FFTW3::${lib_name} UNKNOWN IMPORTED)
+  set_target_properties(FFTW3::${lib_name} PROPERTIES
+    IMPORTED_LOCATION ${library}
+    INTERFACE_INCLUDE_DIRECTORIES ${headers}
+  )
+  set(${lib_name}_FOUND 1 CACHE INTERNAL "FFTW3 ${lib_name} found" FORCE)
+  set(${lib_name}_LIBRARY ${library}
+      CACHE STRING "Path to FFTW3::${lib_name} library" FORCE)
+  set(FFTW3_INCLUDE ${headers}
+      CACHE STRING "Path to FFTW3 headers" FORCE)
+  mark_as_advanced(FORCE ${lib_name}_LIBRARY)
+  mark_as_advanced(FORCE FFTW3_INCLUDE)
+endfunction()
+
+#as35 if (FFTW3_LIBRARY AND FFTW3_INCLUDE)
+#as35   add_imported_library(${FFTW3_LIBRARY} ${FFTW3_INCLUDE})
+#as35   if (FFTW3_OMP_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3_OMP_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3_THREAD_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3_THRED_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3L_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3L_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3L_OMP_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3L_OMP_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3L_THREAD_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3L_THRED_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3F_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3F_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3F_OMP_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3F_OMP_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3F_THREAD_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3F_THRED_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3Q_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3Q_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3Q_OMP_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3Q_OMP_LIBRARY} ${FFTW3_INCLUDE})
+#as35   elseif (FFTW3Q_THREAD_LIBRARY AND FFTW3_INCLUDE)
+#as35     add_imported_library(${FFTW3Q_THRED_LIBRARY} ${FFTW3_INCLUDE})
+#as35   endif()
+#as35   return()
+#as35 endif()
+
+find_path(FFTW3_INCLUDE NAMES fftw3.h
+  HINTS "/usr/include" "/opt/local/include" "/app/include"
+)
+
+find_library(FFTW3_LIBRARY fftw3)
+find_library(FFTW3_OMP_LIBRARY fftw3_omp)
+find_library(FFTW3_THREAD_LIBRARY fftw3_threads)
+find_library(FFTW3L_LIBRARY fftw3l)
+find_library(FFTW3L_OMP_LIBRARY fftw3l_omp)
+find_library(FFTW3L_THREAD_LIBRARY fftw3l_threads)
+find_library(FFTW3F_LIBRARY fftw3f)
+find_library(FFTW3F_OMP_LIBRARY fftw3f_omp)
+find_library(FFTW3F_THREAD_LIBRARY fftw3f_threads)
+find_library(FFTW3Q_LIBRARY fftw3q)
+find_library(FFTW3Q_OMP_LIBRARY fftw3q_omp)
+find_library(FFTW3Q_THREAD_LIBRARY fftw3q_threads)
+
+# handle the QUIETLY and REQUIRED arguments and set FFTW3_FOUND to TRUE if
+# all listed variables are TRUE
+include(${CMAKE_ROOT}/Modules/FindPackageHandleStandardArgs.cmake)
+
+# FFTW3
+find_package_handle_standard_args(FFTW3
+                                  DEFAULT_MSG FFTW3_LIBRARY FFTW3_INCLUDE
+                                 )
+if (FFTW3_FOUND)
+  add_imported_library("FFTW3" "${FFTW3_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3_OMP
+find_package_handle_standard_args(FFTW3_OMP
+                                  REQUIRED_VARS FFTW3_OMP_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3_OMP_FOUND)
+  add_imported_library("FFTW3_OMP" "${FFTW3_OMP_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3_THREAD
+find_package_handle_standard_args(FFTW3_THREAD
+                                  REQUIRED_VARS FFTW3_THREAD_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3_THREAD_FOUND)
+  add_imported_library("FFTW3_THREAD" "${FFTW3_THREAD_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3L
+find_package_handle_standard_args(FFTW3L
+                                  REQUIRED_VARS FFTW3L_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3L_FOUND)
+  add_imported_library("FFTW3L" "${FFTW3L_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3L_OMP
+find_package_handle_standard_args(FFTW3L_OMP
+                                  REQUIRED_VARS FFTW3L_OMP_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3L_OMP_FOUND)
+  add_imported_library("FFTW3L_OMP" "${FFTW3L_OMP_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3L_THREAD
+find_package_handle_standard_args(FFTW3L_THREAD
+                                  REQUIRED_VARS FFTW3L_THREAD_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3L_THREAD_FOUND)
+  add_imported_library("FFTW3L_THREAD" "${FFTW3L_THREAD_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3F
+find_package_handle_standard_args(FFTW3F
+                                  REQUIRED_VARS FFTW3F_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3F_FOUND)
+  add_imported_library("FFTW3F" "${FFTW3F_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3F_OMP
+find_package_handle_standard_args(FFTW3F_OMP
+                                  REQUIRED_VARS FFTW3F_OMP_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3F_OMP_FOUND)
+  add_imported_library("FFTW3F_OMP" "${FFTW3F_OMP_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3F_THREAD
+find_package_handle_standard_args(FFTW3F_THREAD
+                                  REQUIRED_VARS FFTW3F_THREAD_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3F_THREAD_FOUND)
+  add_imported_library("FFTW3F_THREAD" "${FFTW3F_THREAD_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3Q
+find_package_handle_standard_args(FFTW3Q
+                                  REQUIRED_VARS FFTW3Q_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3Q_FOUND)
+  add_imported_library("FFTW3Q" "${FFTW3Q_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3Q_OMP
+find_package_handle_standard_args(FFTW3Q_OMP
+                                  REQUIRED_VARS FFTW3Q_OMP_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3Q_OMP_FOUND)
+  add_imported_library("FFTW3Q_OMP" "${FFTW3Q_OMP_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+# FFTW3Q_THREAD
+find_package_handle_standard_args(FFTW3Q_THREAD
+                                  REQUIRED_VARS FFTW3Q_THREAD_LIBRARY FFTW3_INCLUDE
+                                  HANDLE_COMPONENTS
+                                  NAME_MISMATCHED
+                                 )
+if (FFTW3Q_THREAD_FOUND)
+  add_imported_library("FFTW3Q_THREAD" "${FFTW3Q_THREAD_LIBRARY}" "${FFTW3_INCLUDE}")
+endif()
+
+pkg_check_modules(FFTW fftw3 QUIET)
+
+if (FFTW3_FOUND)
+  message("-- Found FFTW3: ${FFTW3_INCLUDE}, Version: ${FFTW_VERSION}")
+endif (FFTW3_FOUND)

cmake/FindHDF4.cmake

@@ -0,0 +1,97 @@
+## Process this file with cmake
+#=============================================================================
+#  NeXus - Neutron & X-ray Common Data Format
+#
+#  CMakeLists for building the NeXus library and applications.
+#
+#  Copyright (C) 2011 Stephen Rankin
+#
+#  This library is free software; you can redistribute it and/or modify it
+#  under the terms of the GNU Lesser General Public License as published by the
+#  Free Software Foundation; either version 2 of the License, or (at your
+#  option) any later version.
+#
+#  This library is distributed in the hope that it will be useful, but WITHOUT
+#  ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
+#  FITNESS FOR A PARTICULAR PURPOSE.  See the GNU Lesser General Public License
+#  for more details.
+#
+#  You should have received a copy of the GNU Lesser General Public License
+#  along with this library; if not, write to the Free Software Foundation,
+#  Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA
+#
+#  For further information, see <http://www.nexusformat.org>
+#
+#
+#=============================================================================
+
+
+#------------------------------------------------------------------------------
+# find the runtime binaries of the HDF4 library
+#------------------------------------------------------------------------------
+find_library(HDF4_DF_LIBRARY NAMES df hdf
+             HINTS ENV HDF4_ROOT 
+             PATH_SUFFIXES hdf)
+             
+
+if(HDF4_DF_LIBRARY MATCHES HDF4_DF_LIBRARY-NOTFOUND)
+    message(FATAL_ERROR "Could not find HDF4 DF library!")
+else()
+    get_filename_component(HDF4_LIBRARY_DIRS ${HDF4_DF_LIBRARY} PATH)
+    message(STATUS "Found HDF4 DF library: ${HDF4_DF_LIBRARY}")
+    message(STATUS "HDF4 libary path: ${HDF4_LIBRARY_DIRS}")
+endif()
+
+find_library(HDF4_MFHDF_LIBRARY NAMES mfhdf 
+             HINTS ENV HDF4_ROOT
+             PATH_SUFFIXES hdf)
+
+if(HDF4_MFHDF_LIBRARY MATCHES HDF4_MFHDF_LIBRARY-NOTFOUND)
+    message(FATAL_ERROR "Could not find HDF5 MFHDF library!")
+else()
+    message(STATUS "Found HDF4 MFHDF library: ${HDF4_MFHDF_LIBRARY}")
+endif()
+
+
+#------------------------------------------------------------------------------
+# find the HDF4 header file
+#------------------------------------------------------------------------------
+find_path(HDF4_INCLUDE_DIRS mfhdf.h 
+          HINTS ENV HDF4_ROOT 
+          PATH_SUFFIXES hdf)
+          
+if(HDF4_INCLUDE_DIRS MATCHES HDF4_INCLUDE_DIRS-NOTFOUND)
+    message(FATAL_ERROR "Could not find HDF4 header files")
+else()
+    message(STATUS "Found HDF4 header files in: ${HDF4_INCLUDE_DIRS}")
+endif()
+
+#------------------------------------------------------------------------------
+# search for additional packages required to link against HDF4
+#------------------------------------------------------------------------------
+find_package(JPEG REQUIRED)
+
+#------------------------------------------------------------------------------
+# add libraries to the link list for NAPI
+#------------------------------------------------------------------------------
+get_filename_component(LIB_EXT ${HDF4_DF_LIBRARY} EXT)
+if(LIB_EXT MATCHES .a)
+    message(STATUS "HDF4 DF library is static")
+    list(APPEND NAPI_LINK_LIBS "-Wl,-whole-archive" ${HDF4_DF_LIBRARY} "-Wl,-no-whole-archive")
+else()
+    list(APPEND NAPI_LINK_LIBS ${HDF4_DF_LIBRARY})
+endif()
+
+
+get_filename_component(LIB_EXT ${HDF4_MFHDF_LIBRARY} EXT)
+if(LIB_EXT MATCHES .a)
+    message(STATUS "HDF4 MFHDF library is static")
+    list(APPEND NAPI_LINK_LIBS "-Wl,-whole-archive" ${HDF4_MFHDF_LIBRARY} "-Wl,-no-whole-archive")
+else()
+    list(APPEND NAPI_LINK_LIBS ${HDF4_MFHDF_LIBRARY})
+endif()
+
+list(APPEND NAPI_LINK_LIBS jpeg)
+
+include_directories ( SYSTEM ${HDF4_INCLUDE_DIRS} )
+link_directories(${HDF4_LIBRARY_DIRS})

cmake/FindMXML.cmake

@@ -0,0 +1,34 @@
+# - find MXML
+# find the MXML lib and includes
+# This module defines 
+#  LIBMXML_INCLUDE_DIR, where to find mxml.h
+#  LIBMXML_LIBRARY, library to link against
+#  LIBMXML_FOUND, if false, do not try to use the MXML lib
+
+find_path(LIBMXML_INCLUDE_DIR mxml.h
+  HINT "/usr/include"
+)
+# find position of mxml.h from the end
+string(FIND "${LIBMXML_INCLUDE_DIR}" "/mxml.h" pos REVERSE)
+# truncate the string
+string(SUBSTRING "${LIBMXML_INCLUDE_DIR}" 0 ${pos} substr)
+set(LIBMXML_INCLUDE_DIR ${substr})
+unset(substr)
+
+find_library(LIBMXML_LIBRARY mxml)
+
+# get version string
+# currently do not know from where to get it automatically
+
+# handle the QUIETLY and REQUIRED arguments and set LIBMXML_FOUND to TRUE if
+# all listed variables are TRUE
+include(${CMAKE_ROOT}/Modules/FindPackageHandleStandardArgs.cmake)
+FIND_PACKAGE_HANDLE_STANDARD_ARGS(MXML
+                                  REQUIRED_VARS LIBMXML_LIBRARY LIBMXML_INCLUDE_DIR)
+
+if (NOT LIBMXML_FOUND)
+  unset(LIBMXML_LIBRARY)
+endif()
+
+mark_as_advanced(LIBMXML_INCLUDE_DIR LIBMXML_LIBRARY)
+

