# `musrgui / musredit`

- musrgui / musredit
- 1 Introduction
- 2 Available Executables, Configuration Files and their Basic Usage
  - 2.1 musrgui / musredit
  - 2.2 musrgui_startup.xml / musredit_startup.xml
- 3 musrfit Features
- 4 Editor Features
- 5 Bugtracking

# 1 Introduction

`musrgui` and `musredit` are editors which also provide a graphical user interface to the programs contained in the `musrfit` suite and are intended to help the user handle `musrfit` msr files. They are implemented in `C++` and use the Qt framework. Principally, `musrgui` and `musredit` are doing the same, but are based on different Qt versions. `musrgui` is based on Qt 3.x and will only be maintained on bug-fixing level since the Qt 3.x licensing is less straight forward than the Qt 4.x one. `musredit` is based on Qt 4.6 (or above) and this is the program which will be developed further.
On this documentation page only the features related to `musrfit` are described—the basic editor functions which should be self-explanatory are not. Before going on using `musrgui` / `musredit` it is strongly recommended to read the manual of `musrfit` first!

# 2 Available Executables, Configuration Files and their Basic Usage

## 2.1 musrgui / musredit

`musrgui` / `musredit` are the editor executables. If called from within a shell they accept a few optional parameters:

<msr_files>
  file names of the msr files that should be opened in separate editor tabs on startup of `musrgui` / `musredit`.
--help
  displays a small help notice in the shell explaining the basic usage of the program
--version
  prints the version number of `musrgui` / `musredit`

If called without any parameters an empty editor window opens.

## 2.2 musrgui_startup.xml / musredit_startup.xml

`musrgui_startup.xml` / `musredit_startup.xml` are configuration files located at the `musrgui` / `musredit` binary path. It is also possible to have another version of this file in the working directory which then will be used!

In this file the following XML tags are allowed to define settings and might proof useful for all users of `musrgui` / `musredit`:

<general></general>
  set the default paths to executables and files in this environment
  <exec_path>PATH_TO_EXEC</exec_path>
    set the path PATH_TO_EXEC where the executables `musrfit`, `musrview`, `musrt0`, etc. can be found (inside the <general> environment)
  <default_save_path>SAV_PATH</default_save_path>
    specify the path SAV_PATH where `musrgui` / `musredit` point by default when opening and saving msr files (inside the <general> environment)
  <msr_default_file_path>MSR_DEF_PATH</msr_default_file_path>
    set the path MSR_DEF_PATH where the default msr files provided by `musrgui` are stored (inside the <general> environment)
  <title_from_data_file>y/n</title_from_data_file>
    specify if `musrfit` should be called with the -t option by default (inside the <general> environment)
  <enable_musrt0>y/n</enable_musrt0>
    specify if `musrt0` can be called from within `musrgui` / `musredit` (inside the <general> environment)
<font_settings></font_settings>
  set the default font in this environment
  <font_name>FONT</font_name>
    specify the name of the font FONT to be used by default in `musrgui` / `musredit` (inside the <font_settings> environment)
  <font_size>N</font_size>
    specify the size N of the font to be used by default in `musrgui` / `musredit` (inside the <font_settings> environment)
<msr_file_defaults></msr_file_defaults>
  put the default settings for newly created msr files in this environment
  <beamline>BL</beamline>
    set the name of the muon beamline BL here (inside a <msr_file_defaults>-environment)
  <institute>INST</institute>
    set the name of the facility INST where the beamline BL is located. Valid settings are PSI, RAL, JPARC, and TRIUMF (inside a <msr_file_defaults> environment)
  <file_format>FF</file_format>
    specify the default data file format FF here. Valid formats are NEXUS, ROOT-NPP, ROOT-PPC, PSI-BIN, PSI-MDU, MDU-ASCII, WKM, MUD, ASCII, and DB (inside a <msr_file_defaults> environment)
  <lifetime_correction>y/n</lifetime_correction>
    choose if by default the lifetimecorrection option should be set (inside a <msr_file_defaults> environment)
<msr2data_defaults></msr2data_defaults>
  define the default options for calling `msr2data` in this environment; the options set here are ticked by default in the graphical interface of `musrgui` / `musredit`.
  <chain_fit>y/n</chain_fit>
    (un)set the chain fit (!) option (inside a <msr2data_defaults> environment)
  <write_data_header>y/n</write_data_header>
    (un)set the noheader option (inside a <msr2data_defaults> environment)
  <ignore_data_header_info>y/n</ignore_data_header_info>
    (un)set the nosummary option (inside a <msr2data_defaults> environment)
  <keep_minuit2_output>y/n</keep_minuit2_output>
    (un)set the -k option (inside a <msr2data_defaults> environment)
  <write_column_data>y/n</write_column_data>
    (un)set the data option (inside a <msr2data_defaults> environment)
  <create_msr_file_only>y/n</create_msr_file_only>
    (un)set the msr option in case a template run is specified (inside a <msr2data_defaults> environment)
  <fit_only>y/n</fit_only>
    (un)set the fit option in case no template run is specified (inside a <msr2data_defaults> environment)
  <global>y/n</global>
    (un)set the global option (inside a <msr2data_defaults> environment)
  <global_plus>y/n</global_plus>
    (un)set the global+ option (inside a <msr2data_defaults> environment)
  <recreate_data_file>y/n</recreate_data_file>
    (un)set the `musrgui` / `musredit` option for recreating the output file (inside a <msr2data_defaults> environment)
  <open_file_after_fitting>y/n</open_file_after_fitting>
    (un)set the `musrgui` / `musredit` option for opening msr files after fitting (inside a <msr2data_defaults> environment)

