LMU/musrfit
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merged from root6. Compiles but has issues with DKS linking yet.

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This commit is contained in:
suter_a 2017-05-15 21:30:42 +02:00
commit 1729055385
334 changed files with 27556 additions and 4414 deletions
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10
ChangeLog
View File

@ -2,6 +2,14 @@
# ChangeLog
#---------------------------------------------------------------------
rather than updating this document, the changes can be followed here:
https://gitlab.psi.ch/nemu/musrfit/activity
or
https://bitbucket.org/muonspin/musrfit/commits/all
changes since 0.18.0
===================================
@ -132,6 +140,8 @@ 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

3
Makefile.am
View File

@ -6,8 +6,7 @@ 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 \
DOCDIRS = examples \
examples/data \
examples/ASlibs \
examples/ASlibs/data \

2
acinclude.m4
View File

@ -49,7 +49,7 @@ AC_DEFUN([ROOT_PATH],
fi
AC_PATH_PROG(ROOTCONF, root-config , no, $rootbin)
AC_PATH_PROG(ROOTEXEC, root , no, $rootbin)
AC_PATH_PROG(ROOTCLING, rootcling, no, $rootbin)
AC_PATH_PROG(ROOTCLING, rootcling , no, $rootbin)
if test ! x"$ROOTCONF" = "xno" && \
test ! x"$ROOTCLING" = "xno" ; then

1
configure.ac
View File

@ -1354,7 +1354,6 @@ AC_CONFIG_FILES([Makefile \
src/musredit_qt5/Makefile \
src/musredit/Makefile \
src/musrgui/Makefile \
src/musredit/musredit_startup.xml \
src/musrgui/musrgui_startup.xml])
AC_OUTPUT

4
doc/examples/UserFcn/Makefile.PUserFcn
View File

@ -46,11 +46,11 @@ clean:; @rm -f $(OBJS) *Dict* core*
$(OBJS): %.o: %.cpp
$(CXX) $(INCLUDES) $(CXXFLAGS) -c $<
# Generate the ROOT CINT dictionary
# Generate the ROOT CLING dictionary
PUserFcnDict.cpp: PUserFcn.h PUserFcnLinkDef.h
@echo "Generating dictionary $@..."
rootcint -f $@ -c -p -I$(ROOTINCLUDE) $^
rootcling -f $@ -c -p -I$(ROOTINCLUDE) $^
install: all
@echo "Installing shared lib: libTApproximation.so"

12
doc/examples/test-asy-MUD.msr
View File

@ -3,7 +3,7 @@ MgB12H12 No2 ZF T=150
FITPARAMETER
# Nr. Name Value Step Pos_Error Boundaries
1 alpha 1 0 none 0 2
2 asy 0.17503 -0.00082 0.00083 0 0.33
2 asy 0.17503 -0.00081 0.00083 0 0.33
3 rate 0.1649 -0.0016 0.0016 0 none
4 beta 0.892 -0.016 0.016 0.5 2
@ -19,7 +19,7 @@ alpha 1
map 0 0 0 0 0 0 0 0 0 0 0
forward 1
backward 2
background 79 391 80 409 # estimated bkg: 21.0224 / 17.1702
background 79 391 80 409 # estimated bkg: 21.0833 / 17.2249
data 438 12785 436 12787
t0 432.0 431.0
fit 0 8
@ -34,10 +34,10 @@ SAVE
###############################################################
FOURIER
units Gauss # units either 'Gauss', 'MHz', or 'Mc/s'
units Gauss # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
fourier_power 12
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 8
#range_for_phase_correction 50.0 70.0
range 0 200
@ -48,5 +48,5 @@ runs 1
range 0 8 0 0.25
###############################################################
STATISTIC --- 2012-03-20 10:11:27
chisq = 133.9, NDF = 99, chisq/NDF = 1.352819
STATISTIC --- 2017-02-08 07:07:39
chisq = 134.0, NDF = 99, chisq/NDF = 1.353150

24
doc/examples/test-histo-muMinus.msr
View File

@ -5,11 +5,11 @@ FITPARAMETER
1 N_0 321.0 1.4 none
2 tau_0 1.9066 0.0038 none 0 none
3 Rate_0 0.0983 0.0052 none 0 none
4 Freq_0 135.53824 0.00073 none
4 Freq_0 135.53823 0.00073 none
5 N_1 306.1 1.3 none
6 tau_1 0.7409 0.0026 none 0 none
7 Rate_1 0.026 0.027 none 0 none
7 Rate_1 0.027 0.031 none 0 none
8 Freq_1 136.8968 0.0033 none
9 Asym_F1_0 0.0490 0.0015 none 0 none
@ -28,7 +28,7 @@ FITPARAMETER
20 N_bgk_F3 1.465 0.033 none
21 Asym_F4_0 0.0512 0.0015 none 0 none
22 Asym_F4_1 0.0521 0.0029 none 0 none
22 Asym_F4_1 0.0521 0.0030 none 0 none
23 Phase_F4 144.6 1.5 none
24 N_bgk_F4 2.311 0.034 none
@ -40,7 +40,7 @@ FITPARAMETER
29 Asym_F6_0 0.0502 0.0015 none 0 none
30 Asym_F6_1 0.0517 0.0030 none 0 none
31 Phase_F6 232.1 1.5 none
32 N_bgk_F6 1.735 0.033 none
32 N_bgk_F6 1.735 0.034 none
33 Asym_F7_0 0.0488 0.0015 none 0 none
34 Asym_F7_1 0.0575 0.0030 none 0 none
@ -48,12 +48,12 @@ FITPARAMETER
36 N_bgk_F7 1.593 0.033 none
37 Asym_F8_0 0.0547 0.0015 none 0 none
38 Asym_F8_1 0.0468 0.0029 none 0 none
38 Asym_F8_1 0.0468 0.0030 none 0 none
39 Phase_F8 321.7 1.4 none
40 N_bgk_F8 1.469 0.033 none
41 Asym_B1_0 0.0476 0.0015 none 0 none
42 Asym_B1_1 0.0535 0.0029 none 0 none
42 Asym_B1_1 0.0535 0.0030 none 0 none
43 Phase_B1 3.6 1.5 none
44 N_bgk_B1 1.378 0.033 none
@ -64,8 +64,8 @@ FITPARAMETER
49 Asym_B3_0 0.0494 0.0015 none 0 none
50 Asym_B3_1 0.0555 0.0030 none 0 none
51 Phase_B3 98.1 1.5 none
52 N_bgk_B3 0.969 0.032 none
51 Phase_B3 98.2 1.5 none
52 N_bgk_B3 0.968 0.032 none
53 Asym_B4_0 0.0505 0.0015 none 0 none
54 Asym_B4_1 0.0527 0.0030 none 0 none
@ -78,7 +78,7 @@ FITPARAMETER
60 N_bgk_B5 1.642 0.033 none
61 Asym_B6_0 0.0512 0.0015 none 0 none
62 Asym_B6_1 0.0477 0.0029 none 0 none
62 Asym_B6_1 0.0477 0.0030 none 0 none
63 Phase_B6 231.7 1.5 none
64 N_bgk_B6 1.650 0.033 none
@ -183,7 +183,7 @@ SAVE
###############################################################
PLOT 4 (mu minus plot)
runs 1-16
runs 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16
range 0 9
###############################################################
@ -191,9 +191,9 @@ FOURIER
units Tesla # units either 'Gauss', 'Tesla', 'MHz', or 'Mc/s'
fourier_power 14
apodization MEDIUM # 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
range 0.8 1.2
###############################################################
STATISTIC --- 2016-04-25 17:05:56
STATISTIC --- 2017-02-08 07:11:01
maxLH = 238962.5, NDF = 230264, maxLH/NDF = 1.037776

17
doc/html/user/MUSR/BmwLibs.html
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@ -1,7 +1,7 @@
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@ -14,14 +14,14 @@
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<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -149,6 +149,5 @@ Topic revision: <span class='patternRevInfo'>03 Jul 2015, suter_a</span></div>
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25
doc/html/user/MUSR/CiteMusrFit.html
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@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
<!-- Mirrored from intranet.psi.ch/MUSR/CiteMusrFit?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:01:25 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
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<title> MUSR :: CiteMusrFit</title>
@ -14,14 +14,14 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
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@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -102,14 +102,14 @@
<!--<![endif]-->
<!--JQUERYPLUGIN-->
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<body class="foswikiNoJs patternViewPage patternPrintPage">
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@ -147,6 +147,5 @@ Topic revision: <span class='patternRevInfo'>19 Jun 2012, suter_a</span></div>
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27
doc/html/user/MUSR/LibFitPofB.html
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@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
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@ -14,14 +14,14 @@
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@ -104,15 +104,15 @@
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31
doc/html/user/MUSR/LibZFRelaxation.html
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@ -1,7 +1,7 @@
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@ -14,14 +14,14 @@
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<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/LibZFRelaxation?t=1481904042" type="application/x-wiki" title="edit LibZFRelaxation" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/LibZFRelaxation?t=1494785294" type="application/x-wiki" title="edit LibZFRelaxation" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<base /><!--[if IE]></base><![endif]--><link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -102,17 +102,17 @@
<!--<![endif]-->
<!--JQUERYPLUGIN-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::COMMENT-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::METADATA-->
<!--JQUERYPLUGIN::CHILI-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
<!--PatternSkin/pattern-->
<!--JQUERYPLUGIN::COMMENT-->
<!--JQUERYPLUGIN::METADATA-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::CHILI--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<!--PatternSkin/pattern--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
<span id="PageTop"></span><div class="foswikiPage"><div id="patternScreen">
@ -233,6 +233,5 @@ Topic revision: <span class='patternRevInfo'>03 Jul 2015, suter_a</span></div>
</body>
<!-- Mirrored from intranet.psi.ch/MUSR/LibZFRelaxation?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:00:55 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
<!-- Mirrored from intranet.psi.ch/MUSR/LibZFRelaxation?cover=print by HTTrack Website Copier/3.x [XR&CO'2014], Sun, 14 May 2017 18:08:30 GMT -->
</html>

31
doc/html/user/MUSR/Msr2Data.html
View File

@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
<!-- Mirrored from intranet.psi.ch/MUSR/Msr2Data?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:01:25 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
<!-- Mirrored from intranet.psi.ch/MUSR/Msr2Data?cover=print by HTTrack Website Copier/3.x [XR&CO'2014], Sun, 14 May 2017 18:09:03 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8" /><!-- /Added by HTTrack -->
<head>
<link rel="stylesheet" href="../pub/System/HeadlinesPlugin/style.css" type="text/css" media="all" />
<title> MUSR :: Msr2Data</title>
@ -14,12 +14,12 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<link rel="icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="shortcut icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/Msr2Data?t=1481904045" type="application/x-wiki" title="edit Msr2Data" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/Msr2Data?t=1494785299" type="application/x-wiki" title="edit Msr2Data" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<base /><!--[if IE]></base><![endif]--><link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head IMAGEPLUGIN' rel="stylesheet" href="../pub/System/ImagePlugin/style.css" type="text/css" media="all" /><!--IMAGEPLUGIN-->
<style class='head TABLEPLUGIN_default' type="text/css" media="all">
body .foswikiTable {border-width:1px}
body .foswikiTable .tableSortIcon img {padding-left:.3em; vertical-align:text-bottom}
@ -53,9 +53,9 @@ body .foswikiTable#tableMsr2Data1 tr.foswikiTableRowdataBg0 td {background-color
body .foswikiTable#tableMsr2Data1 tr.foswikiTableRowdataBg0 td.foswikiSortedCol {background-color:#f5f5f5}
</style><!--TABLEPLUGIN_specific-->
<link class='head JQUERYPLUGIN::TWISTY' rel='stylesheet' href='../pub/System/TwistyPlugin/twisty327a.css?version=1.6.0' type='text/css' media='all' /><!--JQUERYPLUGIN::TWISTY: requires= missing ids: JavascriptFiles/foswikiPref-->
<link class='head IMAGEPLUGIN' rel="stylesheet" href="../pub/System/ImagePlugin/style.css" type="text/css" media="all" /><!--IMAGEPLUGIN-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -135,19 +135,19 @@ body .foswikiTable#tableMsr2Data1 tr.foswikiTableRowdataBg0 td.foswikiSortedCol
<!--<![endif]-->
<!--JQUERYPLUGIN-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
<!--PatternSkin/pattern-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::TWISTY-->
<!--JQUERYPLUGIN::COMMENT-->
<!--JavascriptFiles/foswikiForm-->
<!--JQUERYPLUGIN::METADATA-->
<!--JQUERYPLUGIN::CHILI--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<!--JQUERYPLUGIN::CHILI-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::COMMENT-->
<!--PatternSkin/pattern--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
<span id="PageTop"></span><div class="foswikiPage"><div id="patternScreen">
@ -435,6 +435,5 @@ Topic revision: <span class='patternRevInfo'>28 Apr 2016, <a href="https://intr
</body>
<!-- Mirrored from intranet.psi.ch/MUSR/Msr2Data?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:01:26 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
<!-- Mirrored from intranet.psi.ch/MUSR/Msr2Data?cover=print by HTTrack Website Copier/3.x [XR&CO'2014], Sun, 14 May 2017 18:09:03 GMT -->
</html>