cmake/FindNEXUS.cmake

@@ -0,0 +1,45 @@
+# - Find NeXus library
+# Find the native NEXUS includes and library
+# This module defines
+#  NEXUS_INCLUDE_DIR, where to find NeXus.h, etc.
+#  NEXUS_LIBRARY, library to link against to use NEXUS
+#  NEXUS_FOUND, if false, do not try to use NEXUS.
+
+find_path(NEXUS_INCLUDE_DIR napi.h
+  HINTS "/usr/local/include" "/opt/nexus/include" "/usr/local/include/nexus"
+)
+# find position of napi.h from the end
+string(FIND "${NEXUS_INCLUDE_DIR}" "/napi.h" pos REVERSE)
+# truncate the string
+string(SUBSTRING "${NEXUS_INCLUDE_DIR}" 0 ${pos} substr)
+set(NEXUS_INCLUDE_DIR ${substr})
+unset(substr)
+
+find_library(NEXUS_LIBRARY NeXus 
+  HINTS "/usr/lib" "/usr/lib64" "/usr/local/lib" "/usr/local/lib64" "/opt/nexus/lib")
+
+# get version string
+if (NEXUS_INCLUDE_DIR AND EXISTS ${NEXUS_INCLUDE_DIR}/napi.h)
+  file(STRINGS "${NEXUS_INCLUDE_DIR}/napi.h" NEXUS_version_str
+       REGEX "^#define[\t ]+NEXUS_VERSION[\t ].*")
+
+  string(REGEX REPLACE "^#define[\t ]+NEXUS_VERSION[\t ]+\"([^\"]*).*"
+         "\\1" NEXUS_VERSION_STRING "${NEXUS_version_str}")
+  unset(NEXUS_version_str)
+endif()
+
+# handle the QUIETLY and REQUIRED arguments and set NEXUS_FOUND to TRUE if
+# all listed variables are TRUE
+include(${CMAKE_ROOT}/Modules/FindPackageHandleStandardArgs.cmake)
+FIND_PACKAGE_HANDLE_STANDARD_ARGS(NEXUS
+                                  REQUIRED_VARS NEXUS_LIBRARY NEXUS_INCLUDE_DIR
+                                  VERSION_VAR NEXUS_VERSION_STRING)
+
+if (NOT NEXUS_FOUND)
+  unset(NEXUS_LIBRARY)
+endif()
+
+mark_as_advanced(NEXUS_INCLUDE_DIR NEXUS_LIBRARY)
+
+
+

cmake/config.h.in

@@ -0,0 +1,69 @@
+// config.h
+
+#define PACKAGE_VERSION "@PROJECT_VERSION@"
+#define ROOT_VERSION_USED "@ROOT_VERSION@"
+#define BUILD_TYPE "@CMAKE_BUILD_TYPE@"
+
+// define to 1 if minor ROOT6 version is >= 24
+#define ROOT_GRTEQ_24 @ROOT_GRTEQ_24@
+
+// define to 1 if you have <alloca.h> and it should be used 
+#cmakedefine HAVE_ALLOCA_H 1
+
+// Define to 1 if you have the <dlfcn.h> header file.
+#cmakedefine HAVE_DLFCN_H 1
+
+// Define to 1 if you have the `erf' function.
+#cmakedefine HAVE_ERF 1
+
+// Define to 1 if you have the `getloadavg' function.
+#cmakedefine HAVE_GETLOADAVG 1
+
+// Define to 1 if gomp is available */
+#cmakedefine HAVE_GOMP 1
+
+// Define to 1 if you have the <inttypes.h> header file.
+#cmakedefine HAVE_INTTYPES_H 1
+
+// Define to 1 if the type `long double' works and has more range or precision than `double'.
+#cmakedefine HAVE_LONG_DOUBLE 1
+
+// Define to 1 if the type `long double' works and has more range or precision than `double'.
+#cmakedefine HAVE_LONG_DOUBLE_WIDER 1
+
+// Define to 1 if fftw3f_threads are available
+#cmakedefine HAVE_LIBFFTW3F_THREADS 1
+
+// Define to 1 if fftw3_threads are available
+#cmakedefine HAVE_LIBFFTW3_THREADS 1
+
+// Define to 1 if you have the <memory.h> header file.
+#cmakedefine HAVE_MEMORY_H 1
+
+// Define to 1 if you have the `powl' function.
+#cmakedefine HAVE_POWL 1
+
+// Define to 1 if you have the `shmget' function.
+#cmakedefine HAVE_SHMGET 1
+
+// Define to 1 if you have the <stdint.h> header file.
+#cmakedefine HAVE_STDINT_H 1
+
+// Define to 1 if you have the <stdlib.h> header file.
+#cmakedefine HAVE_STDLIB_H 1
+
+// Define to 1 if you have the <string.h> header file.
+#cmakedefine HAVE_STRING_H 1
+
+// Define to 1 if you have the <strings.h> header file.
+#cmakedefine HAVE_STRINGS_H 1
+
+// Define to 1 if you have the <sys/stat.h> header file.
+#cmakedefine HAVE_SYS_STAT_H 1
+
+// Define to 1 if you have the <sys/types.h> header file.
+#cmakedefine HAVE_SYS_TYPES_H 1
+
+// Define to 1 if you have the <unistd.h> header file.
+#cmakedefine HAVE_UNISTD_H 1
+

cmake/git-revision.h.in

@@ -0,0 +1,8 @@
+#ifndef GIT_VERSION_H
+#define GIT_VERSION_H
+
+#define GIT_BRANCH "@GIT_BRANCH@"
+#define GIT_CURRENT_SHA1 @GIT_CURRENT_SHA1@
+
+#endif // GIT_VERSION_H
+

cmake/musrfit-info.h.in

@@ -0,0 +1,4 @@
+//--- This file is generated by cmake -----------------------------------------
+
+#define MUSRFIT_PREFIX "@CMAKE_INSTALL_PREFIX@"
+#define MUSRFIT_DOC_DIR "@CMAKE_INSTALL_PREFIX@/share/doc/musrfit"

cmake/musrfit-root6.spec.in

@@ -0,0 +1,101 @@
+Name:           musrfit-root6
+Version:        1.4
+Release:        1%{?dist}
+Summary:        musrfit - muSR data analysis package
+
+License:        GPLv2
+URL:            http://lmu.web.psi.ch/musrfit/user/html/index.html
+Source0:        https://gitlab.psi.ch/nemu/musrfit/repository/%{name}-%{version}.tar.gz
+
+BuildRequires:  cmake
+BuildRequires:  libtool
+BuildRequires:  gcc
+BuildRequires:  make
+BuildRequires:  hdf-devel hdf5-devel
+BuildRequires:  mxml-devel
+BuildRequires:  fftw3-devel
+BuildRequires:  boost-devel
+BuildRequires:  gsl-devel
+BuildRequires:  libxml2-devel
+BuildRequires:  root
+BuildRequires:  root-io-xml
+BuildRequires:  root-mathmore
+BuildRequires:  root-minuit2
+BuildRequires:  qt5-qtbase-devel qt5-qtsvg-devel qt5-qtwebkit-devel
+BuildRequires:  nexus
+Requires:       hdf hdf5
+Requires:       mxml
+Requires:       fftw3
+Requires:       gsl
+Requires:       boost-devel
+Requires:       libxml2
+Requires:       root
+Requires:       root-io-xml
+Requires:       root-mathmore
+Requires:       root-minuit2
+Requires:       qt5-qtbase qt5-qtsvg qt5-qtwebkit
+Requires:       nexus
+
+%description
+This is a data analysis package to analyze time differential muSR and beta-NMR data. Currently it allows the following things:
+- setting up most commonly used fitting functions for muSR and beta-NMR
+- fitting data, including global fits
+- showing the fit results and the residuals
+- showing the Fourier transform of the data
+- extracting easily the fitting parameters to be used in other programs (gnuplot, qtiplot/origin, ...)
+- allows to generate fitting input files for follow-up runs
+- allows to generate global fitting input files based on a single run template
+- allows to implement more sophisticated user functions (e.g. GL vortex lattice, Meissner screening including low-energy muon stopping profiles)
+
+Currently supported platforms:
+- Linux
+- Mac OS X
+- Windows - not really, only for the very brave ones
+
+
+%prep
+%setup -q -n %{name}-%{version}
+
+
+%build
+##æs35 ./autogen.sh
+# DOCDIR is needed to be set here. BMWlibs still makes troubles
+%cmake -DASlibs=1 -DBMWlbis=1 -Dnexus=1 DOCDIR=$RPM_BUILD_ROOT/usr/share/doc/musrfit
+%cmake --build ./ --clean-first -- -j8
+##æs35 %configure --enable-ASlibs --enable-BMWlibs --enable-NeXus DOCDIR=$RPM_BUILD_ROOT/usr/share/doc/musrfit
+##æs35 %make_build
+
+
+%install
+# INSTALL_ROOT is needed for Qt applications
+rm -rf $RPM_BUILD_ROOT
+%make_install INSTALL_ROOT=%{buildroot}
+
+%files
+%_prefix/bin/any2many
+%_prefix/bin/dump_header
+%_prefix/bin/msr2data
+%_prefix/bin/msr2msr
+%_prefix/bin/mupp
+%_prefix/bin/mupp_plot
+%_prefix/bin/musredit
+%_prefix/bin/musrfit
+%_prefix/bin/musrFT
+%_prefix/bin/musrRootValidation
+%_prefix/bin/musrStep
+%_prefix/bin/musrt0
+%_prefix/bin/musrview
+%_prefix/bin/musrWiz
+%_prefix/bin/write_musrRoot_runHeader
+%_prefix/include/*
+%_prefix/lib64/*
+%license COPYING
+%doc %_prefix/share/doc/musrfit
+
+
+
+%changelog
+* Thu Dec 20 2018 Andreas Suter <andreas.suter@psi.ch> - 1.4-1
+- adopted to cmake 
+* Wed Oct 25 2017 Andreas Suter <andreas.suter@psi.ch> - 1.2-1
+- first spec file for musrfit-root6

cmake/post_install.sh

@@ -0,0 +1,12 @@
+#!/bin/bash
+
+echo "  >> musrfit post install script started ..."
+
+# test if nemu-x86_64.conf does not exist
+if [ ! -f "/etc/ld.so.conf.d/nemu-x86_64.conf" ]
+then
+  echo "/usr/local/lib" >> /etc/ld.so.conf.d/nemu-x86_64.conf 
+  echo "/usr/local/lib64" >> /etc/ld.so.conf.d/nemu-x86_64.conf   
+fi
+/sbin/ldconfig
+

cmake/post_uninstall.sh

@@ -0,0 +1,5 @@
+#!/bin/bash
+
+echo "  >> musrfit post uninstall script started ..."
+
+/sbin/ldconfig

cmake/welcome.txt

@@ -0,0 +1 @@
+Welcome to the musrfit package

doc/examples/ASlibs/nonlocal_startup.xml

@@ -1,13 +1,14 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <nonlocal xmlns="http://nemu.web.psi.ch/musrfit/nonlocal">
     <comment>
-        $Id: nonlocal_startup.xml 4047 2009-07-02 13:36:18Z nemu $
+        nonlocal_startup.xml
     </comment>
     <nonlocal_par>
         <fourier_points>262144</fourier_points>
     </nonlocal_par>
-    <trim_sp_part>
-        <data_path>profiles/Sn_E</data_path>
+    <trim_sp>
+        <data_path>./profiles/</data_path>
+        <rge_fln_pre>Sn_E</rge_fln_pre>
         <energy_list>
 	    <energy>1000</energy>
 	    <energy>2000</energy>
@@ -22,5 +23,5 @@
 	    <energy>25000</energy>
 	    <energy>27300</energy>
         </energy_list>
-    </trim_sp_part>
+    </trim_sp>
 </nonlocal>

doc/examples/ASlibs/test-nonlocal.msr

@@ -4,21 +4,21 @@ FITPARAMETER
 #      Nr. Name       Value     Step      Pos_Error Boundaries   
         1 one         1         0           none        
         2 zero        0         0           none        
-        3 Asy         0.2235    -0.0066     0.0072      0       0.33    
-        4 energy      22        0           none        
+        3 Asy         0.2235    -0.0065     0.0072      0       0.33    
+        4 energy      22000     0           none        
         5 redTemp     0.8683    0           none        
         6 thickness   5000      0           none        
         7 ell         12000     0           none        
         8 xi          94        0           none        
-        9 lambdaL     52.5      -1.4        1.2         
+        9 lambdaL     52.5      -1.3        1.2         
        10 Bext        47.11     0           none        
-       11 deadLayer   0.00052   -0.00052    6.89563     0       none    
+       11 deadLayer   0.0004    0.0037      none        0       none    
        12 RateSmear   0.418     -0.015      0.015       
-       13 N0_L        301.61    0.62        none        
-       14 Bkg_L       24.442    0.076       none        
+       13 N0_L        301.6     -1.1        1.2         
+       14 Bkg_L       24.441    -0.092      0.092       
        15 Phase_L     42.0      -2.2        2.2         
-       16 Alpha_LR    1.0614    -0.0066     0.0064      
-       17 Bkg_R       27.646    -0.090      0.090       
+       16 Alpha_LR    1.0613    -0.0066     0.0064      
+       17 Bkg_R       27.646    -0.089      0.090       
        18 RelPhase_R  154.4     -1.1        1.1         
 
 ###############################################################
@@ -37,7 +37,6 @@ RUN data/lem10_his_0825 MUE4 PSI ROOT-NPP   (name beamline institute data-file-f
 fittype         0         (single histogram fit)
 norm            13
 backgr.fit      14
-lifetimecorrection
 map             1    2    0    0    0    0    0    0    0    0
 forward         1 
 data            3289    65000   
@@ -49,7 +48,6 @@ RUN data/lem10_his_0825 MUE4 PSI ROOT-NPP   (name beamline institute data-file-f
 fittype         0         (single histogram fit)
 norm            fun1
 backgr.fit      17
-lifetimecorrection
 map            16   18    0    0    0    0    0    0    0    0
 forward         3 
 data            3289    65000   
@@ -69,23 +67,27 @@ SAVE
 