Additionally, there are some settings defined in this XML file which should be only changed by experienced users who like to add new features to `musrgui` / `musredit`:

<help_section></help_section>
  define various help messages in this environment
  <help_main>HELP TEXT</help_main>
    set the main help message HELP TEXT here (inside a <help_section> environment)
<func_pixmap_path>PIX_PATH</func_pixmap_path>
  set the path PIX_PATH to pixmaps visualizing the various supported theory functions
<theory_functions></theory_functions>
  define the functions for a msr file's THEORY block according to the correct syntax in this environment
  <func></func>
    specify a function here (inside a <theory_functions> environment)
    <name>NAME</name>
      the NAME of the function in the msr file (inside a <func> environment)
    <comment>COMMENT</comment>
      description of the used parameters (inside a <func> environment)
    <label>LABEL</label>
      LABEL of the function in the `musrgui` / `musredit` menu (inside a <func> environment)
    <pixmap>PIXMAP</pixmap>
      picture used to describe the function and stored in the PIX_PATH (inside a <func> environment)
    <params>N</params>
      number of parameters N used by the function (inside a <func> environment)

An example of the `musrgui_startup.xml` looks like:

    <?xml version="1.0" encoding="UTF-8"?>
    <musrgui_startup xmlns="https://intranet.psi.ch/MUSR/MusrGui">
      <general>
        <exec_path>/usr/local/bin</exec_path>
        <default_save_path>./</default_save_path>
        <msr_default_file_path>/home/user/analysis/musrfit/src/musrgui</msr_default_file_path>
      </general>
      <font_settings>
        <font_name>Courier New</font_name>
        <font_size>10</font_size>
      </font_settings>
      <msr_file_defaults>
        <beamline>mue4</beamline>
        <institute>psi</institute>
        <file_format>root-npp</file_format>
        <lifetime_correction>y</lifetime_correction>
      </msr_file_defaults>
      <msr2data_defaults>
        <chain_fit>y</chain_fit>
        <write_data_header>y</write_data_header>
        <ignore_data_header_info>n</ignore_data_header_info>
        <keep_minuit2_output>n</keep_minuit2_output>
        <write_column_data>n</write_column_data>
        <recreate_data_file>n</recreate_data_file>
        <open_file_after_fitting>y</open_file_after_fitting>
        <create_msr_file_only>n</create_msr_file_only>
        <fit_only>n</fit_only>
        <global>n</global>
        <global_plus>n</global_plus>
      </msr2data_defaults>
      <help_section>
        <help_main>
          For a detailed description of the aim and structure of a msr file see http://lmu.web.psi.ch/facilities/software/musrfit/user/MUSR/MusrFit.html
        </help_main>
      </help_section>
      <func_pixmap_path>/home/user/analysis/musrfit/src/musrgui/latex_images</func_pixmap_path>
      <theory_functions>
        <func>
          <name>asymmetry</name>
          <comment></comment>
          <label>Asymmetry</label>
          <pixmap>asymmetry.png</pixmap>
          <params>1</params>
        </func>
        <func>
          <name>simplExpo</name>
          <comment>(rate)</comment>
          <label>simple Exp</label>
          <pixmap>simpleExp.png</pixmap>
          <params>1</params>
        </func>
        <func>
          <name>simplGss</name>
          <comment>(rate)</comment>
          <label>simple Gauss</label>
          <pixmap>simpleGauss.png</pixmap>
          <params>1</params>
        </func>
      </theory_function>
    </musrgui_startup>

# 3 `musrfit` Features

The features of `musrfit` which can be accessed by the graphical front ends `musrgui` / `musredit` are described in the following. All functions can either be called by choosing them from the MusrFit menu, by clicking the respective button in the MusrFit bar, or by using a keyboard shortcut.