69
doc/html/user/MUSR/MusrFit.html
View File

@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFit?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:01:02 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFit?cover=print by HTTrack Website Copier/3.x [XR&CO'2014], Sun, 14 May 2017 18:08:39 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8" /><!-- /Added by HTTrack -->
<head>
<link rel="stylesheet" href="../pub/System/HeadlinesPlugin/style.css" type="text/css" media="all" />
<title> MUSR :: MusrFit</title>
@ -14,11 +14,14 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<link rel="icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="shortcut icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/MusrFit?t=1481904044" type="application/x-wiki" title="edit MusrFit" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/MusrFit?t=1494785298" type="application/x-wiki" title="edit MusrFit" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<base /><!--[if IE]></base><![endif]--><style class='head TABLEPLUGIN_default' type="text/css" media="all">
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<style class='head TABLEPLUGIN_default' type="text/css" media="all">
body .foswikiTable {border-width:1px}
body .foswikiTable .tableSortIcon img {padding-left:.3em; vertical-align:text-bottom}
body .foswikiTable td {border-style:solid none; vertical-align:top}
@ -32,11 +35,8 @@ body .foswikiTable tr.foswikiTableRowdataBg0 td.foswikiSortedCol {background-col
body .foswikiTable tr.foswikiTableRowdataBg1 td {background-color:#f7f7f6}
body .foswikiTable tr.foswikiTableRowdataBg1 td.foswikiSortedCol {background-color:#f0f0ee}
</style><!--TABLEPLUGIN_default-->
<link class='head IMAGEPLUGIN' rel="stylesheet" href="../pub/System/ImagePlugin/style.css" type="text/css" media="all" /><!--IMAGEPLUGIN-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head IMAGEPLUGIN' rel="stylesheet" href="../pub/System/ImagePlugin/style.css" type="text/css" media="all" /><!--IMAGEPLUGIN--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -116,18 +116,18 @@ body .foswikiTable tr.foswikiTableRowdataBg1 td.foswikiSortedCol {background-col
<!--<![endif]-->
<!--JQUERYPLUGIN-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
<!--PatternSkin/pattern-->
<!--JQUERYPLUGIN::METADATA-->
<!--JQUERYPLUGIN::COMMENT-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::CHILI--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<!--JQUERYPLUGIN::CHILI-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::COMMENT-->
<!--PatternSkin/pattern--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
<span id="PageTop"></span><div class="foswikiPage"><div id="patternScreen">
@ -153,7 +153,7 @@ body .foswikiTable tr.foswikiTableRowdataBg1 td.foswikiSortedCol {background-col
</li> <li> <a href="MusrFit.html#A_2.7_any2many"> 2.7 any2many </a>
</li> <li> <a href="MusrFit.html#A_2.8_dump_header"> 2.8 dump_header </a>
</li></ul>
</li> <li> <a href="MusrFit.html#A_3_Auxiliary_Programs"> 3 Auxiliary Programs </a>
</li> <li> <a href="MusrFit.html#A_3_Auxiliary_Programs_40musredit_44_msr2data_41"> 3 Auxiliary Programs (musredit, msr2data) <img src="../pub/System/DocumentGraphics/updated.png" alt="UPDATED" title="UPDATED" width="55" height="16" /> </a>
</li> <li> <a href="MusrFit.html#A_4_Description_of_the_msr_File_Format"> 4 Description of the msr File Format </a> <ul>
<li> <a href="MusrFit.html#A_4.1_The_Title"> 4.1 The Title </a>
</li> <li> <a href="MusrFit.html#A_4.2_The_FITPARAMETER_Block"> 4.2 The FITPARAMETER Block </a>
@ -483,8 +483,8 @@ the same as the previous example, except that the file name is constructed via t
Will dump the <code>LEM</code> header information of run <code>3456</code> including the content of the run summary file.
<p></p>
<span id="AuxiliaryPrograms"></span>
<h1 id="A_3_Auxiliary_Programs"> 3 Auxiliary Programs </h1>
Additionally to the programs mentioned above editor front ends called <code><a href="MusrGui.html">musrgui/musredit</a></code> and another tool named <code><a href="Msr2Data.html">msr2data</a></code> are available. The purpose of <code>msr2data</code> is to process multiple msr files with the same parameters and to summarize the fitting results either in a <strong>DB</strong> or a <strong>column ASCII</strong> file. Also, new msr files can be generated from a template. For details refer to its <a href="Msr2Data.html">manual</a>.
<h1 id="A_3_Auxiliary_Programs_40musredit_44_msr2data_41"> 3 Auxiliary Programs (musredit, msr2data) <img src="../pub/System/DocumentGraphics/updated.png" alt="UPDATED" title="UPDATED" width="55" height="16" /> </h1>
Additionally to the programs mentioned above editor front ends called <code><a href="MusrGui.html">musredit</a></code> and another tool named <code><a href="Msr2Data.html">msr2data</a></code> are available. The purpose of <code>msr2data</code> is to process multiple msr files with the same parameters and to summarize the fitting results either in a <strong>DB</strong> or a <strong>column ASCII</strong> file. Also, new msr files can be generated from a template. For details refer to its <a href="Msr2Data.html">manual</a>.
<p></p>
<strong><span class='foswikiRedFG'>Before going to use <code>musrgui</code> / <code>musredit</code> it is strongly recommended to read this manual first!</span></strong>
<p></p>
@ -601,7 +601,7 @@ The THEORY block is used to define the fit function. There is a set of predefine
<td class="foswikiTableCol1"> stg </td>
<td class="foswikiTableCol2"> <img alt="\sigma\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_6b6bbc4add4da0bde8220c54594658f3.png" /> </td>
<td class="foswikiTableCol3"> <img alt="\frac{1}{3} + \frac{2}{3} \left&#91;1-(\sigma t)^2\right] \exp\left&#91;-\frac{1}{2}\left(\sigma t\right)^2\right]" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_1f1b2becd9ba1bee3b5d7f897bd8db7e.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableEven foswikiTableRowdataBgSorted0 foswikiTableRowdataBg0">
<td class="foswikiTableCol0 foswikiFirstCol"> statGssKTLF </td>
@ -643,7 +643,7 @@ The THEORY block is used to define the fit function. There is a set of predefine
<td class="foswikiTableCol1"> lgkt </td>
<td class="foswikiTableCol2"> <img alt="\lambda\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_020e973cf5b1293c76cb3ecef5a269f8.png" />, <img alt="\sigma\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_6b6bbc4add4da0bde8220c54594658f3.png" /> </td>
<td class="foswikiTableCol3"> <img alt="\frac{1}{3}+\frac{2}{3}\left(1-\sigma^2 t^2-\lambda t\right)\exp\left(-\frac{\sigma^2t^2}{2}-\lambda t\right)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_95da508ef32b516260a14999eaf14f46.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableEven foswikiTableRowdataBgSorted0 foswikiTableRowdataBg0">
<td class="foswikiTableCol0 foswikiFirstCol"> strKT </td>
@ -657,7 +657,7 @@ The THEORY block is used to define the fit function. There is a set of predefine
<td class="foswikiTableCol1"> spg </td>
<td class="foswikiTableCol2"> <img alt="\lambda\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_020e973cf5b1293c76cb3ecef5a269f8.png" />, <img alt="\gamma\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_8aad0e0c2c1f20995c483933a896ca0d.png" />, <img alt="q\,(1)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_16b8c518c1e529e6c963929287ef3a56.png" /> </td>
<td class="foswikiTableCol3"> <img alt="\frac{1}{3}\exp\left(-\sqrt{\frac{4\lambda^2(1-q)t}{\gamma}}\right)+\frac{2}{3}\left(1-\frac{q\lambda^2t^2}{\sqrt{\frac{4\lambda^2(1-q)t}{\gamma}+q\lambda^2t^2}}\right)\exp\left(-\sqrt{\frac{4\lambda^2(1-q)t}{\gamma}+q\lambda^2t^2}\right)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_e35c4217aa50607f25e6eadf9f27f874.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableEven foswikiTableRowdataBgSorted0 foswikiTableRowdataBg0">
<td class="foswikiTableCol0 foswikiFirstCol"> rdAnisoHf </td>
@ -671,35 +671,35 @@ The THEORY block is used to define the fit function. There is a set of predefine
<td class="foswikiTableCol1"> tf </td>
<td class="foswikiTableCol2"> <img alt="\varphi\,(^{\circ})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_61136f20673ad20f955c43e43b8cec9d.png" />, <img alt="\nu\,(\mathrm{MHz})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_7188605a647615e4fb92cc89274b22a0.png" /> </td>
<td class="foswikiTableCol3"> <img alt="\cos\left(2\pi\nu t+\frac{\pi\varphi}{180}\right)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_51757d805f7111ffe6e0b430b6d137c7.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableEven foswikiTableRowdataBgSorted0 foswikiTableRowdataBg0">
<td class="foswikiTableCol0 foswikiFirstCol"> internFld </td>
<td class="foswikiTableCol1"> if </td>
<td class="foswikiTableCol2"> <img alt="\alpha\,(1)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_f266f29ff7212b8d77bf67567eac1fd3.png" />, <img alt="\varphi\,(^{\circ})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_61136f20673ad20f955c43e43b8cec9d.png" />, <img alt="\nu\,(\mathrm{MHz})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_7188605a647615e4fb92cc89274b22a0.png" />, <img alt="\lambda&#95;{\mathrm{T}}\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_49046b617890ffeaca8bc16ae66d0dc5.png" />, <img alt="\lambda&#95;{\mathrm{L}}\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_b0c4a8cbbcf4189b64418b381939a979.png" /> </td>
<td class="foswikiTableCol3"> <img alt="\alpha\,\cos\left(2\pi\nu t+\frac{\pi\varphi}{180}\right)\exp\left(-\lambda&#95;{\mathrm{T}}t\right)+(1-\alpha)\,\exp\left(-\lambda&#95;{\mathrm{L}}t\right)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_1582d158c5651581ca9e800ee698ce9f.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableOdd foswikiTableRowdataBgSorted1 foswikiTableRowdataBg1">
<td class="foswikiTableCol0 foswikiFirstCol"> Bessel </td>
<td class="foswikiTableCol1"> b </td>
<td class="foswikiTableCol2"> <img alt="\varphi\,(^{\circ})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_61136f20673ad20f955c43e43b8cec9d.png" />, <img alt="\nu\,(\mathrm{MHz})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_7188605a647615e4fb92cc89274b22a0.png" /> </td>
<td class="foswikiTableCol3"> <img alt="j&#95;0\left(2\pi\nu t+\frac{\pi\varphi}{180}\right)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_cff60a46de8608e97a33bbae7c4e566d.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableEven foswikiTableRowdataBgSorted0 foswikiTableRowdataBg0">