 ###############################################################
 PLOT 0   (single histo plot)
+lifetimecorrection
 runs     1   2   
 range    0   9   -0.3   0.3
 view_packing 500
 
 ###############################################################
 FOURIER
-units            Gauss   # units either 'Gauss', 'MHz', or 'Mc/s'
+units            Gauss   # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
 fourier_power    10
 apodization      STRONG  # NONE, WEAK, MEDIUM, STRONG
-plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE
+plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE, PHASE_OPT_REAL
 phase            8.5
 #range_for_phase_correction 50.0 70.0
-range            0.0    200.0
+range            0    200
 
 ###############################################################
-STATISTIC --- 2014-11-05 12:34:54
-  maxLH = 415.6, NDF = 358, maxLH/NDF = 1.160933
+STATISTIC --- 2021-03-30 15:04:30
+  maxLH = 415.6, NDF = 358, maxLH/NDF = 1.160942
+  expected maxLH = 418.1, NDF = 358, expected maxLH/NDF = 1.168011
+  run block 1: (NDF/red.maxLH/red.maxLH_e) = (177/1.072511/1.087460)
+  run block 2: (NDF/red.maxLH/red.maxLH_e) = (175/1.290186/1.289528)
 
 
 

doc/examples/BMWlibs/test-libFitPofB_Abrikosov-PSI-BIN.msr

@@ -2,23 +2,23 @@ LSCO x=0.195 single
 ###############################################################
 FITPARAMETER
 #       No Name        Value     Step        Pos_Error   Boundaries
-        1 phase       8.09      0.30        none        
-        2 field       107.08786 0.00052     none        
-        3 lambda      195.5703  0.0029      none        1       none    
+        1 phase       10.34     0.21        none        
+        2 field       112.82363 0.00033     none        
+        3 lambda      170.4570  0.0022      none        1       none    
         4 xi          4         0           none        0       10      
         
-        5 asym1       0.1980    0.0011      none        0       0.3     
-        6 rate1       0.7697    0.0063      none        
+        5 asym1       0.19219   -0.00079    0.00079     0       0.3     
+        6 rate1       0.7955    0.0043      none        
         7 asymBg      0         0           none        0       0.3     
         8 rateBg      0         0           none        0       none    
   
-        9 N01         3311.3    1.7         none        0       none    
-       10 bg1         68.70     0.30        none        0       none    
-       11 N02         3577.8    1.7         none        0       none    
-       12 bg2         69.62     0.31        none        0       none    
-       13 relphase    181.63    0.41        none        150     210     
+        9 N01         3313.6    1.2         none        0       none    
+       10 bg1         68.54     0.21        none        0       none    
+       11 N02         3575.9    1.2         none        0       none    
+       12 bg2         69.82     0.22        none        0       none    
+       13 relphase    181.46    0.29        none        150     210     
        14 zero        0         0           none        
-       15 relasy      1.0325    0.0075      none        
+       15 relasy      1.0365    0.0051      none        
        16 one         1         0           none        
 
 ###############################################################
@@ -39,52 +39,51 @@ fun3 = par5 * map2
 fun4 = par7 * map2
 
 ###############################################################
-RUN data/deltat_pta_gps_3093 PIM3 PSI PSI-BIN   (name beamline institute data-file-format)
+GLOBAL
 fittype         0         (single histogram fit)
+fit             0       8      
+packing         30
+
+
+###############################################################
+RUN data/deltat_pta_gps_3093 PIM3 PSI PSI-BIN   (name beamline institute data-file-format)
 map            14   16    0    0    0    0    0    0    0    0
 forward         3 
 norm            9
-lifetimecorrection
 backgr.fit      10
 t0              125.0   
 data            128     8001    
-fit             0       8      
-packing         30
 
 RUN data/deltat_pta_gps_3093 PIM3 PSI PSI-BIN   (name beamline institute data-file-format)
-fittype         0         (single histogram fit)
 map            13   15    0    0    0    0    0    0    0    0
 forward         4 
 norm            11
-lifetimecorrection
 backgr.fit      12
 t0              124.0   
 data            127     8000    
-fit             0       8      
-packing         30
 
 ###############################################################
 COMMANDS
+MAX_LIKELIHOOD
 MINIMIZE
-#MIGRAD
-HESSE
-#MINOS
+MINOS
 SAVE
 
 ###############################################################
 FOURIER
-units            Gauss   # units either 'Gauss', 'MHz', or 'Mc/s'
+units            Gauss   # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
 fourier_power    9
 apodization      NONE    # NONE, WEAK, MEDIUM, STRONG
-plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE
+plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE, PHASE_OPT_REAL
 phase            par1
 range            0    500
 
 ###############################################################
 PLOT 0   (single histo plot)
+lifetimecorrection
 runs     1   2   
 range    0   4   -0.25   0.25
 
 ###############################################################
-STATISTIC --- 2013-05-03 09:08:20
-  chisq = 1200.8, NDF = 415, chisq/NDF = 2.893391
+STATISTIC --- 2021-02-26 14:54:47
+  maxLH = 1497.5, NDF = 415, maxLH/NDF = 3.608471

doc/examples/BMWlibs/test-libFitPofB_Meissner-ROOT-NPP.msr

@@ -4,19 +4,19 @@ FITPARAMETER
 #       No Name        Value     Step        Pos_Error   Boundaries
         1 field       94.717    0           none        
         2 deadlayer   10.5      0           none        
-        3 lambda      115.96    -0.92       0.88        
+        3 lambda      115.98    -0.65       0.63        
 
 # E = 22keV
 
         4 phase22     25.4956   0           none        
-        5 asym22      0.1047    -0.0029     0.0030      0       0.3     
-        6 rate22      0.559     -0.032      0.033       
-        7 NormL22     753.00    -0.86       0.87        
-        8 BGL22       51.08     -0.13       0.13        
-        9 NormR22     545.93    -0.77       0.76        
-       10 BGR22       38.60     -0.11       0.12        
-       11 relasyR22   1.068     -0.038      0.039       0.2     2       
-       12 relphaR22   162.8     -1.5        1.5         110     210     
+        5 asym22      0.1047    -0.0021     0.0021      0       0.3     
+        6 rate22      0.558     -0.023      0.023       
+        7 NormL22     752.98    -0.61       0.61        
+        8 BGL22       51.114    -0.094      0.094       
+        9 NormR22     545.95    -0.54       0.54        
+       10 BGR22       38.634    -0.082      0.082       
+       11 relasyR22   1.068     -0.027      0.027       0.2     2       
+       12 relphaR22   162.8     -1.1        1.1         110     210     
        13 energy22    22        0           none        
 
        14 one         1         0           none        
@@ -35,53 +35,48 @@ fun2 = map1 + map5
 fun3 = par1 * gamma_mu
 
 ###############################################################
-RUN data/lem09_his_0916 MUE4 PSI ROOT-NPP   (name beamline institute data-file-format)
+GLOBAL
 fittype         0         (single histogram fit)
-norm            7
-backgr.fit      8
-lifetimecorrection
-map             4    5    6   14   15   13    0    0    0    0
-forward         1 
-background      65000   66500   
-data            3419    63000   
-t0              3419.0  
-fit             0.15    10     
-packing         150
-
-RUN data/lem09_his_0916 MUE4 PSI ROOT-NPP   (name beamline institute data-file-format)
-fittype         0         (single histogram fit)
-norm            9
-backgr.fit      10
-lifetimecorrection
-map             4    5    6   11   12   13    0    0    0    0
-forward         3 
-background      65000   66500   
 data            3419    63000   
 t0              3419.0  
 fit             0.15    10     
 packing         150
 
+###############################################################
+RUN data/lem09_his_0916 MUE4 PSI ROOT-NPP   (name beamline institute data-file-format)
+norm            7
+backgr.fit      8
+map             4    5    6   14   15   13    0    0    0    0
+forward         1 
+
+RUN data/lem09_his_0916 MUE4 PSI ROOT-NPP   (name beamline institute data-file-format)
+norm            9
+backgr.fit      10
+map             4    5    6   11   12   13    0    0    0    0
+forward         3 
+
 ###############################################################
 COMMANDS
-#MAX_LIKELIHOOD
+MAX_LIKELIHOOD
 MINIMIZE
 MINOS
 SAVE
 
 ###############################################################
 FOURIER
-units            Gauss   # units either 'Gauss', 'MHz', or 'Mc/s'
+units            Gauss   # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
 fourier_power    10
 apodization      WEAK    # NONE, WEAK, MEDIUM, STRONG
-plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE
+plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE, PHASE_OPT_REAL
 phase            par4
 range            0    200
 
 ###############################################################
 PLOT 0   (single histo plot)
+lifetimecorrection
 runs        1   2
 range    0   4   -0.25   0.25
 
 ###############################################################
-STATISTIC --- 2013-11-12 10:25:11
-  chisq = 696.9, NDF = 663, chisq/NDF = 1.051076
+STATISTIC --- 2021-02-26 14:50:08
+  maxLH = 695.5, NDF = 663, maxLH/NDF = 1.049008

doc/examples/BNMRlibs/test-ExpRlx-hel.msr

@@ -1,15 +1,14 @@
-
-# Run Numbers: 1111
+LaAlO3,  SLR, 30G, 150K, Bias=23 kV, Ix=0A, Iy=+3A, aligned, beam on=1s
 ###############################################################
 FITPARAMETER
 ###############################################################
 #     No     Name       Value    Err     Min  Max                  
-        1 Alphap      1.11662   0.00020     none        
-        2 Asyp        0   0.00038     none        
-        3 T           1e6         0           none        
-        4 Rlx         0.969e6     0.020       none        
-        5 Pos         1         0           none        
-        6 Neg         -1        0           none        
+        1 Alpha       1.11592   0.00035     none        
+        2 Asy         0.05868   0.00091     none        0       0.2     
+        3 T           1         0           none        
+        4 Rlx         1.142     0.023       none        0       15000   
+        5 One         1         0           none        
+        6 FlHel       -1.048    0.022       none        -2      0       
 
 ###############################################################
 THEORY
@@ -20,7 +19,7 @@ userFcn  libBNMR.so ExpRlx 3 4
 ###############################################################
 FUNCTIONS
 ###############################################################
-fun1 = map1 * map2
+fun1 = 0.5 * map1 * map2
 
 ###############################################################
 RUN 045674 BNMR TRIUMF MUD   (name beamline institute data-file-format)
@@ -28,11 +27,11 @@ fittype         2         (asymmetry fit)
 alpha           1
 forward         3 
 backward        4 
-data            11      799     11      799     
-background      800     900     800     900        # estimated bkg: 416.9700 / 465.7600
-t0              0.0     0.0     
+data            11      910     11      910     
+background      1       9       1       9          # estimated bkg: 8.0000 / 9.6250
+t0              10.0    10.0    
 map             2    5    0    0    0    0    0    0    0    0
-fit             5e5     8e6    
+fit             0.2     9      
 packing         5
 
 RUN 045674 BNMR TRIUMF MUD   (name beamline institute data-file-format)
@@ -40,14 +39,13 @@ fittype         2         (asymmetry fit)
 alpha           1
 forward         5 
 backward        6 
-data            11      799     11      799     
-background      800     900     800     900        # estimated bkg: 430.9200 / 479.4500
-t0              0.0     0.0     
+data            11      910     11      910     
+background      1       9       1       9          # estimated bkg: 11.6250 / 15.6250
+t0              10.0    10.0    
 map             2    6    0    0    0    0    0    0    0    0
-fit             5e5     8e6    
+fit             0.2     9      
 packing         5
 
-
 ###############################################################
 COMMANDS
 MINIMIZE
@@ -58,16 +56,17 @@ SAVE
 PLOT 2   (asymmetry plot)
 runs     1   2   
 use_fit_ranges
+view_packing 10
 