Asymmetry Default (Alt+a)
  Generate a full msr file suitable for the fit type 2 of `musrfit` from defaults. Calling this function opens a window where the relative path and file name to a data file as well as the file format that should be used have to be specified. For instance if the data file `/path-to-datadir/2007/lem07_his_8472.root` should be used and `/path-to-datadir` is on the path where `musrfit` looks for data files then the file name would be `2007/lem07_his_8472` and the file format either ROOT-NPP or ROOT-PPC.

Single-Histogram Default (Alt+h)
  Generate a full msr file suitable for the fit type 0 of `musrfit` from defaults. Calling this function opens a window where the relative path and file name to a data file as well as the file format that should be used have to be specified. For instance if the data file `/path-to-datadir/d2007/deltat_pta_gps_8472.bin` should be used and `/path-to-datadir` is on the path where `musrfit` looks for data files then the file name would be `d2007/deltat_pta_gps_8472` and the file format PSI-BIN.

Calculate Chisq (Alt+c)

      musrfit <msr_file> --chisq-only

  is called for the <msr_file> selected in the editor. For further information refer to the manual of `musrfit`.

Fit (Alt+f)

      musrfit <msr_file> [optional parameters]

  is called for the <msr_file> selected in the editor. The optional parameters may be chosen under Preferences. For further information refer to the manual of `musrfit`.

Swap Msr ↔ Mlog (Alt+s)
  Swap the msr and mlog files. E.g., for a file called `8472_zf.msr`, this is copied to `8472_zf.mlog` and vice versa.

Msr2data (Alt+m)
  Opens a graphical interface to the `msr2data` program described in detail in its own manual.

View (Alt+v)

      musrview <msr_file>

  is called for the <msr_file> selected in the editor. For further information refer to the manual of `musrfit`.

T0 (Alt+t)

      musrt0 <msr_file>

  is called for the <msr_file> selected in the editor. For further information refer to the manual of `musrfit`.

Preferences (Alt+p)
  Opens a window in which the optional parameters that should be passed to `musrfit` can be chosen. These options are `--keep-mn2-output`, `--dump ascii`, `--dump root`, and `--title-from-data-file`. For further information refer to the manual of `musrfit`. Additionally, the access to `musrt0` can be enabled temporarily.

# 4 Editor Features

Besides the functions described above and which are mostly interfacing `musrfit/msr2data` the editors of `musrgui` / `musredit` offer various functions for manipulating especially `musrfit` msr files:

- Upon right-clicking an open msr file a menu as shown to the right is displayed which offers the addition of any valid msr file block or theory function. In case a simple theory function is chosen, the function will be inserted into the THEORY block using the correct syntax. If one chooses to add a whole block to the file a dialog opens in which the necessary information for each block as described in the manual of `musrfit` can be supplied. This feature is available only in `musrgui`. In `musredit` the respective functions can be accessed through the Edit menu.
- In order to comment or uncomment lines in a msr file select the according lines and apply Edit → (Un)Comment or use the keyboard shortcut Ctrl+(Shift)+m.

# 5 Bugtracking

For reporting bugs or requesting new features and improvements please use the PSI Tracker or send an e-mail to A. Suter.

-- BMW & AS

Topic attachments
I | Attachment | Action | Size | Date | Who | Comment | Attribute
--- | --- | --- | --- | --- | --- | --- | ---
png | LaTeX_logo.png | manage | 0.8 K | 11 Apr 2009 - 10:11 | BastianWojek |  | h
png | musrasym.png | manage | 0.3 K | 10 Apr 2009 - 11:47 | BastianWojek |  | h
png | musrcalcchisq.png | manage | 0.3 K | 10 Apr 2009 - 12:43 | BastianWojek |  | h
png | musrfit.png | manage | 0.3 K | 10 Apr 2009 - 12:45 | BastianWojek |  | h
png | musrgui-editor-v0.png | manage | 37.5 K | 10 Apr 2009 - 14:53 | BastianWojek | musrgui options available upon right clicking a open msr-file |
png | musrmsr2data.png | manage | 0.3 K | 10 Apr 2009 - 12:46 | BastianWojek |  | h
png | musrprefs.png | manage | 0.3 K | 10 Apr 2009 - 12:48 | BastianWojek |  | h
png | musrsinglehisto.png | manage | 0.3 K | 10 Apr 2009 - 12:34 | BastianWojek |  | h
png | musrswap.png | manage | 0.3 K | 10 Apr 2009 - 12:46 | BastianWojek |  | h
png | musrt0.png | manage | 0.3 K | 10 Apr 2009 - 12:47 | BastianWojek |  | h
png | musrview.png | manage | 0.3 K | 10 Apr 2009 - 12:47 | BastianWojek |  | h

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