<td class="foswikiTableCol0 foswikiFirstCol"> internBsl </td>
<td class="foswikiTableCol1"> ib </td>
<td class="foswikiTableCol2"> <img alt="\alpha\,(1)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_f266f29ff7212b8d77bf67567eac1fd3.png" />, <img alt="\varphi\,(^{\circ})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_61136f20673ad20f955c43e43b8cec9d.png" />, <img alt="\nu\,(\mathrm{MHz})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_7188605a647615e4fb92cc89274b22a0.png" />, <img alt="\lambda&#95;{\mathrm{T}}\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_49046b617890ffeaca8bc16ae66d0dc5.png" />, <img alt="\lambda&#95;{\mathrm{L}}\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_b0c4a8cbbcf4189b64418b381939a979.png" /> </td>
<td class="foswikiTableCol3"> <img alt="\alpha\,j&#95;0\left(2\pi\nu t+\frac{\pi\varphi}{180}\right)\exp\left(-\lambda&#95;{\mathrm{T}}t\right)+(1-\alpha)\,\exp\left(-\lambda&#95;{\mathrm{L}}t\right)" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_23ec8fc398b4e415b86bbd2b65f9a63c.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableOdd foswikiTableRowdataBgSorted1 foswikiTableRowdataBg1">
<td class="foswikiTableCol0 foswikiFirstCol"> abragam </td>
<td class="foswikiTableCol1"> ab </td>
<td class="foswikiTableCol2"> <img alt="\sigma\,(\mu\text{s}^{-1})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_6b6bbc4add4da0bde8220c54594658f3.png" />, <img alt="\gamma\,(\mathrm{MHz})" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_ebef6cda2881306e993839c1b4bcaa4c.png" /> </td>
<td class="foswikiTableCol3"> <img alt="\exp\left&#91;-\frac{\sigma^2}{\gamma^2}\left(e^{-\gamma t}-1+\gamma t\right)\right]" class="mmpImage" src="../pub/MUSR/MusrFit/_MathModePlugin_e56be15b7e230ec52a9f6632e552ca4b.png" /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/skull.gif' alt='dead!' title='dead!' /> </td>
<td class="foswikiTableCol4 foswikiLastCol"> <img class='smily' src='../pub/Main/SmiliesPluginPSI/skull.gif' alt='dead!' title='dead!' /> </td>
</tr>
<tr class="foswikiTableEven foswikiTableRowdataBgSorted0 foswikiTableRowdataBg0">
<td class="foswikiTableCol0 foswikiFirstCol"> skewedGss </td>
@ -1047,7 +1047,7 @@ etc.
addt0 t0AddRun1Forward t0AddRun1Backward
addt0 t0AddRun2Forward t0AddRun2Backward
etc.
</pre> How will the background and data ranges be handled in this situation? First, the ADDRUN's will be shifted in time such that all the t0's have the same channel/bin number. Subsequently, the runs will be added. The background/data range is applied to this summed up new histogram. ADDRUN is not available for the fit type 'Non-&mu;SR Fit' (sorry <img class='smily' src='../pub/Main/SmiliesPluginPSI_/no.gif' alt='no' title='no' /> ).
</pre> How will the background and data ranges be handled in this situation? First, the ADDRUN's will be shifted in time such that all the t0's have the same channel/bin number. Subsequently, the runs will be added. The background/data range is applied to this summed up new histogram. ADDRUN is not available for the fit type 'Non-&mu;SR Fit' (sorry <img class='smily' src='../pub/Main/SmiliesPluginPSI/no.gif' alt='no' title='no' /> ).
<p></p>
<span id="FitTypes"></span> <dl>
<dt> fittype (required if not already defined in the GLOBAL block) </dt><dd> This tag is used to indicate which type of fit is wished. The supported fit types are: <dl>
@ -1084,7 +1084,7 @@ norm fun3
<dt> lifetime (fit type 0) </dt><dd> Fit parameter representing the lifetime of the muon. If it is not specified the value &#964;<sub>&#956;</sub>=2.197019 &#956;s is used in the calculations.
</dd></dl>
<p></p> <dl>
<dt> lifetimecorrection (fit type 0) <img class='smily' src='../pub/Main/SmiliesPluginPSI_/eek.gif' alt='eek!' title='eek!' /> <strong>obsolete</strong> <img class='smily' src='../pub/Main/SmiliesPluginPSI_/eek.gif' alt='eek!' title='eek!' /> </dt><dd> Does not accept any arguments. If present, the output in <code>musrview</code> is corrected for the exponential decay of the muon. This item is <strong>obsolete</strong> in the RUN block and will be transferred to the <a class="foswikiCurrentTopicLink" href="#ThePlotBlock">PLOT block</a>, which allows switching between histogram view and asymmetry view much quicker.
<dt> lifetimecorrection (fit type 0) <img class='smily' src='../pub/Main/SmiliesPluginPSI/eek.gif' alt='eek!' title='eek!' /> <strong>obsolete</strong> <img class='smily' src='../pub/Main/SmiliesPluginPSI/eek.gif' alt='eek!' title='eek!' /> </dt><dd> Does not accept any arguments. If present, the output in <code>musrview</code> is corrected for the exponential decay of the muon. This item is <strong>obsolete</strong> in the RUN block and will be transferred to the <a class="foswikiCurrentTopicLink" href="#ThePlotBlock">PLOT block</a>, which allows switching between histogram view and asymmetry view much quicker.
</dd></dl>
<p></p> <dl>
<dt> map </dt><dd> On this line the mapping of run-dependent parameters is done. Parameter numbers given here may be accessed through <code><b>map1</b></code>, <code><b>map2</b></code>, etc. in the THEORY and FUNCTIONS blocks (see also <a class="foswikiCurrentTopicLink" href="#MaPs">here</a>). The first ten maps are always present and have the value 0 if not used; however, the total number of maps is not restricted!
@ -1305,8 +1305,8 @@ The PLOT block is intended to collect all the information needed for the graphic
</dd></dl>
</dd> <dt> use_fit_ranges [ <i>y</i><sub>min</sub> <i>y</i><sub>max</sub>] </dt><dd> The fit ranges of the individual runs are used to present the data. Optionally, an ordinate range can be provided.
</dd> <dt> view_packing </dt><dd> The data are presented in the packing given here rather than the binning used for the fit. <strong>WARNING</strong>: This is a global option and applies to <strong>all</strong> PLOT-blocks.
</dd> <dt> logx </dt><dd> Will present the time axis in a logarithmic scale. So far no checking of negative and zero-valued data is performed <img class='smily' src='../pub/Main/SmiliesPluginPSI_/wink.gif' alt='wink' title='wink' />
</dd> <dt> logy </dt><dd> Will present the axis of ordinates in a logarithmic scale. So far no checking of negative and zero-valued data is performed <img class='smily' src='../pub/Main/SmiliesPluginPSI_/wink.gif' alt='wink' title='wink' />
</dd> <dt> logx </dt><dd> Will present the time axis in a logarithmic scale. So far no checking of negative and zero-valued data is performed <img class='smily' src='../pub/Main/SmiliesPluginPSI/wink.gif' alt='wink' title='wink' />
</dd> <dt> logy </dt><dd> Will present the axis of ordinates in a logarithmic scale. So far no checking of negative and zero-valued data is performed <img class='smily' src='../pub/Main/SmiliesPluginPSI/wink.gif' alt='wink' title='wink' />
</dd> <dt> rrf_packing <code>value</code> </dt><dd> In the rotating-reference-frame (RRF) representation, this will be the value for the packing. <strong>WARNING</strong>: For the time being, this is a global option and applies to <strong>all</strong> PLOT blocks.
</dd> <dt> rrf_freq <code>value</code> <code>unit</code> </dt><dd> This entry provides the RRF "frequency" given by the <code>value</code> and the <code>unit</code> which can be: <code>kHz</code>, <code>MHz</code>, <code>Mc/s</code>, <code>G</code>, or <code>T</code>.
</dd> <dt> rrf_phase <code>value</code> </dt><dd> A phase of the RRF can be provided, either as a value in degrees, or as a <code>parX</code>, e.g. <code>par4</code>, where <code>X</code> is supposed to be the phase parameter number in the FITPARAMETER block.
@ -1547,7 +1547,7 @@ In case of a custom installation some paths in the Makefile might have to be cha
<p></p>
After installing the shared library the defined user function might be used in <code>musrfit</code> as described <a class="foswikiCurrentTopicLink" href="#UserFunctions">above</a>.
<p></p>
Good luck! <img class='smily' src='../pub/Main/SmiliesPluginPSI_/wink.gif' alt='wink' title='wink' />
Good luck! <img class='smily' src='../pub/Main/SmiliesPluginPSI/wink.gif' alt='wink' title='wink' />
<p></p>
Finally, please be aware of the <a class="foswikiCurrentTopicLink" href="#UserFunctionRemark">remark</a> at the end of this section.
<p></p>
@ -1713,7 +1713,7 @@ For reporting bugs or requesting new features and improvements please use the <a
<p></p>
</div>
<div class="patternInfo">This topic: MUSR<span class='foswikiSeparator'>&nbsp;&gt;&nbsp;</span><a class="foswikiCurrentWebHomeLink" href="WebHome.html">WebHome</a><span class='foswikiSeparator'>&nbsp;&gt;&nbsp;</span>MusrFit <br />
Topic revision: <span class='patternRevInfo'>16 Dec 2016, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
Topic revision: <span class='patternRevInfo'>30 Apr 2017, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
</div>
</div>
</div>
@ -1731,6 +1731,5 @@ Topic revision: <span class='patternRevInfo'>16 Dec 2016, <a href="https://intr
</body>
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17
doc/html/user/MUSR/MusrFitAcknowledgements.html
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@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFitAcknowledgements?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:01:02 GMT -->
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<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8" /><!-- /Added by HTTrack -->
<head>
<link rel="stylesheet" href="../pub/System/HeadlinesPlugin/style.css" type="text/css" media="all" />
<title> MUSR :: MusrFitAcknowledgements</title>
@ -14,12 +14,12 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<link rel="icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="shortcut icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/MusrFitAcknowledgements?t=1481904044" type="application/x-wiki" title="edit MusrFitAcknowledgements" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/MusrFitAcknowledgements?t=1494785298" type="application/x-wiki" title="edit MusrFitAcknowledgements" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<base /><!--[if IE]></base><![endif]--><link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@ -102,8 +102,8 @@
<!--<![endif]-->
<!--JQUERYPLUGIN-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
@ -145,6 +145,5 @@ Topic revision: <span class='patternRevInfo'>03 Jul 2015, suter_a</span></div>
</body>
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</html>