 
 ###############################################################
 FOURIER
-units            MHz    # units either 'Gauss', 'MHz', or 'Mc/s'
+units            MHz    # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
 fourier_power    12
 apodization      STRONG  # NONE, WEAK, MEDIUM, STRONG
-plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE
+plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE, PHASE_OPT_REAL
 phase            8
 #range            FRQMIN  FRQMAX
 ###############################################################
-STATISTIC --- 2014-11-14 16:37:41
-  chisq = 372.2, NDF = 295, chisq/NDF = 1.261744
+STATISTIC --- 2019-05-03 17:05:58
+  chisq = 566.6, NDF = 346, chisq/NDF = 1.637584

doc/examples/BNMRlibs/test-ExpRlx.msr

@@ -0,0 +1,53 @@
+LaAlO3,  SLR, 30G, 150K, Bias=23 kV, Ix=0A, Iy=+3A, aligned, beam on=1s
+###############################################################
+FITPARAMETER
+###############################################################
+#     No     Name       Value    Err     Min  Max                  
+        1 Alpha       1         0           none        
+        2 Asy         0.05992   0.00063     none        0       0.2     
+        3 T           1         0           none        
+        4 Rlx         1.143     0.023       none        0       100     
+
+###############################################################
+THEORY
+###############################################################
+asymmetry      2
+userFcn  libBNMR ExpRlx 3 4
+
+###############################################################
+RUN 045674 BNMR TRIUMF MUD   (name beamline institute data-file-format)
+fittype         5         (beta-NMR fit)
+alpha           1
+forward         3 5 
+backward        4 6 
+data            11      910     11      910     
+background      1       9       1       9          # estimated bkg: 8.0000 / 9.6250
+t0              10.0    10.0    10.0    10.0    
+map             0    0    0    0    0    0    0    0    0    0
+fit             0.2     9      
+packing         5
+
+###############################################################
+COMMANDS
+MINIMIZE
+HESSE
+SAVE
+
+###############################################################
+PLOT 5   (beta-NMR asymmetry plot)
+runs     1   
+use_fit_ranges
+view_packing 10
+
+
+###############################################################
+FOURIER
+units            MHz    # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
+fourier_power    12
+apodization      STRONG  # NONE, WEAK, MEDIUM, STRONG
+plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE, PHASE_OPT_REAL
+phase            8
+#range            FRQMIN  FRQMAX
+###############################################################
+STATISTIC --- 2019-05-03 17:06:29
+  chisq = 419.1, NDF = 173, chisq/NDF = 2.422357

doc/examples/BNMRlibs/test-SExpRlx-hel.msr

@@ -0,0 +1,73 @@
+LaAlO3,  SLR, 30G, 150K, Bias=23 kV, Ix=0A, Iy=+3A, aligned, beam on=1s
+###############################################################
+FITPARAMETER
+###############################################################
+#     No     Name       Value    Err     Min  Max                  
+        1 Alpha       1.11589   0.00037     none        
+        2 Asy         0.1121    0.0094      none        0       0.2     
+        3 T           1         0           none        
+        4 Rlx         4.12      0.87        none        0       15000   
+        5 Beta        0.434     0.031       none        0.3     2       
+        6 One         1         0           none        
+        7 FlHel       -1.048    0.023       none        -2      0       
+
+###############################################################
+THEORY
+###############################################################
+asymmetry   fun1
+userFcn  libBNMR SExpRlx 3 4 5
+
+###############################################################
+FUNCTIONS
+###############################################################
+fun1 = 0.5 * map1 * map2
+
+###############################################################
+RUN 045674 BNMR TRIUMF MUD   (name beamline institute data-file-format)
+fittype         2         (asymmetry fit)
+alpha           1
+forward         3 
+backward        4 
+data            11      1000    11      1000    
+background      1       9       1       9          # estimated bkg: 8.0000 / 9.6250
+t0              10.0    10.0   
+map             2    6    0    0    0    0    0    0    0    0
+fit             0.2     9      
+packing         5
+
+RUN 045674 BNMR TRIUMF MUD   (name beamline institute data-file-format)
+fittype         2         (asymmetry fit)
+alpha           1
+forward         5 
+backward        6 
+data            11      1000    11      1000    
+background      1       9       1       9          # estimated bkg: 11.6250 / 15.6250
+t0              10.0    10.0    
+map             2    7    0    0    0    0    0    0    0    0
+fit             0.2     9      
+packing         5
+
+###############################################################
+COMMANDS
+MINIMIZE
+HESSE
+SAVE
+
+###############################################################
+PLOT 2   (asymmetry plot)
+runs     1   2   
+use_fit_ranges
+view_packing 10
+
+
+###############################################################
+FOURIER
+units            MHz    # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
+fourier_power    12
+apodization      STRONG  # NONE, WEAK, MEDIUM, STRONG
+plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE, PHASE_OPT_REAL
+phase            8
+#range            FRQMIN  FRQMAX
+###############################################################
+STATISTIC --- 2019-05-01 11:29:06
+  chisq = 358.6, NDF = 345, chisq/NDF = 1.039300

doc/examples/BNMRlibs/test-SExpRlx.msr

@@ -0,0 +1,54 @@
+LaAlO3,  SLR, 30G, 150K, Bias=23 kV, Ix=0A, Iy=+3A, aligned, beam on=1s
+###############################################################
+FITPARAMETER
+###############################################################
+#     No     Name       Value    Err     Min  Max                  
+        1 Alpha       0.9       1.0         none        
+        2 Asy         0.115     0.012       none        0       0.2     
+        3 T           1         0           none        
+        4 Rlx         4.16      0.88        none        0       100     
+        5 Beta        0.433     0.031       none        0.3     2       
+
+###############################################################
+THEORY
+###############################################################
+asymmetry      2
+userFcn  libBNMR SExpRlx 3 4 5
+
+###############################################################
+RUN 045674 BNMR TRIUMF MUD   (name beamline institute data-file-format)
+fittype         5         (beta-NMR fit)
+alpha           1
+forward         3 5 
+backward        4 6 
+data            11      910    11      910    
+background      1       9       1       9          # estimated bkg: 8.0000 / 9.6250
+t0              10.0    10.0    10.0    10.0    
+map             0    0    0    0    0    0    0    0    0    0
+fit             0.2     9      
+packing         5
+
+###############################################################
+COMMANDS
+MINIMIZE
+HESSE
+SAVE
+
+###############################################################
+PLOT 5   (beta-NMR asymmetry plot)
+runs     1   
+use_fit_ranges
+view_packing 10
+
+
+###############################################################
+FOURIER
+units            MHz    # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
+fourier_power    12
+apodization      STRONG  # NONE, WEAK, MEDIUM, STRONG
+plot             POWER   # REAL, IMAG, REAL_AND_IMAG, POWER, PHASE, PHASE_OPT_REAL
+phase            8
+#range            FRQMIN  FRQMAX
+###############################################################
+STATISTIC --- 2019-05-03 17:07:01
+  chisq = 210.2, NDF = 171, chisq/NDF = 1.229344

doc/examples/DepthProfiles/1300Ar/1300Ar_5G_260K_asym.msr

@@ -0,0 +1,57 @@
+n/a
+###############################################################
+FITPARAMETER
+#      Nr. Name        Value     Step      Pos_Error  Boundaries    
+        1 f1          0.1531    0.0078      none        
+        2 f2          0.04051   0.00021     none        
+        3 f3          0.00447   0.00054     none        
+        4 x1          39.7      6.4         none        
+        5 x2          103.8     4.8         none        
+
+###############################################################
+THEORY
+userFcn  libPDepthProfile PDepthProfile 1 2 3 4 5
+
+###############################################################
+RUN data/1300Ar_PECVD_Escan_260K_5G_withDiaFrac MUE4 PSI DAT   (name beamline institute data-file-format)
+fittype         8         (non muSR fit)
+map             0    0    0    0    0    0    0    0    0    0
+xy-data         dataE    AsymCorrected
+fit             1       25     
+packing         1
+
+###############################################################
+COMMANDS
+MINIMIZE
+#HESSE
+MINOS
+SAVE
+
+###############################################################
+PLOT 8   (non muSR plot)
+runs     1   
+range    0   25
+
+###############################################################
+STATISTIC --- 2023-02-16 15:19:15
+  chisq = 28.6, NDF = 10, chisq/NDF = 2.856386
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+

doc/examples/DepthProfiles/1300Ar/1300Ar_5G_260K_diaFrac.msr

@@ -0,0 +1,57 @@
+n/a
+###############################################################
+FITPARAMETER
+#      Nr. Name        Value     Step      Pos_Error  Boundaries    
+        1 f1          0.379     -0.014      0.014       
+        2 f2          0.1866    -0.0034     0.0034      
+        3 f3          0.0201    -0.0024     0.0024      
+        4 x1          55.9      1.1         none        
+        5 x2          103.80    0.19        none        
+
+###############################################################
+THEORY
+userFcn  libPDepthProfile PDepthProfile 1 2 3 4 5
+
+###############################################################
+RUN data/1300Ar_PECVD_Escan_260K_5G_withDiaFrac MUE4 PSI DAT   (name beamline institute data-file-format)
+fittype         8         (non muSR fit)
+map             0    0    0    0    0    0    0    0    0    0
+xy-data         dataE    DiaFrac 
+fit             1       25     
+packing         1
+
+###############################################################
+COMMANDS
+MINIMIZE
+#HESSE
+MINOS
+SAVE
+
+###############################################################
+PLOT 8   (non muSR plot)
+runs     1   
+range    0   25
+
+###############################################################
+STATISTIC --- 2023-02-16 15:20:11
+  chisq = 28.3, NDF = 10, chisq/NDF = 2.831612
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+

doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E1000.rge

@@ -0,0 +1,55 @@
+ DEPTH      PARTICLES
+     5.        1085
+    15.        2257
+    25.        2936
+    35.        3431
+    45.        3826
+    55.        4232
+    65.        4472
+    75.        4777
+    85.        4907
+    95.        5151
+   105.        5117
+   115.        5205
+   125.        5038
+   135.        4803
+   145.        4568
+   155.        4366
+   165.        3973
+   175.        3570
+   185.        3174
+   195.        2766
+   205.        2294
+   215.        1932
+   225.        1520
+   235.        1279
+   245.         950
+   255.         737
+   265.         503
+   275.         374
+   285.         243
+   295.         181
+   305.         126
+   315.          75
+   325.          45
+   335.          27
+   345.          15
+   355.           8
+   365.           2
+   375.           2
+   385.           0
+   395.           0
+   405.           0
+   415.           0
+   425.           0
+   435.           0
+   445.           0
+   455.           0
+   465.           0
+   475.           0
+   485.           0
+   495.           0
+   505.           0
+   515.           0
+   525.           0
+   535.           0

doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E10000.rge

@@ -0,0 +1,128 @@
+ DEPTH      PARTICLES
+     5.           7
+    15.          12
+    25.          20
+    35.          19
+    45.          23
+    55.          38
+    65.          23
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E11000.rge

@@ -0,0 +1,137 @@
+ DEPTH      PARTICLES
+     5.           5
+    15.           5
+    25.          15
+    35.          15
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+    55.          23
+    65.          23
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E12000.rge

@@ -0,0 +1,144 @@
+ DEPTH      PARTICLES
+     5.           1
+    15.          13
+    25.          11
+    35.           8
+    45.          18
+    55.          13
+    65.          12
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E13000.rge

@@ -0,0 +1,151 @@
+ DEPTH      PARTICLES
+     5.           3
+    15.           5
+    25.          10
+    35.           9
+    45.          14
+    55.          10
+    65.           5
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E14000.rge

@@ -0,0 +1,160 @@
+ DEPTH      PARTICLES
+     5.           4
+    15.           0
+    25.          13
+    35.          12
+    45.           3
+    55.          13
+    65.          12
+    75.          13
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E15000.rge

@@ -0,0 +1,171 @@
+ DEPTH      PARTICLES
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E16000.rge

@@ -0,0 +1,178 @@
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E17000.rge

@@ -0,0 +1,185 @@
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E18000.rge

@@ -0,0 +1,197 @@
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E19000.rge

@@ -0,0 +1,203 @@
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E2000.rge

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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E20000.rge

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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E21000.rge

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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E22000.rge

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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E23000.rge

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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E3000.rge

@@ -0,0 +1,74 @@
+ DEPTH      PARTICLES
+     5.          91
+    15.         231
+    25.         307
+    35.         380
+    45.         433
+    55.         559
+    65.         571
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+   235.        3171
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E4000.rge

@@ -0,0 +1,82 @@
+ DEPTH      PARTICLES
+     5.          53
+    15.         125
+    25.         165
+    35.         186
+    45.         228
+    55.         293
+    65.         335
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+   805.           0

doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E5000.rge

@@ -0,0 +1,91 @@
+ DEPTH      PARTICLES
+     5.          36
+    15.          86
+    25.          84
+    35.         131
+    45.         125
+    55.         157
+    65.         160
+    75.         202
+    85.         195
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+   185.         521
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+   225.         769
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+   335.        1944
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+   385.        2784
+   395.        3001
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E6000.rge

@@ -0,0 +1,99 @@
+ DEPTH      PARTICLES
+     5.          28
+    15.          54
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E7000.rge

@@ -0,0 +1,106 @@
+ DEPTH      PARTICLES
+     5.          13
+    15.          29
+    25.          37
+    35.          50
+    45.          58
+    55.          86
+    65.          56
+    75.          80
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E8000.rge

@@ -0,0 +1,113 @@
+ DEPTH      PARTICLES
+     5.          10
+    15.          26
+    25.          43
+    35.          41
+    45.          43
+    55.          56
+    65.          47
+    75.          59
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+   435.         771
+   445.         909
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+   465.        1087
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+   485.        1085
+   495.        1289
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doc/examples/DepthProfiles/1300Ar/TRIMSP/SiC_1300x_52nm_48nm_E9000.rge

@@ -0,0 +1,120 @@
+ DEPTH      PARTICLES
+     5.           9
+    15.          14
+    25.          24
+    35.          22
+    45.          36
+    55.          35
+    65.          39
+    75.          43
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+   175.          93
+   185.          83
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doc/examples/DepthProfiles/1300Ar/data/1300Ar_PECVD_Escan_260K_5G_withDiaFrac.dat

@@ -0,0 +1,16 @@
+dataT   dataTErr   dataB   dataE   dataTr   dataRALRAR   dataRATRAB   dataSpinRot   Asym_Mu   Asym_MuPosErr   Asym_MuNegErr   Lambda_Mu   Lambda_MuPosErr   Lambda_MuNegErr   freq_Mu1   freq_Mu1PosErr   freq_Mu1NegErr   Asym_muon   Asym_muonPosErr   Asym_muonNegErr   Sigma_muon   Sigma_muonPosErr   Sigma_muonNegErr   field   fieldPosErr   fieldNegErr   ph_LR   ph_LRPosErr   ph_LRNegErr   Alpha_LR   Alpha_LRPosErr   Alpha_LRNegErr   relph_TB   relph_TBPosErr   relph_TBNegErr   relph_TB_Mu   relph_TB_MuPosErr   relph_TB_MuNegErr   Alpha_TB   Alpha_TBPosErr   Alpha_TBNegErr   Zero   ZeroPosErr   ZeroNegErr   freqMu2   freqMu2PosErr   freqMu2NegErr   Asym_MuSiO2   Asym_MuSiO2PosErr   Asym_MuSiO2NegErr   Lambda_MuSiO2   Lambda_MuSiO2PosErr   Lambda_MuSiO2NegErr   freqMuSiO2   freqMuSiO2PosErr   freqMuSiO2NegErr   CHISQ   NDF   CHISQred   RUN   AsymCorrected   AsymCorrectedErr   AsymAg   DiaFrac   DiaFracErr
+  260.0000     0.0060     4.4400     6.9980    16.4946    -0.0100    -0.0090   -10.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     9.2100     0.0000     0.0000     0.0730     0.0012     0.0011     0.1359     0.0079     0.0080     7.0900     0.0270     0.0310   363.4600     0.8000     0.7800     1.0099     0.0019     0.0019   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9959     0.0017     0.0017     0.0000     0.0000     0.0000    10.8000     0.0000     0.0000     0.0813     0.0102     0.0090     2.1300     0.3700     0.3200     0.0000     0.0000     0.0000  2320.3999  2224.0000     1.0433  3817.0000     0.0565     0.0012     0.2019     0.2797     0.0059
+  260.0000     0.0050     4.4500     8.9961    16.4946    -0.0100    -0.0090   -10.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     9.2100     0.0000     0.0000     0.0608     0.0011     0.0011     0.1190     0.0097     0.0100     7.1670     0.0110     0.0120   359.4000     0.7900     0.7900     1.0072     0.0018     0.0018   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9898     0.0016     0.0016     0.0000     0.0000     0.0000    10.8000     0.0000     0.0000     0.0765     0.0058     0.0055     1.1400     0.1400     0.1300     0.0000     0.0000     0.0000  2366.3999  2224.0000     1.0640  3818.0000     0.0462     0.0011     0.2110     0.2190     0.0052
+  260.0000     0.0060     4.4510     9.9949    16.4946    -0.0100    -0.0090   -10.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     9.2100     0.0000     0.0000     0.0586     0.0011     0.0011     0.1100     0.0110     0.0110     7.1628     0.0096     0.0101   358.3500     0.8000     0.8000     1.0097     0.0018     0.0018   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9877     0.0016     0.0016     0.0000     0.0000     0.0000    10.8000     0.0000     0.0000     0.0781     0.0054     0.0051     1.1600     0.1200     0.1100     0.0000     0.0000     0.0000  2404.7000  2224.0000     1.0812  3819.0000     0.0445     0.0011     0.2139     0.2080     0.0051
+  260.0000     0.0050     4.4480    10.9940    16.4946    -0.0100    -0.0090   -10.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     9.2100     0.0000     0.0000     0.0565     0.0011     0.0011     0.1060     0.0110     0.0110     7.0730     0.0200     0.0210   358.7500     0.9000     0.9000     1.0121     0.0018     0.0018   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9882     0.0016     0.0016     0.0000     0.0000     0.0000    10.8000     0.0000     0.0000     0.0910     0.0081     0.0075     1.9600     0.2400     0.2100     0.0000     0.0000     0.0000  2387.1001  2224.0000     1.0733  3820.0000     0.0427     0.0011     0.2161     0.1977     0.0051
+  260.0000     0.0050     4.4500    11.9930    16.4946    -0.0090    -0.0090   -10.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     9.2100     0.0000     0.0000     0.0548     0.0011     0.0011     0.1210     0.0100     0.0110     7.1610     0.0140     0.0160   358.4900     0.8800     0.8700     1.0151     0.0018     0.0018   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9912     0.0016     0.0016     0.0000     0.0000     0.0000    10.8000     0.0000     0.0000     0.0470     0.0053     0.0048     1.0500     0.2000     0.1600     0.0000     0.0000     0.0000  2299.3000  2224.0000     1.0339  3821.0000     0.0412     0.0011     0.2178     0.1893     0.0051
+  260.0000     0.0060     4.4500    12.9921    16.4946    -0.0090    -0.0090   -10.0000     0.0237     0.0039     0.0037     0.7300     0.1600     0.1400     0.0000     0.0000     0.0000     0.0432     0.0013     0.0013     0.1090     0.0150     0.0160     6.6470     0.0520     0.0520   362.9000     1.5000     1.5000     1.0200     0.0022     0.0022   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9875     0.0018     0.0018     0.0000     0.0000     0.0000     9.9840     0.0260     0.0270     0.0650     0.0180     0.0140     3.5200     0.9800     0.7700     0.0000     0.0000     0.0000  2256.7000  2221.0000     1.0161  3822.0000     0.0298     0.0013     0.2191     0.1358     0.0059
+  260.0000     0.0050     4.4520    13.9909    16.4946    -0.0100    -0.0090   -10.0000     0.0320     0.0058     0.0049     2.0300     0.6100     0.4500     9.1330     0.0770     0.0820     0.0375     0.0011     0.0010     0.0950     0.0170     0.0190     7.5000     0.0000     0.0000    -5.9000     1.1000     1.1000     1.0125     0.0017     0.0017   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9840     0.0015     0.0015     0.0000     0.0000     0.0000     9.9900     0.0530     0.0610     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2252.0000  2223.0000     1.0130  3823.0000     0.0241     0.0011     0.2200     0.1097     0.0050
+  260.0000     0.0050     4.4500    14.9898    16.4946    -0.0100    -0.0090   -10.0000     0.0550     0.0160     0.0110     4.2000     1.6000     1.0000     9.1090     0.0940     0.1010     0.0329     0.0011     0.0011     0.1240     0.0170     0.0180     7.5000     0.0000     0.0000    -4.6000     1.4000     1.3000     1.0149     0.0017     0.0017   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9859     0.0015     0.0015     0.0000     0.0000     0.0000    10.1400     0.1000     0.1300     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2219.8000  2223.0000     0.9986  3824.0000     0.0196     0.0011     0.2208     0.0888     0.0050
+  260.0000     0.0060     4.4500    15.9972    16.4946    -0.0100    -0.0090   -10.0000     0.0240     0.0050     0.0040     1.6400     0.5900     0.3800     9.0870     0.0610     0.0620     0.0293     0.0011     0.0011     0.1460     0.0190     0.0200     7.5000     0.0000     0.0000    -8.4000     1.6000     1.6000     1.0168     0.0019     0.0018   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9807     0.0015     0.0015     0.0000     0.0000     0.0000    10.0240     0.0520     0.0600     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2290.2000  2223.0000     1.0302  3825.0000     0.0160     0.0011     0.2214     0.0724     0.0050
+  260.0000     0.0060     4.4600    16.9959    16.4946    -0.0100    -0.0090   -10.0000     0.0455     0.0110     0.0081     2.8000     1.0000     0.7200     0.0000     0.0000     0.0000     0.0212     0.0011     0.0011     0.0770     0.0320     0.0500     7.5000     0.0000     0.0000   -12.3000     2.2000     2.2000     1.0182     0.0019     0.0018   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9827     0.0014     0.0014     0.0000     0.0000     0.0000     9.2480     0.0670     0.0590     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2312.0000  2224.0000     1.0396  3826.0000     0.0080     0.0011     0.2218     0.0359     0.0050
+  260.0000     0.0060     4.4590    17.9950    16.4946    -0.0090    -0.0090   -10.0000     0.0850     0.0250     0.0190     7.0000     1.7000     1.4000     0.0000     0.0000     0.0000     0.0194     0.0013     0.0012     0.0950     0.0320     0.0420     6.9900     0.3200     0.3400   355.5000     5.2000     5.0000     1.0173     0.0019     0.0019   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9846     0.0023     0.0021     0.0000     0.0000     0.0000     9.5800     0.1700     0.1700     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2096.3999  2223.0000     0.9431  3827.0000     0.0062     0.0013     0.2221     0.0278     0.0059
+  260.0000     0.0060     4.4600    18.9939    16.4946    -0.0100    -0.0090   -10.0000     0.0540     0.0250     0.0160     5.3000     2.4000     1.7000     0.0000     0.0000     0.0000     0.0205     0.0020     0.0017     0.1080     0.0400     0.0490     6.6700     0.4100     0.4500   358.4000     6.6000     6.3000     1.0209     0.0027     0.0025   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9832     0.0033     0.0028     0.0000     0.0000     0.0000     9.1400     0.2100     0.1900     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2133.8000  2223.0000     0.9599  3828.0000     0.0073     0.0020     0.2224     0.0327     0.0090
+  260.0000     0.0040     4.4500    19.9932    16.4946    -0.0100    -0.0090   -10.0000     0.0920     0.0550     0.0330     8.7000     3.5000     2.9000     0.0000     0.0000     0.0000     0.0173     0.0014     0.0014     0.1050     0.0420     0.0570     7.1600     0.0000     0.0000    -9.5000     3.4000     3.4000     1.0189     0.0024     0.0023   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9887     0.0018     0.0018     0.0000     0.0000     0.0000     9.3800     0.2100     0.2000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2261.3999  2224.0000     1.0168  3829.0000     0.0041     0.0014     0.2226     0.0184     0.0063
+  260.0000     0.0040     4.4500    20.9920    16.4946    -0.0090    -0.0090   -10.0000     0.0292     0.0101     0.0076     2.0900     0.9000     0.6500     9.0670     0.0830     0.0790     0.0199     0.0015     0.0014     0.1640     0.0380     0.0370     7.1600     0.0000     0.0000   -12.2000     2.7000     2.7000     1.0147     0.0024     0.0022   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9891     0.0018     0.0018     0.0000     0.0000     0.0000    10.8640     0.0700     0.0610     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2157.5000  2223.0000     0.9705  3830.0000     0.0067     0.0015     0.2228     0.0300     0.0067
+  260.0000     0.0060     4.4490    21.9912    16.4946    -0.0090    -0.0090   -10.0000     0.0364     0.0094     0.0090     2.7000     0.8300     0.8000     9.1320     0.0840     0.0800     0.0193     0.0014     0.0013     0.1550     0.0350     0.0350     7.1600     0.0000     0.0000    -7.6000     2.7000     2.7000     1.0140     0.0022     0.0021   -90.0000     0.0000     0.0000    90.0000     0.0000     0.0000     0.9907     0.0017     0.0017     0.0000     0.0000     0.0000    10.8540     0.0830     0.1010     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000     0.0000  2162.2000  2223.0000     0.9726  3831.0000     0.0061     0.0014     0.2229     0.0273     0.0063

doc/examples/DepthProfiles/1300Ar/depth_profile_startup.xml

@@ -0,0 +1,11 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<depthProf xmlns="http://nemu.web.psi.ch/musrfit/depthProf">
+    <comment>
+        TrimSp information
+    </comment>
+    <trim_sp>
+        <data_path>./TRIMSP/</data_path>
+        <rge_fln_pre>SiC_1300x_52nm_48nm_E</rge_fln_pre>
+        <energy_vect start="1000" stop="22000" step="1000"/>
+    </trim_sp>
+</depthProf>

doc/examples/DepthProfiles/1300x/1300x_100G_260K_diaFrac.msr

@@ -0,0 +1,57 @@
+n/a
+###############################################################
+FITPARAMETER
+#      Nr. Name        Value     Step      Pos_Error  Boundaries    
+        1 f1          0.4157    0.0029      none        0       1       
+        2 f2          0.22821   0.00058     none        0       1       
+        3 f3          0.02658   0.00045     none        0       1       
+        4 x1          42.3      1.0         none        
+        5 x2          99.5008   0.0029      none        
+
+###############################################################
+THEORY
+userFcn  libPDepthProfile PDepthProfile 1 2 3 4 5
+
+###############################################################
+RUN data/1300x_PECVD_Escan_260K_100G_withDiaFrac MUE4 PSI DAT   (name beamline institute data-file-format)
+fittype         8         (non muSR fit)
+map             0    0    0    0    0    0    0    0    0    0
+xy-data         dataE    DiaFrac 
+fit             1       22     
+packing         1
+
+###############################################################
+COMMANDS
+MINIMIZE
+#HESSE
+MINOS
+SAVE
+
+###############################################################
+PLOT 8   (non muSR plot)
+runs     1   
+range    2.5   22
+
+###############################################################
+STATISTIC --- 2023-01-31 11:22:41
+  chisq = 122.1, NDF = 14, chisq/NDF = 8.723769
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+