197
doc/html/user/MUSR/MusrFitSetup.html
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@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFitSetup?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:01:01 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFitSetup?cover=print by HTTrack Website Copier/3.x [XR&CO'2014], Sun, 14 May 2017 18:08:39 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8" /><!-- /Added by HTTrack -->
<head>
<link rel="stylesheet" href="../pub/System/HeadlinesPlugin/style.css" type="text/css" media="all" />
<title> MUSR :: MusrFitSetup</title>
@ -14,13 +14,13 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<link rel="icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="shortcut icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/MusrFitSetup?t=1481904043" type="application/x-wiki" title="edit MusrFitSetup" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/MusrFitSetup?t=1494785297" type="application/x-wiki" title="edit MusrFitSetup" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<base /><!--[if IE]></base><![endif]--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@ -104,12 +104,12 @@
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
<!--JQUERYPLUGIN::METADATA-->
<!--JQUERYPLUGIN::CHILI-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiForm-->
<!--JavascriptFiles/foswikiPref-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::COMMENT-->
<!--PatternSkin/pattern--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
@ -187,7 +187,7 @@ Additionally, <span class='foswikiRedFG'>only if</span> <code>musrfit</code> sho
$ <a href="http://www.hdfgroup.org/products/hdf4/">HDF4</a>: A library and multi-object file format for storing and managing data.
$ <a href="http://www.hdfgroup.org/HDF5/">HDF5</a>: A data model, library, and file format for storing and managing data.
$ <a href="http://www.minixml.org/">minixml</a>: A small <code>XML</code> library that can be used to read and write <code>XML</code> and <code>XML</code> -like data files. <em>Required version &#8805; 2.2</em>
$ <a href="http://www.nexusformat.org/">NeXus</a>: A common data format for neutron, x-ray, and muon science.
$ <a href="http://www.nexusformat.org/">NeXus</a>: A common data format for neutron, x-ray, and muon science. <em>Required version &#8805; 4.4</em>
<p></p>
If optionally the editor and graphical user interface <code><a href="MusrGui.html">musrgui</a></code> / <code><a href="MusrGui.html">musredit</a></code> is going to be installed there is one further requirement:
$ <a href="http://qt.nokia.com/">Qt</a>: A cross-platform application and user interface framework. <em>Required version &#8805; 3.3 &#38; &#8810; 4.0 (<code>musrgui</code>) <strong>OR</strong> &#8805; 4.6 (<code>musredit</code>)</em>
@ -198,7 +198,7 @@ Each of the following sections focusing on the installation of <code>musrfit</co
Before the further installation will be described, please note the following restrictions: <dl>
<dt> GNU/Linux </dt><dd> No serious problems are known at the moment.
</dd> <dt> MS Windows </dt><dd> The setup of <code>musrfit</code> (including the requirements) using <code>Visual C++</code> has not been tested. If anybody likes to do this: Just go ahead and have fun! However, not very much assistance can be expected, although it would be an interesting experiment.
</dd> <dt> Mac OS X </dt><dd> On <code>10.6 Snow Leopard</code> <code>Qt3</code> for Mac is not supported any more since this was based on a 32-bit only API. <code>Snow Leopard</code> -users are advised to use the <code>Qt4</code> based <code>musredit</code> or to rely on the standard <code>Qt3</code> version for <code>X11</code> in order to run <code>musrgui</code>. On newer Mac OS X versions (&gt;= 10.8) you should use the <code>Qt4</code> base <code>musredit</code> only.
</dd> <dt> Mac OS X </dt><dd> On <code>10.6 Snow Leopard</code> <code>Qt3</code> for Mac is not supported any more since this was based on a 32-bit only API. <code>Snow Leopard</code> -users are advised to use the <code>Qt4</code> based <code>musredit</code> or to rely on the standard <code>Qt3</code> version for <code>X11</code> in order to run <code>musrgui</code>. On newer Mac OS X versions (&gt;= 10.8) you should use the <code>Qt4</code> or better, if available, <code>Qt5</code> base <code>musredit</code> only.
</dd></dl>
<p></p>
<h1 id="A_3_GNU_47Linux"> 3 GNU/Linux </h1>
@ -206,14 +206,33 @@ Before the further installation will be described, please note the following res
<h3 id="A_3.1.1_Everything_but_61_61ROOT_61_61_and_61_61NeXus_61_61"> 3.1.1 Everything but <code><b>ROOT</b></code> and <code><b>NeXus</b></code> </h3>
Depending on the GNU/Linux distribution chosen, the above mentioned software&mdash;except the <code>ROOT</code> system and the <code>NeXus</code> library&mdash;should be available from the distributor and could be easily installed in the form of binary packages. If done in this way there should be taken care of installing <strong>both</strong>, the libraries and the header (dev, devel) files.<br>
On a <a href="https://www.scientificlinux.org/">Scientific Linux</a> (<a href="http://www.redhat.com/">Red Hat</a>, other RPM-package base Linux distributions) system the following command executed as superuser from the shell will do the trick (never type the '$' it is the shell prompt of your system):
<p></p>
For <strong>Qt4</strong>:
<pre class="bash">
&#36; yum install git boost-devel gsl-devel fftw-devel libxml2-devel qt-devel qtwebkit-devel
&#36; yum install git cmake boost-devel gsl-devel fftw-devel libxml2-devel qt-devel qtwebkit-devel
</pre>
<p></p>
For <strong>Qt5</strong>:
<pre class="bash">
&#36; yum install epel-release
&#36; yum install git cmake boost-devel gsl-devel fftw-devel libxml2-devel qt5-qtbase-devel qt5-qtsvg-devel qt5-qtwebkit-devel
</pre>
<p></p>
Depending on your distribution <strong>Qt4</strong> is still the default but is likely to be replaced by <strong>Qt5</strong> in the very near future.
<p></p>
When dealing with a distribution that uses the dpkg/apt package manager like <a href="http://www.debian.org/">Debian</a> or <a href="http://www.ubuntu.com/">Ubuntu</a> the installation would look like:
<p></p>
For <strong>Qt4</strong>:
<pre class="bash">
&#36; apt-get install git libboost-dev libgsl0-dev libfftw3-dev libxml2-dev libqt4-dev libqtwebkit-dev
&#36; apt-get install git cmake libboost-dev libgsl0-dev libfftw3-dev libxml2-dev libqt4-dev libqtwebkit-dev
</pre>
Everyone should know best himself which is the way to install distribution software on the chosen distribution <img class='smily' src='../pub/Main/SmiliesPluginPSI_/wink.gif' alt='wink' title='wink' />
<p></p>
For <strong>Qt5</strong>:
<pre class="bash">
&#36; apt-get install git cmake libboost-dev libgsl0-dev libfftw3-dev libxml2-dev qt5-default qtbase5-dev libqt5svg5-dev libqt5webkit5-dev
</pre>
<p></p>
Everyone should know best himself which is the way to install distribution software on the chosen distribution <img class='smily' src='../pub/Main/SmiliesPluginPSI/wink.gif' alt='wink' title='wink' />
<p></p>
In case the distribution does not include the required software it has to be compiled from the source files which normally means to download the source code from the corresponding website, to unpack the source tree and call the following from the shell:
<pre class="bash">
@ -249,9 +268,9 @@ A brief instruction how to get <code>NeXus</code> compiled from source:
&#36; sudo make install
</pre>
<h3 id="A_3.1.3_61_61ROOT_61_61"> 3.1.3 <code><b>ROOT</b></code> </h3>
<strong>Currently only ROOT 5.34/xx is support! Do NOT try to use ROOT 6.xx/yy yet!</strong>
ROOT 5.34/xx is supported as legacy version only! <strong>The default now will be ROOT 6.xx/yy!</strong>
<p></p>
The <code>ROOT</code> system may or may not be part of the GNU/Linux distribution. Some distributions are packing <code>ROOT</code> in a manner incompatible with the way it is needed for <code>musrfit</code>. <strong>Therefore we advise to install <code>ROOT</code> from source</strong>. Before installing <code>ROOT</code> from source you will need to install some additional header packages.
The <code>ROOT</code> system may or may not be part of the GNU/Linux distribution. Some distributions are packing <code>ROOT</code> in a manner incompatible with the way it is needed for <code>musrfit</code>, though the situation is improving. If you are experienced enough you can try the packed ROOT version. Often ROOT is split in many sub-packages. Install the necessary ones (guess from the description below). <strong>One Warning</strong>: if the ROOT packages are upgraded after a <code>yum update</code> (<code>apt-get update; apt-get upgrade</code>) you might need to recompile <code>musrfit</code>. If you are not sure about all this: <strong>install <code>ROOT</code> from source</strong>. Before installing <code>ROOT</code> from source you will need to install some additional header packages.
<p></p>
For RPM based systems (RedHat, Fedora, etc) this will likely to be <strong>libX11-devel</strong>, <strong>libXft-devel</strong>, <strong>libXpm-devel</strong>, and <strong>libXext-devel</strong>:
<pre class="bash">
@ -263,7 +282,7 @@ For a dpkg/apt based system (Debian, Ubuntu, etc) this will likely to be <strong
&#36; apt-get install libX11-dev libxft-dev libxpm-dev libxext-dev
</pre>
<p></p>
Also make sure that you have installed all required packages listed under <a class="foswikiCurrentTopicLink" href="#ReqSw">Requested Software</a> (e.g. fftw, gsl, etc).
Also make sure that you have installed all required packages listed under <a class="foswikiCurrentTopicLink" href="#ReqSw">Required Software</a> (e.g. fftw, gsl, etc).
<p></p>
For the following it is assumed that <code>ROOT</code> shall be installed under <code>$HOME/Apps</code>. If you want to install it somewhere else, just systematically replace the related terms of the following description. For the following list of commands the '$' will be given, the command prompt. Do <strong>not</strong> enter it! Also some comments will be added starting with a '#' which can be omitted. They are only there to explain what is going on.
<pre class="bash">
@ -274,24 +293,28 @@ For the following it is assumed that <code>ROOT</code> shall be installed under
&#36; git clone http://root.cern.ch/git/root.git
&#36; cd root
&#36; git tag -l
&#36; # git tag -l will list all available tags. In the next command choose the tag v5-34-xx
&#36; # where xx is the highest listed number, e.g. v5-34-32
&#36; git checkout -b v5-34-32 v5-34-32
&#36; # git tag -l will list all available tags. In the next command choose the tag v6-08-04 or the latest official release number
&#36; git checkout -b v6-08-04 v6-08-04
&#36; # now ROOT is ready to be configured. Below you will find the minimal ROOT configuration needed.
&#36; ./configure --gminimal --enable-asimage --enable-mathmore --enable-minuit2 --enable-xml
&#36; # since we are using cmake build now, first we will need to create the build directory.
&#36; mkdir root&#95;build
&#36; cd root&#95;build
&#36; cmake ../ -Dgminimal&#61;ON -Dasimage&#61;ON -Dmathmore&#61;On -Dminuit2&#61;ON -Dxml&#61;ON -DCMAKE&#95;INSTALL&#95;PREFIX&#61;../root&#95;exec
&#36; # next will be the make. If running on a multicore CPU you can speed up tremendously by calling
&#36; # make with the option -j &#60;number&#62;, where &#60;number&#62; is the number of threads which you want to give,
&#36; # e.g. make -j8
&#36; make
&#36; # as a last step of the ROOT build process we need to install it
&#36; make install
</pre>
<p></p>
What is still missing is that the system should be told where to find the <code>ROOT</code> installation, therefore the following is suggested: <ul>
<li> As superuser create a file <strong>/etc/ld.so.conf.d/cern-root.conf</strong> where the path to the <code>lib</code> directory of <code>ROOT</code> is added and call <strong>/sbin/ldconfig</strong> afterwards. In the example mentioned above one way of doing this is (<strong>&lt;home&gt;</strong> has to be the path to your home, e.g. /home/luke_skywalker): <pre class="bash">
&#36; echo &#34;&#60;home&#62;/Apps/root/lib&#34; &#62;&#62; /etc/ld.so.conf.d/cern-root.conf
&#36; echo &#34;&#60;home&#62;/Apps/root/root&#95;exec/lib&#34; &#62;&#62; /etc/ld.so.conf.d/cern-root.conf
&#36; /sbin/ldconfig
</pre>
</li> <li> <span class='foswikiRedFG'>Additionally</span>, as normal user one should append the following lines to the <strong>~/.bashrc</strong> and/or <strong>~/.bash_profile</strong> (<strong>~./profile</strong> on Debian like systems, and then either restart the shell or call the same commands once more from the shell) in order to change some path-setting environment variables: <pre class="bash">
&#36; export ROOTSYS&#61;&#36;HOME/Apps/root
&#36; export ROOTSYS&#61;&#36;HOME/Apps/root/root&#95;exec
&#36; export PATH&#61;&#36;ROOTSYS/bin:&#36;PATH
</pre>
</li></ul>
@ -299,6 +322,7 @@ What is still missing is that the system should be told where to find the <code>
If an update of <code>ROOT</code> is needed, simple do the following:<pre class="bash">
&#36; cd &#36;HOME/Apps/root
&#36; git pull
&#36; cd root&#95;build
&#36; make
</pre>
<p></p>
@ -308,17 +332,23 @@ When all required software has been set up it can be proceeded with the <code>mu
<pre class="bash">
&#36; cd &#36;HOME/Apps
&#36; git clone https://bitbucket.org/muonspin/musrfit.git
&#36; # Only if legacy ROOT 5.xx.yy is used include the next line
&#36; cd musrfit; git checkout root5
</pre>
or