doc/examples/DepthProfiles/1300x/1300x_5G_260K_asym.msr

@@ -0,0 +1,57 @@
+n/a
+###############################################################
+FITPARAMETER
+#      Nr. Name        Value     Step      Pos_Error  Boundaries    
+        1 f1          0.07038   0.00053     none        
+        2 f2          0.03252   0.00055     none        -0.5    1       
+        3 x1          86.7      10.8        none        
+
+###############################################################
+THEORY
+userFcn  libPDepthProfile PDepthProfile 1 2 3
+
+###############################################################
+RUN data/1300x_PECVD_Escan_260K_5G_noDiaFrac MUE4 PSI DAT   (name beamline institute data-file-format)
+fittype         8         (non muSR fit)
+map             0    0    0    0    0    0    0    0    0    0
+xy-data         dataE    Asym_muon
+fit             1       22     
+packing         1
+
+###############################################################
+COMMANDS
+MINIMIZE
+#HESSE
+MINOS
+SAVE
+
+###############################################################
+PLOT 8   (non muSR plot)
+runs     1   
+range    0   22
+
+
+
+###############################################################
+STATISTIC --- 2023-02-16 15:29:27
+  chisq = 42.1, NDF = 6, chisq/NDF = 7.024748
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+

doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E1000.rge

@@ -0,0 +1,55 @@
+ DEPTH      PARTICLES
+     5.        1085
+    15.        2257
+    25.        2936
+    35.        3431
+    45.        3826
+    55.        4232
+    65.        4472
+    75.        4777
+    85.        4907
+    95.        5151
+   105.        5117
+   115.        5205
+   125.        5038
+   135.        4803
+   145.        4568
+   155.        4366
+   165.        3973
+   175.        3570
+   185.        3174
+   195.        2766
+   205.        2294
+   215.        1932
+   225.        1520
+   235.        1279
+   245.         950
+   255.         737
+   265.         503
+   275.         374
+   285.         243
+   295.         181
+   305.         126
+   315.          75
+   325.          45
+   335.          27
+   345.          15
+   355.           8
+   365.           2
+   375.           2
+   385.           0
+   395.           0
+   405.           0
+   415.           0
+   425.           0
+   435.           0
+   445.           0
+   455.           0
+   465.           0
+   475.           0
+   485.           0
+   495.           0
+   505.           0
+   515.           0
+   525.           0
+   535.           0

doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E10000.rge

@@ -0,0 +1,128 @@
+ DEPTH      PARTICLES
+     5.           7
+    15.          12
+    25.          20
+    35.          19
+    45.          23
+    55.          38
+    65.          23
+    75.          29
+    85.          33
+    95.          34
+   105.          33
+   115.          48
+   125.          38
+   135.          64
+   145.          47
+   155.          60
+   165.          48
+   175.          58
+   185.          65
+   195.          83
+   205.          80
+   215.          72
+   225.          74
+   235.          84
+   245.          87
+   255.         108
+   265.          90
+   275.         115
+   285.         126
+   295.         104
+   305.         163
+   315.         153
+   325.         150
+   335.         158
+   345.         142
+   355.         195
+   365.         204
+   375.         183
+   385.         208
+   395.         211
+   405.         251
+   415.         245
+   425.         291
+   435.         294
+   445.         340
+   455.         338
+   465.         382
+   475.         398
+   485.         420
+   495.         475
+   505.         480
+   515.         505
+   525.         578
+   535.         637
+   545.         677
+   555.         752
+   565.         746
+   575.         816
+   585.         879
+   595.        1020
+   605.        1000
+   615.        1153
+   625.        1192
+   635.        1417
+   645.        1402
+   655.        1478
+   665.        1644
+   675.        1717
+   685.        1749
+   695.        1958
+   705.        2029
+   715.        2156
+   725.        2277
+   735.        2460
+   745.        2549
+   755.        2666
+   765.        2914
+   775.        2952
+   785.        3034
+   795.        3217
+   805.        3201
+   815.        3337
+   825.        3326
+   835.        3339
+   845.        3243
+   855.        3202
+   865.        3113
+   875.        3013
+   885.        2849
+   895.        2628
+   905.        2448
+   915.        2155
+   925.        1858
+   935.        1584
+   945.        1306
+   955.        1036
+   965.         854
+   975.         626
+   985.         437
+   995.         324
+  1005.         307
+  1015.         165
+  1025.          77
+  1035.          27
+  1045.           5
+  1055.           2
+  1065.           0
+  1075.           0
+  1085.           0
+  1095.           0
+  1105.           0
+  1115.           0
+  1125.           0
+  1135.           0
+  1145.           0
+  1155.           0
+  1165.           0
+  1175.           0
+  1185.           0
+  1195.           0
+  1205.           0
+  1215.           0
+  1225.           0
+  1235.           0
+  1245.           0
+  1255.           0
+  1265.           0

doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E11000.rge

@@ -0,0 +1,137 @@
+ DEPTH      PARTICLES
+     5.           5
+    15.           5
+    25.          15
+    35.          15
+    45.          28
+    55.          23
+    65.          23
+    75.          27
+    85.          21
+    95.          37
+   105.          24
+   115.          29
+   125.          28
+   135.          44
+   145.          48
+   155.          46
+   165.          44
+   175.          45
+   185.          50
+   195.          53
+   205.          48
+   215.          59
+   225.          67
+   235.          51
+   245.          73
+   255.          85
+   265.          67
+   275.          79
+   285.          73
+   295.          95
+   305.          84
+   315.          88
+   325.         101
+   335.         107
+   345.         100
+   355.         126
+   365.         144
+   375.         120
+   385.         171
+   395.         146
+   405.         147
+   415.         175
+   425.         184
+   435.         205
+   445.         232
+   455.         238
+   465.         218
+   475.         237
+   485.         265
+   495.         279
+   505.         322
+   515.         334
+   525.         380
+   535.         426
+   545.         443
+   555.         424
+   565.         497
+   575.         544
+   585.         561
+   595.         561
+   605.         693
+   615.         714
+   625.         740
+   635.         832
+   645.         864
+   655.         924
+   665.        1018
+   675.        1108
+   685.        1094
+   695.        1197
+   705.        1264
+   715.        1357
+   725.        1570
+   735.        1600
+   745.        1650
+   755.        1817
+   765.        1924
+   775.        1936
+   785.        2128
+   795.        2243
+   805.        2346
+   815.        2541
+   825.        2609
+   835.        2766
+   845.        2827
+   855.        2990
+   865.        2999
+   875.        3090
+   885.        3040
+   895.        3146
+   905.        3202
+   915.        3192
+   925.        3114
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E12000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E13000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E14000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E15000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E16000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E17000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E18000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E19000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E2000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E20000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E21000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E22000.rge

@@ -0,0 +1,233 @@
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E23000.rge

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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E3000.rge

@@ -0,0 +1,74 @@
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E4000.rge

@@ -0,0 +1,82 @@
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E5000.rge

@@ -0,0 +1,91 @@
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E6000.rge

@@ -0,0 +1,99 @@
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E7000.rge

@@ -0,0 +1,106 @@
+ DEPTH      PARTICLES
+     5.          13
+    15.          29
+    25.          37
+    35.          50
+    45.          58
+    55.          86
+    65.          56
+    75.          80
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+   465.        1697
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E8000.rge

@@ -0,0 +1,113 @@
+ DEPTH      PARTICLES
+     5.          10
+    15.          26
+    25.          43
+    35.          41
+    45.          43
+    55.          56
+    65.          47
+    75.          59
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+   415.         708
+   425.         744
+   435.         771
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+   465.        1087
+   475.        1094
+   485.        1085
+   495.        1289
+   505.        1377
+   515.        1394
+   525.        1587
+   535.        1745
+   545.        1874
+   555.        2016
+   565.        2219
+   575.        2251
+   585.        2383
+   595.        2552
+   605.        2598
+   615.        2877
+   625.        2982
+   635.        3073
+   645.        3266
+   655.        3327
+   665.        3406
+   675.        3617
+   685.        3474
+   695.        3420
+   705.        3526
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+   725.        3177
+   735.        3131
+   745.        2889
+   755.        2645
+   765.        2391
+   775.        2060
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+   795.        1505
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doc/examples/DepthProfiles/1300x/TRIMSP/SiC_1300x_52nm_48nm_E9000.rge

@@ -0,0 +1,120 @@
+ DEPTH      PARTICLES
+     5.           9
+    15.          14
+    25.          24
+    35.          22
+    45.          36
+    55.          35
+    65.          39
+    75.          43
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+   385.         351
+   395.         385
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+   415.         383
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+   485.         706
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+   515.         833
+   525.         979
+   535.        1034
+   545.        1121
+   555.        1257
+   565.        1262
+   575.        1403
+   585.        1494
+   595.        1660
+   605.        1703
+   615.        1838
+   625.        1958
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+   655.        2288
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+   675.        2626
+   685.        2786
+   695.        2916
+   705.        3020
+   715.        3219
+   725.        3298
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+   745.        3243
+   755.        3372
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+   775.        3475
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+   795.        3099
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+   825.        2586
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+   855.        1820
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+  1185.           0

doc/examples/DepthProfiles/1300x/data/1300x_PECVD_Escan_260K_100G_withDiaFrac.dat

@@ -0,0 +1,20 @@
+dataT   dataTErr   dataB   dataE   dataTr   dataRALRAR   dataRATRAB   dataSpinRot   Asy   AsyPosErr   AsyNegErr   Sigma   SigmaPosErr   SigmaNegErr   Ph   PhPosErr   PhNegErr   Field   FieldPosErr   FieldNegErr   RelPh_L   RelPh_LPosErr   RelPh_LNegErr   N0_L   N0_LPosErr   N0_LNegErr   N_bkg_L   N_bkg_LPosErr   N_bkg_LNegErr   RelPh_T   RelPh_TPosErr   RelPh_TNegErr   N0_T   N0_TPosErr   N0_TNegErr   N_bkg_T   N_bkg_TPosErr   N_bkg_TNegErr   RelPh_R   RelPh_RPosErr   RelPh_RNegErr   alpha_LR   alpha_LRPosErr   alpha_LRNegErr   N_bkg_R   N_bkg_RPosErr   N_bkg_RNegErr   RelPh_B   RelPh_BPosErr   RelPh_BNegErr   alpha_TB   alpha_TBPosErr   alpha_TBNegErr   N_bkg_B   N_bkg_BPosErr   N_bkg_BNegErr   maxLH   NDF   maxLHred   RUN   AsymCorrected   AsymCorrectedErr   AsymAg   DiaFrac   DiaFracErr
+  259.9980     0.0050    99.4870    21.9908    16.4943    -0.0090    -0.0090   -10.0000     0.0189     0.0009     0.0009     0.2110     0.0370     0.0380     6.9000     3.3000     3.3000   102.0700     0.3500     0.3600     0.0000     0.0000     0.0000   307.1100     0.3400     0.3500     6.4110     0.0520     0.0520   -90.0000     0.0000     0.0000   318.1600     0.3500     0.3400     6.6130     0.0520     0.0530   180.0000     0.0000     0.0000     0.9960     0.0016     0.0016     6.6640     0.0530     0.0520    90.0000     0.0000     0.0000     0.9709     0.0015     0.0015     6.4340     0.0520     0.0520  3626.0000  3648.0000     0.9940  1768.0000     0.0056     0.0009     0.2229     0.0253     0.0041
+  260.0010     0.0050    99.4860    20.9917    16.4944    -0.0100    -0.0090   -10.0000     0.0173     0.0008     0.0008     0.1150     0.0380     0.0480    14.6000     3.3000     3.3000   101.5700     0.2900     0.2900     0.0000     0.0000     0.0000   307.7100     0.3400     0.3400     6.2450     0.0520     0.0520   -90.0000     0.0000     0.0000   319.7600     0.3500     0.3500     6.4440     0.0530     0.0530   180.0000     0.0000     0.0000     0.9888     0.0016     0.0016     6.6200     0.0520     0.0520    90.0000     0.0000     0.0000     0.9675     0.0015     0.0015     6.2600     0.0520     0.0520  3534.0000  3648.0000     0.9688  1769.0000     0.0041     0.0008     0.2228     0.0186     0.0036
+  259.9990     0.0040    99.4850    19.9929    16.4944    -0.0090    -0.0090   -10.0000     0.0189     0.0008     0.0008     0.1850     0.0310     0.0320    12.8000     3.2000     3.2000   101.5500     0.3300     0.3300     0.0000     0.0000     0.0000   307.4900     0.3400     0.3400     6.1700     0.0520     0.0510   -90.0000     0.0000     0.0000   318.8100     0.3500     0.3500     6.4530     0.0520     0.0530   180.0000     0.0000     0.0000     0.9956     0.0016     0.0016     6.5020     0.0520     0.0520    90.0000     0.0000     0.0000     0.9658     0.0015     0.0015     6.3610     0.0520     0.0520  3714.3000  3648.0000     1.0182  1770.0000     0.0057     0.0008     0.2226     0.0257     0.0038
+  260.0000     0.0040    99.4800    18.9936    16.4944    -0.0090    -0.0090   -10.0000     0.0224     0.0009     0.0009     0.1440     0.0310     0.0350    11.3000     2.5000     2.5000   101.4700     0.2400     0.2400     0.0000     0.0000     0.0000   309.8000     0.3400     0.3400     6.1220     0.0520     0.0520   -90.0000     0.0000     0.0000   320.2200     0.3500     0.3500     6.4730     0.0530     0.0530   180.0000     0.0000     0.0000     0.9840     0.0016     0.0015     6.5210     0.0520     0.0520    90.0000     0.0000     0.0000     0.9671     0.0015     0.0015     6.3290     0.0520     0.0520  3693.7000  3648.0000     1.0125  1771.0000     0.0091     0.0009     0.2224     0.0411     0.0038
+  260.0000     0.0040    99.4840    17.9948    16.4944    -0.0090    -0.0090   -10.0000     0.0227     0.0008     0.0008     0.1160     0.0280     0.0330     7.8000     2.6000     2.6000   101.5600     0.2300     0.2300     0.0000     0.0000     0.0000   309.8600     0.3400     0.3400     6.2460     0.0520     0.0520   -90.0000     0.0000     0.0000   318.6400     0.3500     0.3500     6.5590     0.0530     0.0530   180.0000     0.0000     0.0000     0.9908     0.0016     0.0016     6.5410     0.0520     0.0520    90.0000     0.0000     0.0000     0.9674     0.0015     0.0015     6.2850     0.0520     0.0520  3799.8999  3648.0000     1.0416  1772.0000     0.0094     0.0008     0.2221     0.0425     0.0036
+  259.9990     0.0030    99.4800    16.9956    16.4944    -0.0090    -0.0090   -10.0000     0.0245     0.0008     0.0008     0.0550     0.0350     0.0550     9.7000     2.3000     2.3000   101.5300     0.1900     0.1900     0.0000     0.0000     0.0000   310.9500     0.3400     0.3400     6.1020     0.0520     0.0520   -90.0000     0.0000     0.0000   319.5300     0.3500     0.3500     6.3210     0.0530     0.0520   180.0000     0.0000     0.0000     0.9998     0.0016     0.0016     6.5870     0.0530     0.0520    90.0000     0.0000     0.0000     0.9641     0.0015     0.0015     6.2840     0.0520     0.0520  3579.0000  3648.0000     0.9811  1773.0000     0.0112     0.0008     0.2218     0.0507     0.0034
+  260.0010     0.0050    99.4830    15.9969    16.4944    -0.0090    -0.0100   -10.0000     0.0270     0.0008     0.0008     0.0940     0.0250     0.0310    18.5000     2.1000     2.1000   101.0900     0.1800     0.1800     0.0000     0.0000     0.0000   310.8400     0.3400     0.3400     6.1600     0.0520     0.0520   -90.0000     0.0000     0.0000   319.8000     0.3500     0.3500     6.4640     0.0530     0.0530   180.0000     0.0000     0.0000     0.9856     0.0016     0.0015     6.6430     0.0520     0.0520    90.0000     0.0000     0.0000     0.9620     0.0015     0.0015     6.2280     0.0520     0.0520  3668.1001  3648.0000     1.0055  1774.0000     0.0138     0.0008     0.2214     0.0622     0.0035
+  260.0000     0.0050    99.4800    14.9896    16.4944    -0.0090    -0.0100   -10.0000     0.0321     0.0008     0.0008     0.1090     0.0210     0.0240    21.3000     1.8000     1.8000   100.6400     0.1500     0.1600     0.0000     0.0000     0.0000   310.5100     0.3400     0.3400     6.0220     0.0520     0.0510   -90.0000     0.0000     0.0000   320.0000     0.3500     0.3500     6.3740     0.0520     0.0530   180.0000     0.0000     0.0000     0.9995     0.0016     0.0016     6.5310     0.0520     0.0520    90.0000     0.0000     0.0000     0.9638     0.0015     0.0015     6.2240     0.0520     0.0520  3688.7000  3648.0000     1.0112  1775.0000     0.0188     0.0008     0.2208     0.0852     0.0036
+  259.9990     0.0070    99.4840    13.9908    16.4944    -0.0100    -0.0100   -10.0000     0.0378     0.0008     0.0008     0.1390     0.0160     0.0170    13.9000     1.6000     1.6000   101.2900     0.1500     0.1500     0.0000     0.0000     0.0000   309.9200     0.3400     0.3500     6.2450     0.0520     0.0520   -90.0000     0.0000     0.0000   319.7900     0.3500     0.3500     6.3790     0.0520     0.0530   180.0000     0.0000     0.0000     1.0024     0.0016     0.0016     6.5540     0.0520     0.0520    90.0000     0.0000     0.0000     0.9592     0.0015     0.0015     6.2040     0.0520     0.0510  3584.0000  3648.0000     0.9825  1776.0000     0.0244     0.0008     0.2200     0.1109     0.0036
+  260.0010     0.0070    99.4800    12.9921    16.4944    -0.0090    -0.0100   -10.0000     0.0438     0.0008     0.0008     0.1140     0.0140     0.0150    11.7000     1.3000     1.3000   101.6000     0.1200     0.1200     0.0000     0.0000     0.0000   312.5200     0.3400     0.3500     6.1510     0.0520     0.0520   -90.0000     0.0000     0.0000   320.1200     0.3500     0.3400     6.3970     0.0520     0.0530   180.0000     0.0000     0.0000     0.9942     0.0016     0.0015     6.4640     0.0520     0.0520    90.0000     0.0000     0.0000     0.9622     0.0015     0.0015     6.1950     0.0520     0.0520  3427.6001  3648.0000     0.9396  1777.0000     0.0303     0.0008     0.2191     0.1385     0.0036
+  259.9980     0.0050    99.4800    11.9928    16.4945    -0.0090    -0.0090   -10.0000     0.0517     0.0008     0.0008     0.0930     0.0140     0.0160    14.3000     1.1000     1.1000   101.3650     0.0930     0.0930     0.0000     0.0000     0.0000   311.7100     0.3400     0.3500     6.0330     0.0520     0.0510   -90.0000     0.0000     0.0000   318.4700     0.3500     0.3400     6.3530     0.0520     0.0530   180.0000     0.0000     0.0000     0.9945     0.0016     0.0015     6.6250     0.0530     0.0520    90.0000     0.0000     0.0000     0.9632     0.0015     0.0015     6.0950     0.0520     0.0510  3576.7000  3648.0000     0.9805  1778.0000     0.0381     0.0008     0.2178     0.1751     0.0036
+  260.0020     0.0070    99.4760    10.9941    16.4945    -0.0100    -0.0090   -10.0000     0.0588     0.0008     0.0008     0.1200     0.0110     0.0110    15.0300     0.9900     0.9900   101.3480     0.0880     0.0880     0.0000     0.0000     0.0000   310.9300     0.3400     0.3400     6.2370     0.0520     0.0520   -90.0000     0.0000     0.0000   318.9400     0.3500     0.3400     6.3220     0.0520     0.0530   180.0000     0.0000     0.0000     0.9972     0.0016     0.0016     6.5920     0.0520     0.0520    90.0000     0.0000     0.0000     0.9630     0.0015     0.0015     6.1340     0.0520     0.0520  3697.3999  3648.0000     1.0135  1779.0000     0.0451     0.0008     0.2161     0.2085     0.0037
+  259.9990     0.0040    99.4780     9.9949    16.4944    -0.0090    -0.0090   -10.0000     0.0637     0.0008     0.0008     0.0840     0.0120     0.0130    18.0300     0.9000     0.8900   101.1790     0.0750     0.0760     0.0000     0.0000     0.0000   309.4700     0.3400     0.3400     6.1330     0.0520     0.0510   -90.0000     0.0000     0.0000   319.3200     0.3500     0.3500     6.2810     0.0520     0.0530   180.0000     0.0000     0.0000     1.0038     0.0016     0.0016     6.6150     0.0520     0.0530    90.0000     0.0000     0.0000     0.9603     0.0015     0.0015     6.0590     0.0520     0.0510  3728.6001  3648.0000     1.0221  1780.0000     0.0497     0.0008     0.2139     0.2321     0.0036
+  260.0010     0.0060    99.4820     8.9960    16.4945    -0.0090    -0.0090   -10.0000     0.0665     0.0008     0.0008     0.1030     0.0100     0.0110    18.6200     0.8600     0.8600   101.2670     0.0740     0.0740     0.0000     0.0000     0.0000   310.4800     0.3400     0.3500     5.9660     0.0520     0.0510   -90.0000     0.0000     0.0000   318.5100     0.3500     0.3400     6.3040     0.0520     0.0530   180.0000     0.0000     0.0000     0.9986     0.0016     0.0015     6.6620     0.0520     0.0530    90.0000     0.0000     0.0000     0.9627     0.0015     0.0015     6.1230     0.0520     0.0510  3587.3000  3648.0000     0.9834  1781.0000     0.0519     0.0008     0.2110     0.2462     0.0037
+  259.9990     0.0090    99.4800     6.9982    16.4945    -0.0090    -0.0090   -10.0000     0.0715     0.0008     0.0008     0.1211     0.0086     0.0091    17.1600     0.8200     0.8200   101.1230     0.0720     0.0730     0.0000     0.0000     0.0000   313.3200     0.3400     0.3500     5.9760     0.0520     0.0520   -90.0000     0.0000     0.0000   320.7800     0.3500     0.3500     6.2370     0.0520     0.0530   180.0000     0.0000     0.0000     0.9914     0.0016     0.0015     6.5660     0.0520     0.0520    90.0000     0.0000     0.0000     0.9568     0.0015     0.0015     6.0440     0.0520     0.0510  3532.3000  3648.0000     0.9683  1782.0000     0.0549     0.0008     0.2019     0.2721     0.0039
+  260.0010     0.0070    99.4800     5.0084    11.9989    -0.0080    -0.0080   -10.0000     0.0687     0.0008     0.0008     0.1333     0.0090     0.0093    19.4000     0.8400     0.8400   101.1300     0.0760     0.0760     0.0000     0.0000     0.0000   312.8000     0.3400     0.3500     5.6030     0.0510     0.0510   -90.0000     0.0000     0.0000   315.9700     0.3500     0.3400     5.8100     0.0510     0.0520   180.0000     0.0000     0.0000     1.0046     0.0016     0.0015     6.1330     0.0520     0.0520    90.0000     0.0000     0.0000     0.9559     0.0015     0.0015     5.5120     0.0510     0.0500  3703.7000  3648.0000     1.0153  1786.0000     0.0564     0.0008     0.1714     0.3291     0.0047
+  259.9990     0.0040    99.4800     4.0095    11.9989    -0.0080    -0.0080   -10.0000     0.0726     0.0008     0.0008     0.1520     0.0079     0.0080    18.6900     0.8300     0.8300   101.2350     0.0780     0.0780     0.0000     0.0000     0.0000   305.7300     0.3400     0.3400     5.5080     0.0510     0.0500   -90.0000     0.0000     0.0000   317.1300     0.3500     0.3400     5.8440     0.0520     0.0520   180.0000     0.0000     0.0000     1.0351     0.0016     0.0016     6.3320     0.0520     0.0520    90.0000     0.0000     0.0000     0.9532     0.0015     0.0015     5.7120     0.0510     0.0510  3675.3999  3648.0000     1.0075  1785.0000     0.0582     0.0008     0.1632     0.3564     0.0049
+  260.0000     0.0060    99.4800     3.0103    11.9989    -0.0080    -0.0080   -10.0000     0.0790     0.0008     0.0008     0.1489     0.0072     0.0073    18.9800     0.7500     0.7500   101.2100     0.0700     0.0700     0.0000     0.0000     0.0000   305.8800     0.3300     0.3400     4.7740     0.0500     0.0490   -90.0000     0.0000     0.0000   321.4400     0.3500     0.3400     5.1770     0.0510     0.0510   180.0000     0.0000     0.0000     1.0492     0.0016     0.0016     5.5870     0.0520     0.0510    90.0000     0.0000     0.0000     0.9542     0.0015     0.0015     4.9270     0.0500     0.0500  3820.3000  3648.0000     1.0472  1784.0000     0.0596     0.0008     0.1505     0.3960     0.0052
+  260.0010     0.0050    99.4800     2.0117    11.9990    -0.0080    -0.0080   -10.0000     0.0876     0.0008     0.0008     0.1596     0.0066     0.0068    20.6200     0.6800     0.6800   100.8890     0.0650     0.0650     0.0000     0.0000     0.0000   303.6100     0.3400     0.3400     5.4660     0.0510     0.0500   -90.0000     0.0000     0.0000   318.3500     0.3500     0.3400     5.7660     0.0510     0.0520   180.0000     0.0000     0.0000     1.0639     0.0017     0.0016     6.2660     0.0530     0.0530    90.0000     0.0000     0.0000     0.9477     0.0015     0.0015     5.6210     0.0510     0.0500  3815.1001  3648.0000     1.0458  1783.0000     0.0568     0.0008     0.1291     0.4397     0.0063