<pre class="bash">
&#36; cd &#36;HOME/Apps
&#36; git clone git://gitlab.psi.ch/nemu/musrfit.git
&#36; # Only if legacy ROOT 5.xx.yy is used include the next line
&#36; cd musrfit; git checkout root5
</pre>
<p></p>
<strong>Note:</strong> musrfit has moved from svn to git. In case you still have an <em>old</em> svn version of musrfit, it is advised to remove it first. For svn users: for a smooth transition from svn to git, please check the following link:
<strong>Note 1:</strong> <code>musrfit</code> has moved from svn to git. In case you still have an <em>old</em> svn version of musrfit, it is advised to remove it first. For svn users: for a smooth transition from svn to git, please check the following link:
<a href="http://www.git-tower.com/blog/git-for-subversion-users-cheat-sheet/">Git for Subversion Users - A Cheat Sheet</a>.
<p></p>
If a local repository clone is already present, one can update it using:
<strong>Note 2:</strong> after cloning the <code>musrfit</code> repo you will automatically be on the root6 branch. If you want to get legacy ROOT 5.34.xx support, you will needed to switch branches first.
<p></p>
If a local repository clone is already present (it needs to be newer than Dec. 2016), one can update it using:
<pre class="bash">
&#36; cd &#36;HOME/Apps/musrfit
&#36; git pull
@ -341,6 +371,7 @@ After the source-code extraction the <strong>autogen.sh</strong> script is calle
</dd> <dt> --with-nexus </dt><dd> Set the prefix of the <code>NeXus</code> installation, e.g. /usr/local (<em>only useful in conjunction with the <code>NeXus</code> support</em>)
</dd> <dt> --with-qt3 </dt><dd> Set the prefix of the <code>Qt3</code> installation, e.g. /usr/lib/qt-3.3 (<em>only useful in conjunction with building <code>musrgui</code></em>)
</dd> <dt> --with-qt4 </dt><dd> Set the prefix of the <code>Qt4</code> installation, e.g. /usr/lib/qt47 (<em>only useful in conjunction with building <code>musredit</code></em>)
</dd> <dt> --with-qt5 </dt><dd> Set the prefix of the <code>Qt5</code> installation, e.g. /usr/lib64 (<em>only useful in conjunction with building <code>musredit</code></em>)
</dd> <dt> --enable-NeXus </dt><dd> Enable the support of <code>NeXus</code> data files (<em>requires the <code>HDF4</code>, <code>HDF5</code> and <code>NeXus</code> libraries to be installed</em>).
</dd> <dt> --disable-editor </dt><dd> Disable the integrated building of <code>musredit</code>/<code>musrgui</code>.
</dd> <dt> --disable-omp </dt><dd> Switches off the <a href="http://en.wikipedia.org/wiki/OpenMP">OpenMP</a> features of <code>musrfit</code> (parallelization of the &chi;<sup>2</sup> calculation when compiled with GCC &ge; 4.2)
@ -404,7 +435,10 @@ Notes
<h1 id="A_4_MS_Windows"> 4 MS Windows </h1>
<span class='foswikiRedFG'> The description here is only for the very brave ones. It hasn't been tested for quite a while and therefore gives you rather a flavour of what needs to be done rather than a real instruction how to setup <code>musrfit</code>. If you just need <code>musrfit</code> to work on a MS Windows platform, it is recommended to install it via a linux virtual machine!</span>
<p></p>
Under Windows a native installation is not supported but there is the possibility to run <code>musrfit</code> through <a href="http://www.cygwin.com/">Cygwin</a> which has the great advantage that one gains additionally various nice <code>UNIX</code> tools also for other purposes <img class='smily' src='../pub/Main/SmiliesPluginPSI_/wink.gif' alt='wink' title='wink' /> <br>
<span class='foswikiBlueFG'> For adventurous guys using Windows 10, there is the possibility to activate the built in Ubuntu bash-shell. It allows to install <code>musrfit</code> as described in the Linux section.
</span>
<p></p>
Under Windows a native installation is not supported but there is the possibility to run <code>musrfit</code> through <a href="http://www.cygwin.com/">Cygwin</a> which has the great advantage that one gains additionally various nice <code>UNIX</code> tools also for other purposes <img class='smily' src='../pub/Main/SmiliesPluginPSI/wink.gif' alt='wink' title='wink' /> <br>
<span class='foswikiRedFG'>Please also be aware of the fact that the X server which is going to be installed with Cygwin has to be started (e.g. by selecting it from the "Programs" folder) before any graphical application (<code>musrview</code>, <code>musrgui</code>, etc.) is run</span>.
<p></p>
<span class='foswikiPinkFG'>One more advice: Please never try to install either <code>ROOT</code> or <code>musrfit</code> from or to a directory containing spaces in the absolute path or in case you do, do not wonder if some errors occur!<br>
@ -528,6 +562,7 @@ After the source-code extraction the <strong>autogen.sh</strong> script is calle
</dd> <dt> --with-nexus </dt><dd> Set the prefix of the <code>NeXus</code> installation, e.g. /usr/local (<em>only useful in conjunction with the <code>NeXus</code> support</em>)
</dd> <dt> --with-qt3 </dt><dd> Set the prefix of the <code>Qt3</code> installation, e.g. /usr/lib/qt-3.3 (<em>only useful in conjunction with building <code>musrgui</code></em>)
</dd> <dt> --with-qt4 </dt><dd> Set the prefix of the <code>Qt4</code> installation, e.g. /usr/lib/qt47 (<em>only useful in conjunction with building <code>musredit</code></em>)
</dd> <dt> --with-qt5 </dt><dd> Set the prefix of the <code>Qt5</code> installation, e.g. /usr/lib/qt56 (<em>only useful in conjunction with building <code>musredit</code></em>)
</dd> <dt> --enable-NeXus </dt><dd> Enable the support of <code>NeXus</code> data files (<em>requires the <code>HDF4</code>, <code>HDF5</code> and <code>NeXus</code> libraries to be installed</em>).
</dd> <dt> --disable-editor </dt><dd> Disable the integrated building of <code>musredit</code>/<code>musrgui</code>.
</dd> <dt> --disable-omp </dt><dd> Switches off the <a href="http://en.wikipedia.org/wiki/OpenMP">OpenMP</a> features of <code>musrfit</code> (parallelization of the &chi;<sup>2</sup> calculation when compiled with GCC &ge; 4.2)
@ -636,23 +671,23 @@ With <code><b>qt4-mac</b></code>, <code>musredit</code> will be installed. If it
<p></p>
<span class='foswikiRedFG'>Only if</span> <code>musrfit</code> should support reading data files in the <code>NeXus</code> format the further <a class="foswikiCurrentTopicLink" href="#ReqSwNeXus">required</a> packages are set up:
<pre class="bash">
&#36; sudo port -v install jpeg6b hdf4 hdf5
&#36; sudo port -v install hdf4 hdf5
</pre>
Unfortunately, the <code>minixml</code> and <code>NeXus</code> libraries have to be compiled and installed directly from the source code. Given the respective version numbers of <strong>2.9</strong> and <strong>4.4.2</strong> (which are subject to change with time, <strong>Only <code><b>NeXus</b></code> Version &gt;= 4.4 is support!</strong>) this can be achieved for example by:
<pre class="bash">
&#36; cd
&#36; curl www.msweet.org/files/project3/mxml-2.9.tar.gz -G &#124; tar xz
&#36; cd mxml-2.9
&#36; # get and instal Mini-XML
&#36; cd &#36;HOME/Applications
&#36; git clone https://github.com/michaelrsweet/mxml.git
&#36; cd mxml
&#36; ./configure --prefix&#61;/usr/local
&#36; make
&#36; sudo make install
&#36; cd &#36;HOME/Downloads
&#36; # create a directory for the NeXus source code
&#36; mkdir nexus
&#36; cd nexus
&#36; # get and install NeXus
&#36; cd &#36;HOME/Applications
&#36; # get the source code from the master repository
&#36; git clone https://github.com/nexusformat/code.git
&#36; git clone https://github.com/nexusformat/code.git nexus/code
&#36; # next we will build NeXus out-of-source
&#36; cd nexus
&#36; mkdir build
&#36; cd build
&#36; cmake -DENABLE&#95;HDF5&#61;1 -DENABLE&#95;HDF4&#61;1 -DENABLE&#95;MXML&#61;1 ../code
@ -660,29 +695,33 @@ Unfortunately, the <code>minixml</code> and <code>NeXus</code> libraries have to
&#36; sudo make install
</pre>
<h3 id="A_5.1.3_61_61ROOT_61_61"> 5.1.3 <code><b>ROOT</b></code> </h3>
ROOT 5.34/xx is supported as legacy version only! <strong>The default now will be ROOT 6.xx/yy!</strong>
<p></p>
The best way to get <code>ROOT</code> exactly the way needed for <code>musrfit</code> is to install it from source. Before describing it, please make sure that you have installed all required packages listed under <a class="foswikiCurrentTopicLink" href="#ReqSw">Requested Software</a> (e.g. fftw, gsl, etc).
<p></p>
For the following it is assumed that <code>ROOT</code> shall be installed under <code>$HOME/Apps</code>. If you want to install it somewhere else, just systematically replace the related terms of the following description. For the following list of commands the '$' will be given, the command prompt. Do <strong>not</strong> enter it! Also some comments will be added starting with a '#' which can be omitted. They are only there to explain what is going on.
For the following it is assumed that <code>ROOT</code> shall be installed under <code>$HOME/Applications</code>. If you want to install it somewhere else, just systematically replace the related terms of the following description. For the following list of commands the '$' will be given, the command prompt. Do <strong>not</strong> enter it! Also some comments will be added starting with a '#' which can be omitted. They are only there to explain what is going on.
<pre class="bash">
&#36; cd &#36;HOME
&#36; # creat the Apps directory if not already present
&#36; mkdir Apps
&#36; cd Apps
&#36; cd &#36;HOME/Applications
&#36; git clone http://root.cern.ch/git/root.git
&#36; cd root
&#36; git tag -l
&#36; # git tag -l will list all available tags. In the next command choose the tag v5-34-xx
&#36; # where xx is the highest listed number, e.g. v5-34-32
&#36; git checkout -b v5-34-32 v5-34-32
&#36; # git tag -l will list all available tags. In the next command choose the tag v6-08-xx
&#36; # where xx is the highest listed number, e.g. v6-08-06
&#36; git checkout -b v6-08-06 v6-08-06
&#36; # now ROOT is ready to be configured. Below you will find the minimal ROOT configuration needed.
&#36; ./configure --gminimal --enable-asimage --enable-mathmore --enable-minuit2 --enable-xml
&#36; # We will use the cmake out-of-source approach here.
&#36; mkdir root&#95;build
&#36; cd root&#95;build
&#36; cmake ../ -Dgminimal&#61;ON -Dasimage&#61;ON -Dmathmore&#61;ON -Dminuit2&#61;ON -Dxml&#61;ON -DCMAKE&#95;INSTALL&#95;PREFIX&#61;&#36;HOME/Applications/root/root&#95;exec
&#36; # next will be the make. If running on a multicore CPU you can speed up tremendously by calling
&#36; # make with the option -j &#60;number&#62;, where &#60;number&#62; is the number of threads which you want to give,
&#36; # e.g. make -j8
&#36; make
&#36; # make will take quite a while
&#36; make install
</pre>
<p></p>
For further details see <a href="http://root.cern.ch/drupal/content/installing-root-source">Installing ROOT from Source</a>.
For further details see <a href="https://root.cern.ch/building-root">Installing ROOT from Source</a>.
<p></p>
Since Apple in its wisdom decided that programs started from a shell are treated differently than apps if it is coming to system variables, we need to work harder compared to a Linux system.
<p></p>
@ -695,11 +734,11 @@ In order to finalize the <code>ROOT</code> installation and to prepare already t
&#60;plist version&#61;&#34;1.0&#34;&#62;
&#60;dict&#62;
&#60;key&#62;MUSRFITPATH&#60;/key&#62;
&#60;string&#62;&#36;HOME/Apps/root/bin&#60;/string&#62; (where to find the musrfit executables)
&#60;string&#62;&#36;HOME/Applications/root/root&#95;exec/bin&#60;/string&#62; (where to find the musrfit executables)
&#60;key&#62;QTDIR&#60;/key&#62;
&#60;string&#62;/opt/local/lib/qt3mac&#60;/string&#62; (where to find Qt3 (for musrgui) or Qt4 (for musredit))
&#60;key&#62;ROOTSYS&#60;/key&#62;
&#60;string&#62;&#36;HOME/Apps/root&#60;/string&#62; (where to find the ROOT system)
&#60;string&#62;&#36;HOME/Applications/root/root&#95;exec&#60;/string&#62; (where to find the ROOT system)
&#60;/dict&#62;
&#60;/plist&#62;
</pre>
@ -708,7 +747,7 @@ In order to finalize the <code>ROOT</code> installation and to prepare already t
<p></p>
One needs to add some system variables in <strong>~/.profile</strong>:
<pre class="bash">
export ROOTSYS&#61;&#36;HOME/Apps/root
export ROOTSYS&#61;&#36;HOME/Applications/root/root&#95;exec
launchctl setenv ROOTSYS &#36;ROOTSYS
export MUSRFITPATH&#61;&#36;ROOTSYS/bin
launchctl setenv MUSRFITPATH &#36;MUSRFITPATH
@ -761,16 +800,21 @@ where <strong>x_yy_z</strong> has to be substituted by the correct version numbe
<p></p>
Unfortunately, the <code>minixml</code> and <code>NeXus</code> libraries have to be compiled and installed directly from the source code. Given the respective version numbers of <strong>2.9</strong> and <strong>4.3.2</strong> (which are subject to change with time) this can be achieved for example by:
<pre class="bash">
&#36; cd
&#36; curl www.msweet.org/files/project3/mxml-2.9.tar.gz -G &#124; tar xz
&#36; cd mxml-2.9
&#36; # first build Mini-XML
&#36; cd &#36;HOME/Applications
&#36; git clone https://github.com/michaelrsweet/mxml.git
&#36; cd mxml
&#36; ./configure --prefix&#61;/usr/local
&#36; make
&#36; sudo make install
&#36; # second build NeXus
&#36; cd ..
&#36; curl http://download.nexusformat.org/kits/nexus-4.3.2-20140413svn1919.tar.gz -G &#124; tar xz
&#36; cd nexus-4.3.2-20140413svn1919
&#36; ./configure --prefix&#61;/usr/local
&#36; git clone https://github.com/nexusformat/code.git nexus/code
&#36; cd nexus
&#36; # build NeXus out-of-source
&#36; mkdir build
&#36; cd build