doc/examples/DepthProfiles/1300x/data/1300x_PECVD_Escan_260K_5G_noDiaFrac.dat

@@ -0,0 +1,10 @@
+dataT   dataTErr   dataB   dataE   dataTr   dataRALRAR   dataRATRAB   dataSpinRot   Asym_Mu   Asym_MuPosErr   Asym_MuNegErr   Lambda_Mu   Lambda_MuPosErr   Lambda_MuNegErr   freq_Mu1   freq_Mu1PosErr   freq_Mu1NegErr   Asym_muon   Asym_muonPosErr   Asym_muonNegErr   Sigma_muon   Sigma_muonPosErr   Sigma_muonNegErr   field   fieldPosErr   fieldNegErr   ph_LR   ph_LRPosErr   ph_LRNegErr   Alpha_LR   Alpha_LRPosErr   Alpha_LRNegErr   relph_TB   relph_TBPosErr   relph_TBNegErr   relph_TB_Mu   relph_TB_MuPosErr   relph_TB_MuNegErr   Alpha_TB   Alpha_TBPosErr   Alpha_TBNegErr   Zero   ZeroPosErr   ZeroNegErr   freqMu2   freqMu2PosErr   freqMu2NegErr   Asym_MuSiO2   Asym_MuSiO2PosErr   Asym_MuSiO2NegErr   Lambda_MuSiO2   Lambda_MuSiO2PosErr   Lambda_MuSiO2NegErr   freqMuSiO2   freqMuSiO2PosErr   freqMuSiO2NegErr   CHISQ   NDF   CHISQred   RUN
+259.999   0.006   4.48   21.9909   16.4945   -0.009   -0.009   -10   0.055   0.064   -0.021   7.2   5.8   -2.7   8.858   0.075   0.084   0.0282   0.0016   -0.0015   0.108   0.025   -0.028   6.03   0.17   0.18   -11.5   2.9   -2.9   0.9996   0.0026   -0.0025   -90   0   0   90   0   0   1.0013   0.0024   -0.0023   0   0   0   10.314   0.094   0.11   0   0   0   0   0   0   0   0   0   8745.7   8897   0.982994   1793
+260   0.009   4.48   19.9929   16.4945   -0.009   -0.009   -10   0.037   0.02   -0.011   4.7   2.9   -1.5   8.858   0.075   0.084   0.0306   0.0019   -0.0017   0.137   0.027   -0.028   6.03   0.17   0.18   -11   3   -2.9   1.0026   0.0033   -0.003   -90   0   0   90   0   0   1.0027   0.0025   -0.0024   0   0   0   10.314   0.094   0.11   0   0   0   0   0   0   0   0   0   8745.7   8897   0.982994   1794
+260   0.006   4.473   17.9949   16.4945   -0.009   -0.01   -10   0.046   0.017   -0.01   4.7   2   -1.2   8.858   0.075   0.084   0.0341   0.0018   -0.0017   0.212   0.022   -0.02   6.03   0.17   0.18   -13.3   2.4   -2.4   1.0115   0.0031   -0.0029   -90   0   0   90   0   0   0.9954   0.0021   -0.0021   0   0   0   10.314   0.094   0.11   0   0   0   0   0   0   0   0   0   8745.7   8897   0.982994   1795
+260   0.007   4.475   15.997   16.4945   -0.009   -0.01   -10   0.0455   0.0104   -0.0083   3.7   1   -0.76   8.858   0.075   0.084   0.036   0.0019   -0.0018   0.21   0.023   -0.022   6.03   0.17   0.18   -6.1   2.4   -2.3   1.0039   0.0033   -0.0031   -90   0   0   90   0   0   1.0009   0.0022   -0.0021   0   0   0   10.314   0.094   0.11   0   0   0   0   0   0   0   0   0   8745.7   8897   0.982994   1796
+260   0.007   4.476   13.9907   16.4945   -0.01   -0.01   -10   0.0258   0.0126   0.0087   2   1.4   0.87   10.16   0.12   0.1   0.0404   0.0039   0.0032   0.181   0.032   0.03   6.05   0.41   0.46   -0.6   4.5   4.4   0.9992   0.0061   0.0047   -90   0   0   90   0   0   1.0043   0.0052   0.0047   0   0   0   8.91   0.1   0.165   0   0   0   0   0   0   0   0   0   2038.1   2222   0.9172   1797
+260   0.007   4.479   11.9929   16.4945   -0.009   -0.009   -10   0   0   0   0   0   0   9.2   9.9   9.9   0.0499   0.0008   0.0008   0.1606   0.0092   0.0092   7.0309   0.0077   0.0077   -7.81   0.57   0.57   0.995   0.0015   0.0015   -90   0   0   90   0   0   0.9879   0.0009   0.0009   0   0   0   -77.1   33.7   33.7   0.053   0.013   0.013   1.63   0.53   0.53   0   0   0   2197.2   2222   0.9888   1798
+260   0.008   4.477   9.995   16.4945   -0.009   -0.009   -10   0   0   0   0   0   0   8.4   2.1   8.4   0.0589   0.0011   0.0011   0.119   0.01   0.01   7.004   0.013   0.014   -5   0.83   0.83   0.989   0.0018   0.0018   -90   0   0   90   0   0   0.9878   0.0016   0.0016   0   0   0   9.2   1.4   1.4   0.0855   0.0073   0.0067   1.53   0.2   0.17   0   0   0   2299.1001   2222   1.0347   1799
+260   0.006   4.472   8.9961   16.4945   -0.01   -0.009   -10   0   0   0   0   0   0   10.214   0   0   0.0701   0.0011   0.001   0.0972   0.0091   0.0097   7.327   0.011   0.011   -3.59   0.67   0.67   0.9619   0.0017   0.0017   -90   0   0   90   0   0   0.988   0.0016   0.0016   0   0   0   6.764   0   0   0.0732   0.0055   0.0052   1.25   0.14   0.13   0   0   0   2343.2   2224   1.0536   1788
+260   0.006   4.468   6.9983   16.4945   -0.01   -0.009   -10   0   0   0   0   0   0   10.214   0   0   0.0708   0.0011   0.0011   0.106   0.0086   0.009   7.295   0.016   0.017   -0.84   0.69   0.69   0.9535   0.0017   0.0017   -90   0   0   90   0   0   0.9884   0.0016   0.0016   0   0   0   6.764   0   0   0.0681   0.0064   0.0059   1.6   0.2   0.18   0   0   0   2271.8   2224   1.0215   1787

doc/examples/DepthProfiles/1300x/depth_profile_startup.xml

@@ -0,0 +1,11 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<depthProf xmlns="http://nemu.web.psi.ch/musrfit/depthProf">
+    <comment>
+        TrimSp information
+    </comment>
+    <trim_sp>
+        <data_path>./TRIMSP/</data_path>
+        <rge_fln_pre>SiC_1300x_52nm_48nm_E</rge_fln_pre>
+        <energy_vect start="1000" stop="22000" step="1000"/>
+    </trim_sp>
+</depthProf>

doc/examples/DepthProfiles/PECVD_Si/Si_PECVD_100G_260K_asym.msr

@@ -0,0 +1,55 @@
+n/a
+###############################################################
+FITPARAMETER
+#      Nr.   Name        Value     Step      Pos_Error  Boundaries    
+        1 f1          0.11295   -0.00071    0.00071     0       1       
+        2 f2          0.06790   -0.00078    0.00078     
+        3 x1          107.83    0.17        none        
+
+###############################################################
+THEORY
+userFcn  libPDepthProfile PDepthProfile 1 2 3
+
+###############################################################
+RUN data/Si10_260K_Escan_100GTF_withDiaFrac MUE4 PSI DAT   (name beamline institute data-file-format)
+fittype         8         (non muSR fit)
+map             0    0    0    0    0    0    0    0    0    0
+xy-data         dataE    Asy     
+fit             5       22     
+packing         1
+
+###############################################################
+COMMANDS
+MINIMIZE
+#HESSE
+MINOS
+SAVE
+
+###############################################################
+PLOT 8   (non muSR plot)
+runs     1   
+range    5   25
+
+###############################################################
+STATISTIC --- 2023-02-16 15:35:37
+  chisq = 18.8, NDF = 8, chisq/NDF = 2.354740
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+

doc/examples/DepthProfiles/PECVD_Si/Si_PECVD_100G_260K_diaFrac.msr

@@ -0,0 +1,55 @@
+n/a
+###############################################################
+FITPARAMETER
+#      Nr.   Name        Value     Step      Pos_Error  Boundaries    
+        1 f1          0.49635   0.00035     none        0       1       
+        2 f2          0.26714   0.00057     none        
+        3 x1          107.4     3.3         none        
+
+###############################################################
+THEORY
+userFcn  libPDepthProfile PDepthProfile 1 2 3
+
+###############################################################
+RUN data/Si10_260K_Escan_100GTF_withDiaFrac MUE4 PSI DAT   (name beamline institute data-file-format)
+fittype         8         (non muSR fit)
+map             0    0    0    0    0    0    0    0    0    0
+xy-data         dataE    DiaFrac 
+fit             5       22     
+packing         1
+
+###############################################################
+COMMANDS
+MINIMIZE
+#HESSE
+MINOS
+SAVE
+
+###############################################################
+PLOT 8   (non muSR plot)
+runs     1   
+range    0   25
+
+###############################################################
+STATISTIC --- 2023-02-16 15:47:33
+  chisq = 13.2, NDF = 8, chisq/NDF = 1.645757
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+

doc/examples/DepthProfiles/PECVD_Si/TRIMSP/Si10_2.0_E1000.rge

@@ -0,0 +1,54 @@
+ DEPTH      PARTICLES
+     5.          99
+    15.         225
+    25.         275
+    35.         306
+    45.         345
+    55.         396
+    65.         419
+    75.         480
+    85.         478
+    95.         478
+   105.         510
+   115.         501
+   125.         505
+   135.         487
+   145.         456
+   155.         425
+   165.         389
+   175.         400
+   185.         330
+   195.         299
+   205.         252
+   215.         218
+   225.         191
+   235.         144
+   245.         112
+   255.          84
+   265.          76
+   275.          53
+   285.          36
+   295.          25
+   305.          24
+   315.          11
+   325.           6
+   335.           4
+   345.           3
+   355.           0
+   365.           0
+   375.           1
+   385.           0
+   395.           0
+   405.           0
+   415.           0
+   425.           0
+   435.           0
+   445.           0
+   455.           0
+   465.           0
+   475.           0
+   485.           0
+   495.           0
+   505.           0
+   515.           0
+   525.           0

doc/examples/DepthProfiles/PECVD_Si/TRIMSP/Si10_2.0_E10000.rge

@@ -0,0 +1,135 @@
+ DEPTH      PARTICLES
+     5.           1
+    15.           2
+    25.           2
+    35.           0
+    45.           1
+    55.           0
+    65.           3
+    75.           3
+    85.           4
+    95.           7
+   105.           5
+   115.           4
+   125.           2
+   135.           3
+   145.           3
+   155.           7
+   165.           9
+   175.           4
+   185.           7
+   195.           4
+   205.           5
+   215.           9
+   225.           5
+   235.           8
+   245.           6
+   255.           6
+   265.           7
+   275.          13
+   285.          11
+   295.          12
+   305.          15
+   315.          10
+   325.          11
+   335.          13
+   345.          18
+   355.          16
+   365.          13
+   375.          21
+   385.          21
+   395.          21
+   405.          18
+   415.          18
+   425.          20
+   435.          18
+   445.          25
+   455.          25
+   465.          28
+   475.          38
+   485.          32
+   495.          38
+   505.          33
+   515.          47
+   525.          33
+   535.          36
+   545.          67
+   555.          52
+   565.          49
+   575.          59
+   585.          69
+   595.          88
+   605.          73
+   615.          85
+   625.          84
+   635.          92
+   645.          81
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+   665.         129
+   675.         132
+   685.         131
+   695.         137
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+   975.         221
+   985.         167
+   995.         178
+  1005.         145
+  1015.         145
+  1025.          98
+  1035.          71
+  1045.          76
+  1055.          45
+  1065.          37
+  1075.          26
+  1085.          12
+  1095.          12
+  1105.           3
+  1115.           4
+  1125.           1
+  1135.           1
+  1145.           0
+  1155.           1
+  1165.           0
+  1175.           0
+  1185.           0
+  1195.           0
+  1205.           0
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+  1235.           0
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+  1305.           0
+  1315.           0
+  1325.           0
+  1335.           0

doc/examples/DepthProfiles/PECVD_Si/TRIMSP/Si10_2.0_E11000.rge

@@ -0,0 +1,144 @@
+ DEPTH      PARTICLES
+     5.           1
+    15.           4
+    25.           1
+    35.           2
+    45.           3
+    55.           2
+    65.           2
+    75.           5
+    85.           3
+    95.           4
+   105.           1
+   115.           1
+   125.           1
+   135.           3
+   145.           3
+   155.           3
+   165.           4
+   175.           6
+   185.           5
+   195.           4
+   205.           3
+   215.           1
+   225.           3
+   235.           7
+   245.           6
+   255.           8
+   265.           7
+   275.           7
+   285.           5
+   295.           3
+   305.          11
+   315.          11
+   325.           6
+   335.           8
+   345.          15
+   355.          15
+   365.          13
+   375.          10
+   385.          11
+   395.          17
+   405.          18
+   415.          17
+   425.          14
+   435.          19
+   445.          15
+   455.          17
+   465.          17
+   475.          22
+   485.          18
+   495.          31
+   505.          27
+   515.          33
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doc/examples/DepthProfiles/PECVD_Si/TRIMSP/Si10_2.0_E12000.rge

@@ -0,0 +1,151 @@
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doc/examples/DepthProfiles/PECVD_Si/TRIMSP/Si10_2.0_E13000.rge

@@ -0,0 +1,159 @@
+ DEPTH      PARTICLES
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doc/examples/DepthProfiles/PECVD_Si/TRIMSP/Si10_2.0_E14000.rge

@@ -0,0 +1,167 @@
+ DEPTH      PARTICLES
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