&#36; cmake ../code -DENABLE&#95;HDF4&#61;1 -DENABLE&#95;HDF5&#61;1 -DENABLE&#95;MXML&#61;1
&#36; make
&#36; sudo make install
</pre>
@ -778,24 +822,25 @@ Unfortunately, the <code>minixml</code> and <code>NeXus</code> libraries have to
<h3 id="A_5.2.3_61_61ROOT_61_61"> 5.2.3 <code><b>ROOT</b></code> </h3>
The best way to get <code>ROOT</code> exactly the way needed for <code>musrfit</code> is to install it from source. Before describing it, please make sure that you have installed all required packages listed under <a class="foswikiCurrentTopicLink" href="#ReqSw">Requested Software</a> (e.g. fftw, gsl, etc).
<p></p>
For the following it is assumed that <code>ROOT</code> shall be installed under <code>$HOME/Apps</code>. If you want to install it somewhere else, just systematically replace the related terms of the following description. For the following list of commands the '$' will be given, the command prompt. Do <strong>not</strong> enter it! Also some comments will be added starting with a '#' which can be omitted. They are only there to explain what is going on.
For the following it is assumed that <code>ROOT</code> shall be installed under <code>$HOME/Applications</code>. If you want to install it somewhere else, just systematically replace the related terms of the following description. For the following list of commands the '$' will be given, the command prompt. Do <strong>not</strong> enter it! Also some comments will be added starting with a '#' which can be omitted. They are only there to explain what is going on.
<pre class="bash">
&#36; cd &#36;HOME
&#36; # creat the Apps directory if not already present
&#36; mkdir Apps
&#36; cd Apps
&#36; cd &#36;HOME/Applications
&#36; git clone http://root.cern.ch/git/root.git
&#36; cd root
&#36; git tag -l
&#36; # git tag -l will list all available tags. In the next command choose the tag v5-34-xx
&#36; # where xx is the highest listed number, e.g. v5-34-32
&#36; git checkout -b v5-34-32 v5-34-32
&#36; # git tag -l will list all available tags. In the next command choose the tag v6-08-06
&#36; # where xx is the highest listed number, e.g. v6-08-06
&#36; git checkout -b v6-08-06 v6-08-06
&#36; # now ROOT is ready to be configured. Below you will find the minimal ROOT configuration needed.
&#36; ./configure --gminimal --enable-asimage --enable-mathmore --enable-minuit2 --enable-xml
&#36; # the out-of-source approach will be followed
&#36; mkdir root&#95;build
&#36; cd root&#95;build
&#36; cmake ../ -Dgminimal&#61;ON -Dasimage&#61;ON -Dmathmore&#61;ON -Dminuit2&#61;ON -Dxml&#61;ON -DCMAKE&#95;INSTALL&#95;PREFIX&#61;&#36;HOME/Applications/root/root&#95;exec
&#36; # next will be the make. If running on a multicore CPU you can speed up tremendously by calling
&#36; # make with the option -j &#60;number&#62;, where &#60;number&#62; is the number of threads which you want to give,
&#36; # e.g. make -j8
&#36; make
&#36; make install
</pre>
<p></p>
For further details see <a href="http://root.cern.ch/drupal/content/installing-root-source">Installing ROOT from Source</a>.
@ -811,11 +856,11 @@ In order to finalize the <code>ROOT</code> installation and to prepare already t
&#60;plist version&#61;&#34;1.0&#34;&#62;
&#60;dict&#62;
&#60;key&#62;MUSRFITPATH&#60;/key&#62;
&#60;string&#62;&#36;HOME/Apps/root/bin&#60;/string&#62; (where to find the musrfit executables)
&#60;string&#62;&#36;HOME/Applications/root/root&#95;exec/bin&#60;/string&#62; (where to find the musrfit executables)
&#60;key&#62;QTDIR&#60;/key&#62;
&#60;string&#62;/opt/local/lib/qt3mac&#60;/string&#62; (where to find Qt3 (for musrgui) or Qt4 (for musredit))
&#60;key&#62;ROOTSYS&#60;/key&#62;
&#60;string&#62;&#36;HOME/Apps/root&#60;/string&#62; (where to find the ROOT system)
&#60;string&#62;&#36;HOME/Applications/root/root&#95;exec&#60;/string&#62; (where to find the ROOT system)
&#60;/dict&#62;
&#60;/plist&#62;
</pre>
@ -824,23 +869,27 @@ In order to finalize the <code>ROOT</code> installation and to prepare already t
<p></p>
One needs to add some system variables in <strong>~/.profile</strong>:
<pre class="bash">
export ROOTSYS&#61;&#36;HOME/Apps/root
export ROOTSYS&#61;&#36;HOME/Applications/root/root&#95;exec
launchctl setenv ROOTSYS &#36;ROOTSYS
export MUSRFITPATH&#61;&#36;ROOTSYS/bin
launchctl setenv MUSRFITPATH &#36;MUSRFITPATH
export PATH&#61;&#36;ROOTSYS/bin:&#36;QTDIR/bin:&#36;PATH
</pre>
<h2 id="A_5.3_61_61musrfit_61_61"> 5.3 <code><b>musrfit</b></code> </h2>
First, the most recent source code should be downloaded. First, the most recent source code should be downloaded. The preferred way of doing so is to clone the musrfit repository via git. Assuming the code should be located in ~/Apps/musrfit this is achieved most easily calling from the terminal
First, the most recent source code should be downloaded. First, the most recent source code should be downloaded. The preferred way of doing so is to clone the musrfit repository via git. Assuming the code should be located in ~/Applications/musrfit this is achieved most easily calling from the terminal
<p></p>
<pre class="bash">
&#36; cd ~/Apps
&#36; cd ~/Applications
&#36; git clone https://bitbucket.org/muonspin/musrfit.git
&#36; # Only if legacy ROOT 5.xx.yy is used include the next line
&#36; cd musrfit; git checkout root5
</pre>
or
<pre class="bash">
&#36; cd ~/Apps
&#36; cd ~/Applications
&#36; git clone git://gitlab.psi.ch/nemu/musrfit.git
&#36; # Only if legacy ROOT 5.xx.yy is used include the next line
&#36; cd musrfit; git checkout root5
</pre>
<p></p>
<p></p>
@ -849,7 +898,7 @@ or
<p></p>
If a local repository clone is already present, one can update it using:
<pre class="bash">
&#36; cd ~/Apps/musrfit
&#36; cd ~/Applications/musrfit
&#36; git pull
</pre>
<p></p>
@ -867,6 +916,7 @@ After the source-code extraction the <strong>autogen.sh</strong> script is calle
</dd> <dt> --with-nexus </dt><dd> Set the prefix of the <code>NeXus</code> installation, e.g. /usr/local (<em>only useful in conjunction with the <code>NeXus</code> support</em>)
</dd> <dt> --with-qt3 </dt><dd> Set the prefix of the <code>Qt3</code> installation, e.g. /opt/local/lib/qt-3.3 (<em>only useful in conjunction with building <code>musrgui</code></em>)
</dd> <dt> --with-qt4 </dt><dd> Set the prefix of the <code>Qt4</code> installation, e.g. /opt/local/lib/qt-4.7 (<em>only useful in conjunction with building <code>musredit</code></em>)
</dd> <dt> --with-qt5 </dt><dd> Set the prefix of the <code>Qt5</code> installation, e.g. /opt/local/libexec/qt5 (<em>only useful in conjunction with building <code>musredit</code></em>)
</dd> <dt> --enable-NeXus </dt><dd> Enable the support of <code>NeXus</code> data files (<em>requires the <code>HDF4</code>, <code>HDF5</code> and <code>NeXus</code> libraries to be installed</em>).
</dd> <dt> --disable-editor </dt><dd> Disable the integrated building of <code>musredit</code>/<code>musrgui</code>.
</dd> <dt> --disable-omp </dt><dd> Switches off the <a href="http://en.wikipedia.org/wiki/OpenMP">OpenMP</a> features of <code>musrfit</code> (parallelization of the &chi;<sup>2</sup> calculation when compiled with GCC &ge; 4.2)
@ -931,7 +981,7 @@ Notes
In order to perform a quick test for finding out if the installation has been completed successfully, a few msr files together with the corresponding data files can be found in the <code>musrfit</code> source tree at <strong>doc/examples/</strong>.<br>
If <code>musrgui</code> has been installed, just open one of the <strong>test-&#42;.msr</strong> files in the editor and test the <code>musrfit</code> functionalities. Otherwise, if only the terminal should be used, as an initial test for instance the following could be done:
<pre class="bash">
&#36; cd ~/Apps/musrfit/doc/examples
&#36; cd ~/Applications/musrfit/doc/examples
&#36; musrview test-histo-ROOT-NPP.msr
</pre>
<p></p>
@ -940,7 +990,7 @@ If <code>musrgui</code> has been installed, just open one of the <strong>test-&#
<p></p>
</div>
<div class="patternInfo">This topic: MUSR<span class='foswikiSeparator'>&nbsp;&gt;&nbsp;</span><a class="foswikiCurrentWebHomeLink" href="WebHome.html">WebHome</a> &gt; <a href="MusrFit.html">MusrFit</a><span class='foswikiSeparator'>&nbsp;&gt;&nbsp;</span>MusrFitSetup <br />
Topic revision: <span class='patternRevInfo'>25 Aug 2016, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
Topic revision: <span class='patternRevInfo'>27 Mar 2017, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
</div>
</div>
</div>
@ -958,6 +1008,5 @@ Topic revision: <span class='patternRevInfo'>25 Aug 2016, <a href="https://intr
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@ -1,7 +1,7 @@
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<title> MUSR :: MusrGui</title>
@ -14,14 +14,11 @@
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<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
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<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head JQUERYPLUGIN::TWISTY' rel='stylesheet' href='../pub/System/TwistyPlugin/twisty327a.css?version=1.6.0' type='text/css' media='all' /><!--JQUERYPLUGIN::TWISTY: requires= missing ids: JavascriptFiles/foswikiPref-->
<style class='head TABLEPLUGIN_default' type="text/css" media="all">
body .foswikiTable {border-width:1px}
body .foswikiTable .tableSortIcon img {padding-left:.3em; vertical-align:text-bottom}
@ -54,8 +51,10 @@ body .foswikiTable#tableMusrGui1 th.foswikiSortedCol {background-color:#eeeeee}
body .foswikiTable#tableMusrGui1 tr.foswikiTableRowdataBg0 td {background-color:#ffffff}
body .foswikiTable#tableMusrGui1 tr.foswikiTableRowdataBg0 td.foswikiSortedCol {background-color:#f5f5f5}
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<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
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<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -143,11 +142,11 @@ body .foswikiTable#tableMusrGui1 tr.foswikiTableRowdataBg0 td.foswikiSortedCol {
<!--JavascriptFiles/foswikiForm-->
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<body class="foswikiNoJs patternViewPage patternPrintPage">
<span id="PageTop"></span><div class="foswikiPage"><div id="patternScreen">
@ -168,14 +167,23 @@ body .foswikiTable#tableMusrGui1 tr.foswikiTableRowdataBg0 td.foswikiSortedCol {
</li> <li> <a href="MusrGui.html#A_2.2_musredit_startup.xml_47_musrgui_startup.xml"> 2.2 musredit_startup.xml / musrgui_startup.xml </a>
</li></ul>
</li> <li> <a href="MusrGui.html#A_3_61_61musrfit_61_61_Features"> 3 musrfit Features </a>
</li> <li> <a href="MusrGui.html#A_4_Editor_Features"> 4 Editor Features </a>
</li> <li> <a href="MusrGui.html#A_5_Bugtracking"> 5 Bugtracking </a>
</li> <li> <a href="MusrGui.html#A_4_musrWiz"> 4 musrWiz </a> <ul>
<li> <a href="MusrGui.html#A_4.1_musrWiz_45_Introduction"> 4.1 musrWiz - Introduction </a>
</li> <li> <a href="MusrGui.html#A_4.2_musrWiz_45_Theory"> 4.2 musrWiz - Theory </a>
</li> <li> <a href="MusrGui.html#A_4.3_musrWiz_45_Functions"> 4.3 musrWiz - Functions </a>
</li> <li> <a href="MusrGui.html#A_4.4_musrWiz_45_Maps"> 4.4 musrWiz - Maps </a>
</li> <li> <a href="MusrGui.html#A_4.5_musrWiz_45_Fit_Parameters"> 4.5 musrWiz - Fit Parameters </a>
</li> <li> <a href="MusrGui.html#A_4.6_musrWiz_45_Fit_Info"> 4.6 musrWiz - Fit Info </a>
</li> <li> <a href="MusrGui.html#A_4.7_musrWiz_45_Create"> 4.7 musrWiz - Create </a>
</li></ul>
</li> <li> <a href="MusrGui.html#A_5_musrStep"> 5 musrStep </a>
</li> <li> <a href="MusrGui.html#A_6_Bugtracking"> 6 Bugtracking </a>
</li></ul>
</div>
<p></p>
<h1 id="A_1_Introduction"> 1 Introduction </h1>
<code>musredit</code> and <code>musrgui</code> are editors which also provide a graphical user interface to the programs contained in the <code><a href="MusrFit.html">musrfit</a></code> suite and are intended to help the user handle <code>musrfit</code> msr files. They are implemented in <code>C++</code> and use the <a href="http://qt.nokia.com/">Qt</a> framework. Principally, <code>musrgui</code> and <code>musredit</code> are doing the same, but are based on different Qt versions. <code>musrgui</code> 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. <code>musredit</code> is based on Qt 4.6 (or above) and this is the program which will be developed further.<br>
On this documentation page only the features related to <code>musrfit</code> are described&mdash;the basic editor functions which should be self-explanatory are not.
<code>musredit</code> and <code>musrgui</code> are editors which also provide a graphical user interface to the programs contained in the <code><a href="MusrFit.html">musrfit</a></code> suite and are intended to help the user handle <code>musrfit</code> msr files. They are implemented in <code>C++</code> and use the <a href="http://qt.nokia.com/">Qt</a> framework. Principally, <code>musrgui</code> and <code>musredit</code> are doing the same, but are based on different Qt versions. <code>musrgui</code> 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. <code>musredit</code> is based on Qt 4.6 or Qt 5.6 (or above). The Qt 5.6 version of <code>musredit</code> will be actively developed, whereas the Qt 4.x version will only get bug fixing and eventually will be droped.<br>
On this documentation page only the features related to <code>musrfit</code> are described&mdash;the basic editor functions which should be self-explanatory are not.<br>
<strong><span class='foswikiRedFG'>Before going on using <code>musrgui</code> / <code>musredit</code> it is strongly recommended to read the <a href="MusrFit.html">manual</a> of <code>musrfit</code> first!</span></strong>
<p></p>
<h1 id="A_2_Available_Executables_44_Configuration_Files_and_their_Basic_Usage"> 2 Available Executables, Configuration Files and their Basic Usage </h1>
@ -196,9 +204,16 @@ If called without any parameters an empty editor window opens.
In this file the following XML tags are allowed to define settings and might proof useful for all users of <code>musredit</code> / <code>musrgui</code>: <dl>
<dt> &lt;general&gt;&lt;/general&gt; </dt><dd> set the default paths to executables and files in this environment <dl>
<dt> &lt;exec_path&gt;PATH_TO_EXEC&lt;/exec_path&gt; </dt><dd> set the path <strong>PATH_TO_EXEC</strong> where the executables <code>musrfit</code>, <code>musrview</code>, <code>musrt0</code>, etc. can be found (inside the &lt;general&gt; environment)
</dd> <dt> &lt;default_save_path&gt;SAV_PATH&lt;/default_save_path&gt; </dt><dd> specify the path <strong>SAV_PATH</strong> where <code>musrgui</code> / <code>musredit</code> point by default when opening and saving msr files (inside the &lt;general&gt; environment)
</dd> <dt> &lt;default_save_path&gt;SAV_PATH&lt;/default_save_path&gt; </dt><dd> specify the path <strong>SAV_PATH</strong> where <code>musrgui</code> / <code>musredit</code> point by default when opening and saving msr files (inside the &lt;general&gt; environment). Default is the current directory.
</dd> <dt> &lt;msr_default_file_path&gt;MSR_DEF_PATH&lt;/msr_default_file_path&gt; </dt><dd> set the path <strong>MSR_DEF_PATH</strong> where the <a class="foswikiCurrentTopicLink" href="#MusrfitFeatures">default msr files provided by</a> <code>musrgui</code> are stored (inside the &lt;general&gt; environment)
</dd> <dt> &lt;timeout&gt;3600&lt;/timeout&gt; </dt><dd> timeout in seconds after which musrview canvas will automatically quit. A value of 0 or a negative number will keep the musrview canvas open without self-determination.
</dd> <dt> &lt;keep_minuit2_output&gt;y/n&lt;/keep_minuit2_output&gt; </dt><dd> flag indicating if the <code>MINUIT2</code> output shall be kept per msr-file ('y') or only for the current msr-file ('n').
</dd> <dt> &lt;dump_ascii&gt;y/n&lt;/dump_ascii&gt; </dt><dd> flag indicating if musrfit shall dump fit data into ascii format. See help of musrfit.
</dd> <dt> &lt;dump_root&gt;y/n&lt;/dump_root&gt; </dt><dd> flag indicating if musrfit shall dump fit data into root format. See help of musrfit.
</dd> <dt> &lt;title_from_data_file&gt;y/n&lt;/title_from_data_file&gt; </dt><dd> specify if <code>musrfit</code> should be called with the <a href="MusrFit.html#MusrFit">-t option</a> by default (inside the &lt;general&gt; environment)
</dd> <dt> &lt;chisq_pre_run_block&gt;y/n&lt;/chisq_pre_run_block&gt; </dt><dd> flag indicating if per-run chisq shall be written into the msr-output-file. $ &lt;estimate_n0&gt;y/n&lt;/estimate_n0&gt; flag indicating if for a single histogram fit N0 shall be estimated before the fit procedure starts.
</dd> <dt> &lt;musrview_show_fourier&gt;y/n&lt;/musrview_show_fourier&gt; </dt><dd> flag indicating if musrview will directly present the Fourier transform rather than the time domain data.
</dd> <dt> &lt;musrview_show_avg&gt;y/n&lt;/musrview_show_avg&gt; </dt><dd> flag indicating if musrview will directly present averaged data, typically used for Fourier power spectra.
</dd> <dt> &lt;enable_musrt0&gt;y/n&lt;/enable_musrt0&gt; </dt><dd> specify if <code><a href="MusrFit.html#MusrT0">musrt0</a></code> can be called from within <code>musrgui</code> / <code>musredit</code> (inside the &lt;general&gt; environment)
</dd></dl>
</dd> <dt> &lt;font_settings&gt;&lt;/font_settings&gt; </dt><dd> set the default font in this environment <dl>
@ -308,45 +323,167 @@ An example of the <code><b>musrgui_startup.xml</b></code> looks like:
<p></p>
<span id="MusrfitFeatures"></span>
<h1 id="A_3_61_61musrfit_61_61_Features"> 3 <code><b>musrfit</b></code> Features </h1>
The features of <code>musrfit</code> which can be accessed by the graphical front ends <code>musrgui</code> / <code>musredit</code> 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.
The features of <code>musrfit</code> which can be accessed by the graphical front ends <code>musredit</code> / (<code>musrgui</code>) 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.
<p></p>
$ <img alt="musrasym.png" src="../pub/MUSR/MusrGui/musrasym.png" /> Asymmetry Default (Alt+a): Generate a full msr file suitable for the <a href="MusrFit.html#FitTypes">fit type</a> <strong>2</strong> of <code>musrfit</code> 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 <code><b>/path-to-datadir/2007/lem07_his_8472.root</b></code> should be used and <code><b>/path-to-datadir</b></code> is on the path where <code>musrfit</code> <a href="MusrFit.html#PathToDataFiles">looks for data files</a> then the file name would be <code><b>2007/lem07_his_8472</b></code> and the file format either <strong>ROOT-NPP</strong> or <strong>ROOT-PPC</strong>.
<img alt="musrWiz-32x32.png" src="../pub/MUSR/MusrGui/musrWiz-32x32.png" /> musrWiz is a helper programs which allows to create a msr-file from scratch without too much a priori knowledge. For details see <a class="foswikiCurrentTopicLink" href="#MusrWiz">musrWiz</a>.
<p></p>
$ <img alt="musrsinglehisto.png" src="../pub/MUSR/MusrGui/musrsinglehisto.png" /> Single-Histogram Default (Alt+h): Generate a full msr file suitable for the <a href="MusrFit.html#FitTypes">fit type</a> <strong>0</strong> of <code>musrfit</code> 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 <code><b>/path-to-datadir/d2007/deltat_pta_gps_8472.bin</b></code> should be used and <code><b>/path-to-datadir</b></code> is on the path where <code>musrfit</code> <a href="MusrFit.html#PathToDataFiles">looks for data files</a> then the file name would be <code><b>d2007/deltat_pta_gps_8472</b></code> and the file format <strong>PSI-BIN</strong>.
<img alt="musrchisq-plain.png" src="../pub/MUSR/MusrGui/musrchisq-plain.png" /> Calculate Chisq (Alt+c): <pre class="bash">musrfit &#60;msr&#95;file&#62; --chisq-only</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. For further information refer to the <a href="MusrFit.html#MusrFit">manual</a> of <code>musrfit</code>.
<p></p>
$ <img alt="musrcalcchisq.png" src="../pub/MUSR/MusrGui/musrcalcchisq.png" /> Calculate Chisq (Alt+c): <pre class="bash">musrfit &#60;msr&#95;file&#62; --chisq-only</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. For further information refer to the <a href="MusrFit.html#MusrFit">manual</a> of <code>musrfit</code>.
<img alt="musrfit-plain.png" src="../pub/MUSR/MusrGui/musrfit-plain.png" /> Fit (Alt+f): <pre class="bash">musrfit &#60;msr&#95;file&#62; &#91;optional parameters&#93;</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. The optional parameters may be chosen under <a class="foswikiCurrentTopicLink" href="#MusrPrefs">Preferences</a>. For further information refer to the <a href="MusrFit.html#MusrFit">manual</a> of <code>musrfit</code>.
<p></p>
$ <img alt="musrfit.png" src="../pub/MUSR/MusrGui/musrfit.png" /> Fit (Alt+f): <pre class="bash">musrfit &#60;msr&#95;file&#62; &#91;optional parameters&#93;</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. The optional parameters may be chosen under <a class="foswikiCurrentTopicLink" href="#MusrPrefs">Preferences</a>. For further information refer to the <a href="MusrFit.html#MusrFit">manual</a> of <code>musrfit</code>.
<img alt="musrswap-plain.png" src="../pub/MUSR/MusrGui/musrswap-plain.png" /> Swap Msr &#8596; Mlog (Alt+s): Swap the msr and mlog files. E.g., for a file called <code><b>8472_zf.msr</b></code>, this is copied to <code><b>8472_zf.mlog</b></code> and vice versa.
<p></p>
$ <img alt="musrswap.png" src="../pub/MUSR/MusrGui/musrswap.png" /> Swap Msr &#8596; Mlog (Alt+s): Swap the msr and mlog files. E.g., for a file called <code><b>8472_zf.msr</b></code>, this is copied to <code><b>8472_zf.mlog</b></code> and vice versa.
<img alt="musrStep-32x32.png" src="../pub/MUSR/MusrGui/musrStep-32x32.png" /> musrStep
<p></p>
$ <img alt="musrmsr2data.png" src="../pub/MUSR/MusrGui/musrmsr2data.png" /> Msr2data (Alt+m): Opens a graphical interface to the <code>msr2data</code> program described in detail in its own <a href="Msr2Data.html#MusrGuiInterface">manual</a>.
<img alt="msr2data-plain.png" src="../pub/MUSR/MusrGui/msr2data-plain.png" /> Msr2data (Alt+m): Opens a graphical interface to the <code>msr2data</code> program described in detail in its own <a href="Msr2Data.html#MusrGuiInterface">manual</a>.
<p></p>
$ <img alt="musrview.png" src="../pub/MUSR/MusrGui/musrview.png" /> View (Alt+v): <pre class="bash">musrview &#60;msr&#95;file&#62;</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. For further information refer to the <a href="MusrFit.html#MusrView">manual</a> of <code>musrfit</code>.
<img alt="musrview-plain.png" src="../pub/MUSR/MusrGui/musrview-plain.png" /> View (Alt+v): <pre class="bash">musrview &#60;msr&#95;file&#62;</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. For further information refer to the <a href="MusrFit.html#MusrView">manual</a> of <code>musrfit</code>.
<p></p>
$ <img alt="musrt0.png" src="../pub/MUSR/MusrGui/musrt0.png" /> T0 (Alt+t): <pre class="bash">musrt0 &#60;msr&#95;file&#62;</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. For further information refer to the <a href="MusrFit.html#MusrT0">manual</a> of <code>musrfit</code>.
<img alt="musrt0-plain.png" src="../pub/MUSR/MusrGui/musrt0-plain.png" /> T0 (Alt+t): <pre class="bash">musrt0 &#60;msr&#95;file&#62;</pre> is called for the <strong>&lt;msr_file&gt;</strong> selected in the editor. For further information refer to the <a href="MusrFit.html#MusrT0">manual</a> of <code>musrfit</code>.
<p></p>
$ <img alt="musrFT.png" src="../pub/MUSR/MusrGui/musrFT.png" /> Raw Fourier: <code>musrFT &lt;with-many-options&gt;</code> is called. For a proper documentation of it, check the <a href="MusrFit.html#MusrFT">manual</a> of <code>musrFT</code>.
<img alt="musrFT-plain.png" src="../pub/MUSR/MusrGui/musrFT-plain.png" /> Raw Fourier: <code>musrFT &lt;with-many-options&gt;</code> is called. For a proper documentation of it, check the <a href="MusrFit.html#MusrFT">manual</a> of <code>musrFT</code>.
<p></p>
<span id="MusrPrefs"></span>
$ <img alt="musrprefs.png" src="../pub/MUSR/MusrGui/musrprefs.png" /> Preferences (Alt+p): Opens a window in which the optional parameters that should be passed to <code>musrfit</code> can be chosen. These options are <code><b>--keep-mn2-output</b></code>, <code><b>--dump ascii</b></code>, <code><b>--dump root</b></code>, and <code><b>--title-from-data-file</b></code>. For further information refer to the <a href="MusrFit.html#MusrFit">manual</a> of <code>musrfit</code>. Additionally, the access to <code>musrt0</code> can be enabled temporarily.
<img alt="musrprefs-plain.png" src="../pub/MUSR/MusrGui/musrprefs-plain.png" /> Preferences (Alt+p): Opens a window in which the optional parameters that should be passed to <code>musrfit</code> can be chosen. These options are <code><b>--keep-mn2-output</b></code>, <code><b>--dump ascii</b></code>, <code><b>--dump root</b></code>, and <code><b>--title-from-data-file</b></code>. For further information refer to the <a href="MusrFit.html#MusrFit">manual</a> of <code>musrfit</code>. Additionally, the access to <code>musrt0</code> can be enabled temporarily.
<p></p>
$ <img alt="musrdump.png" src="../pub/MUSR/MusrGui/musrdump.png" /> Dump Header: Opens a file dialog which allows to select a &mu;SR data file. When this file can be read, the run header info is dumped into a dialog window. Essentially this calls <code><b>dump_header</b></code> internally.
<img alt="musrdump-plain.png" src="../pub/MUSR/MusrGui/musrdump-plain.png" /> Dump Header: Opens a file dialog which allows to select a &mu;SR data file. When this file can be read, the run header info is dumped into a dialog window. Essentially this calls <code><b>dump_header</b></code> internally.
<p></p>
<span id="EditorFeatures"></span>
<h1 id="A_4_Editor_Features"> 4 Editor Features </h1>
Besides the functions described above and which are mostly interfacing <code>musrfit/msr2data</code> the editors of <code>musrgui</code> / <code>musredit</code> offer various functions for manipulating especially <code>musrfit</code> msr files:
<img class='imagePlain imagePlain_right ' src='../pub/MUSR/MusrGui/igp_4e5811420d6b5b31cac70e88b8477a14_musrgui-editor-v0.png' alt='musrgui editor features' title='musrgui-editor-v0.png' width='415' height='566' style='' /> <ul>
<li> 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 <a href="MusrFit.html#TheoryTable">correct syntax</a>. 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 <a href="MusrFit.html#DescriptionOfTheMsrFileFormat">manual</a> of <code>musrfit</code> can be supplied. <span class='foswikiBlueFG'>This feature is available only in <code>musrgui</code>. In <code>musredit</code> the respective functions can be accessed through the <em>Edit</em> menu.</span>
</li> <li> In order to comment or uncomment lines in a msr file select the according lines and apply <strong>Edit &rarr; (Un)Comment</strong> or use the keyboard shortcut <strong>Ctrl+(Shift)+m</strong>.
</li></ul>
<span id="MusrWiz"></span>
<h1 id="A_4_musrWiz"> 4 musrWiz </h1>
<p></p>
musrWiz is a helper program which allows to easily create the necessary msr-file needed as the input for musrfit. musrWiz is still in it's early stage; not all options are already implemented and here and there you will likely find some bugs.
From musredit it can be accessed via the MusrFit menu or the wand
<p></p>
<img alt="musredit-main_0.png" src="../pub/MUSR/MusrGui/musredit-main_0.png" />
<p></p>
The musrWiz GUI is organized in a couple of different dialogues which some information needs to be provided by the user. In the following these different dialogues will be discussed briefly.
<p></p>
<span id="MusrWizIntroduction"></span>
<h2 id="A_4.1_musrWiz_45_Introduction"> 4.1 musrWiz - Introduction </h2>
<p></p>
The introduction dialogue
<p></p>
<img alt="musrWiz-Introduction_0.png" src="../pub/MUSR/MusrGui/musrWiz-Introduction_0.png" />
<p></p> <ol>
<li> an explicit msr-file name can be provided here. More often the msr-file name is generated out of the run number.
</li> <li> year of the run data.
</li> <li> run number. If no explicit msr-file is provided, the run number together with fit type and type of measurement will be used to generate the msr-file name.
</li> <li> from the pull down menu the institute (for which a necessary xml-file is provided) has to be choosen.
</li> <li> from the pull down menu the the instrument can be chosen.
</li> <li> the fit type has to be chosen. Possible fit types are: <code>Single Histo</code> / <code>Single Histo RRF</code> / <code>Asymmetry</code> / <code>Asymmetry RRF</code> / <code>Mu Minus</code> / <code>None muSR</code>
</li> <li> type of measurement is essentially needed for the grouping of the detectors. Possible are: <code>ZF</code> for zero field measurements / <code>TF</code> for transverse field measurements / <code>LF</code> for longitudinal field measurements. Depending on the choice and instrument some additional question might be asked, e.g. which magnet has been used.
</li> <li> T0's: this last menu defines from where to get the t0's. The options are: ' <code>from data file</code> ', i.e. the t0 are assumed to be correctly set in the provided data file ' <code>call musrT0</code> ', i.e. after the msr-file is generated, musrt0 will be called which allows the user to find the proper t0 from the prompt peak ' <code>enter here</code> ' will provide a pop-up menu where the t0 parameter can be given explicitly.
</li></ol>
<p></p>
If all this information have been provided ' <code>Next&gt;</code> ' will lead you the the theory dialogue.
<p></p>
<span id="MusrWizTheory"></span>
<h2 id="A_4.2_musrWiz_45_Theory"> 4.2 musrWiz - Theory </h2>
<p></p>
The theory dialogue is used to define the fitting function. There are two ways of using it: <ol>
<li> choose a template theory function. This option has the advantage that the next steps will be very easy because within the template almost everything is already pre-defined. The disadvantage is that you are not free in setting up your theory function as you would like to have.
</li> <li> freely write your theory function. The advantage here is that you can customize your theory function as you would like to have it. This will come at the cost that you also will need to define maps, functions, etc. yourself. The good thing though is that at the very end you can save this as a template for future re-use.
</li></ol>
<p></p>
First the template path will be described. The theory dialogue looks like this
<p></p>
<img alt="musrWiz-Theory-1_0.png" src="../pub/MUSR/MusrGui/musrWiz-Theory-1_0.png" />
<p></p> <ol>
<li> This is a text edit field were you can enter the theory fit function as you would like to have it.
</li> <li> The ' <code>Clear All</code> ' button will clear whatever you entered in the text field above
</li> <li> This pull-down menu allows to select a theory function which will be added to the text field above by pressing the ' <code>Add</code> ' button. Pre defined theory function starting with a 'T' are templates rather than only theory function strings.
</li> <li> The ' <code>Add</code> ' button is used to add the chosen theory function / template from the pull-down menu to its left.
</li> <li> The ' <code>Check</code> ' button is used to make a syntactical check of whatever is written in the text edit field.
</li></ol>
<p></p>
Let's assume you would like to chose a template of an exponentially damped cosine (likely a TF measurement with dilute nuclear damping), do the following: Select ' <code>T: 1 [exp x cos](TF)</code> ' from the pull-down menu and than press the ' <code>Add</code> ' button. You will see that the theory fit function will be entered in the text edit field. After this just press the ' <code>Next&gt;</code> ' button which will bring you to <code>Functions</code> dialogue.
<p></p>
<span id="MusrWizFunctions"></span>
<h2 id="A_4.3_musrWiz_45_Functions"> 4.3 musrWiz - Functions </h2>
<p></p>
In the <code>Functions</code> dialogue all the necessary functions can be entered. A function operates <strong>only</strong> on fitting parameters. This is different to the theory function which operates on the fitting parameters <strong>and</strong> the time.
The dialogue looks like this
<p></p>
<img alt="musrWiz-Functions-1_0.png" src="../pub/MUSR/MusrGui/musrWiz-Functions-1_0.png" />
<p></p> <ol>
<li> a text edit field in which the various needed functions can be entered. In case a template theory is used, the appropriate function should be shown here and <strong>no</strong> editing will be needed here.
</li> <li> pressing ' <code>Show Theory</code> ' button will pop-up a little window showing the previously entered theory function. This is handy when defining its own theory, i.e. not working with a template.
</li></ol>
<p></p>
<img alt="musrWiz-Functions-2_0.png" src="../pub/MUSR/MusrGui/musrWiz-Functions-2_0.png" />
<p></p>
<span id="MusrWizMaps"></span>
<h2 id="A_4.4_musrWiz_45_Maps"> 4.4 musrWiz - Maps </h2>
<p></p>
<img alt="musrWiz-Maps-1_0.png" src="../pub/MUSR/MusrGui/musrWiz-Maps-1_0.png" />
<p></p>
The map dialogue will list the maps previously used in the theory and functions blocks/dialogues before. Again, if a template is used, nothing needs to be entered here.
<p></p> <ol>
<li> The ' <code>Show Theory</code> ' button allows to show the currently defined theory and the functions.
</li></ol>
<p></p>
<span id="MusrWizFitParameters"></span>
<h2 id="A_4.5_musrWiz_45_Fit_Parameters"> 4.5 musrWiz - Fit Parameters </h2>
<p></p>
<img alt="musrWiz-FitParameters-1_0.png" src="../pub/MUSR/MusrGui/musrWiz-FitParameters-1_0.png" />
<p></p> <ol>
<li> The ' <code>Show Theory</code> ' button allows to show the currently defined theory and the functions.
</li></ol>
<p></p>
In the fit parameter dialogue all parameter names can be defined. Furthermore the starting values for the parameters, the step (initial step size for the parameter fit), and any boundaries can be defined here.
<p></p>
<span id="MusrWizFitInfo"></span>
<h2 id="A_4.6_musrWiz_45_Fit_Info"> 4.6 musrWiz - Fit Info </h2>
<p></p>
<img alt="musrWiz-FitInfo-1_0.png" src="../pub/MUSR/MusrGui/musrWiz-FitInfo-1_0.png" />
<p></p> <ol>
<li> allows to define the time fit range (start time, end time).
</li> <li> packing defines how many bins of the original data shall be combined (added, also called re-binning).
</li> <li> In this text field to fitting commands are given (see the <code>MINUIT</code> and <code>musrfit</code> manual for details).
</li></ol>
<p></p>
<span id="MusrWizCreate"></span>
<h2 id="A_4.7_musrWiz_45_Create"> 4.7 musrWiz - Create </h2>
<p></p>
<img alt="musrWiz-Create-1_0.png" src="../pub/MUSR/MusrGui/musrWiz-Create-1_0.png" />
<p></p> <ol>
<li> shows the path where the msr-file will be saved. If you would like to save it somewhere else press the ' <code>Save As (msr-file path)</code> button.
</li> <li> pressing this button will allow you to find the path where to save the msr-file.
</li> <li> pressing this button will save to current configuration as a template for future re-use.
</li></ol>
<p></p>
<span id="MusrStep"></span>
<h1 id="A_5_musrStep"> 5 musrStep </h1>
<p></p>
musrStep is a little helper program which allows to reset the initial step size. This sometimes comes very handy if working on an instrument with many detectors after a fit slightly went wrong leaving you with a far too small initial step size for further iterations. To edit all the steps individually is tedious and error prone. Here musrStep can help.
<p></p>
<img alt="musrStep_0_0.png" src="../pub/MUSR/MusrGui/musrStep_0_0.png" />
<p></p>
When invoking musrStep the above dialogue will popup <ol>
<li> shows the relevant parts of the <code>FITPARAMETER</code> block. The only editable column is <code>step</code>.
</li> <li> ' <code>Check Specific</code> ' will popup a dialogue where a template string can be entered, e.g. <code>Asym</code>. As a result all fit parameters containing the template string will be selected.
</li> <li> ' <code>Check All</code> ' will select <em>all</em> fit parameters.
</li> <li> ' <code>Uncheck All</code> ' will unselect <em>all</em> fir parameters.
</li> <li> ' <code>Modify Automatic</code> ' will change all the step values automatically. It basically sets all the step sizes to 1% of the corresponding fit parameter value, except the phases where the step will be set to a value of 5 degrees.
</li> <li> ' <code>Modify Selected</code> ' will start the dialogue shown beneath. Follow the description there.
</li> <li> ' <code>Save&amp;Quit</code> ' will save the current step values, close the dialogue and reload the modified msr-file.
</li> <li> ' <code>Cancel</code> ' will cancel the musrStep dialogue without modifying anything.
</li></ol>
<p></p>
<img alt="musrStep_1_0.png" src="../pub/MUSR/MusrGui/musrStep_1_0.png" />
<p></p>
When clicking on ' <code>Modify Selected</code> ' the above dialogue will be presented. It allows to manipulate all selected fir parameter step values according to the following rules <ol>
<li> ' <code>Scale by Factor</code> ' will scale the step value by the factor given in the field (2). If the ' <code>Absolute Value</code> ' check box is selected, rather than scaling the factor value will be used to modify the step value.
</li> <li> Scaling factor or absolute value to modify the step values of the selected fit parameters.
</li> <li> checking the ' <code>Absolute Value</code> ' check box will change the meaning from <code>Scale by Factor</code> to <code>Copy Factor Value</code>.
</li> <li> ' <code>Scale Automatically</code> ' will modify the step values of the selected fit parameters according to the rules described before.
</li> <li> ' <code>Cancel</code> ' will cancel the dialogue.
</li></ol>
<p></p>
<span id="BugTracking"></span>
<h1 id="A_5_Bugtracking"> 5 Bugtracking </h1>
<h1 id="A_6_Bugtracking"> 6 Bugtracking </h1>
<p></p>
For reporting bugs or requesting new features and improvements please use the <a href="https://bitbucket.org/muonspin/musrfit/issues">Bitbucket Tracker</a>, <a href="https://tracker.psi.ch/jira/browse/MUSR/">PSI Tracker</a> (PSI account needed) or send an e-mail to A. Suter.
<p></p>
-- <a href="http://www.psi.ch/low-energy-muons/people">AS</a> &amp; <a href="http://www.fsf.org/register_form?referrer=8369">BMW</a></div>
For reporting bugs or requesting new features and improvements please use the <a href="https://bitbucket.org/muonspin/musrfit/issues">Bitbucket Tracker</a>, <a href="https://tracker.psi.ch/jira/browse/MUSR/">PSI Tracker</a> (PSI account needed) or send an e-mail to A. Suter.</div>
<p></p>
<p></p>
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<div class="patternInfo">This topic: MUSR<span class='foswikiSeparator'>&nbsp;&gt;&nbsp;</span><a class="foswikiCurrentWebHomeLink" href="WebHome.html">WebHome</a> &gt; <a href="MusrFit.html">MusrFit</a><span class='foswikiSeparator'>&nbsp;&gt;&nbsp;</span>MusrGui <br />
Topic revision: <span class='patternRevInfo'>19 Feb 2015, suter_a</span></div>
Topic revision: <span class='patternRevInfo'>14 May 2017, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
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<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::TWISTY' rel='stylesheet' href='../pub/System/TwistyPlugin/twisty327a.css?version=1.6.0' type='text/css' media='all' /><!--JQUERYPLUGIN::TWISTY: requires= missing ids: JavascriptFiles/foswikiPref-->
<style class='head TABLEPLUGIN_default' type="text/css" media="all">
body .foswikiTable {border-width:1px}
body .foswikiTable .tableSortIcon img {padding-left:.3em; vertical-align:text-bottom}
@ -51,11 +54,8 @@ body .foswikiTable#tableMusrRoot7 th.foswikiSortedCol {background-color:#eeeeee}
body .foswikiTable#tableMusrRoot7 tr.foswikiTableRowdataBg0 td {background-color:#ffffff}
body .foswikiTable#tableMusrRoot7 tr.foswikiTableRowdataBg0 td.foswikiSortedCol {background-color:#f5f5f5}
</style><!--TABLEPLUGIN_specific-->
<link class='head IMAGEPLUGIN' rel="stylesheet" href="../pub/System/ImagePlugin/style.css" type="text/css" media="all" /><!--IMAGEPLUGIN-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head IMAGEPLUGIN' rel="stylesheet" href="../pub/System/ImagePlugin/style.css" type="text/css" media="all" /><!--IMAGEPLUGIN--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -136,18 +136,18 @@ body .foswikiTable#tableMusrRoot7 tr.foswikiTableRowdataBg0 td.foswikiSortedCol
<!--<![endif]-->
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<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
<!--JavascriptFiles/foswikiPref-->
<!--JQUERYPLUGIN::TWISTY-->
<!--PatternSkin/pattern-->
<!--JQUERYPLUGIN::METADATA-->
<!--JQUERYPLUGIN::COMMENT-->
<!--JQUERYPLUGIN::TWISTY-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::CHILI--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<!--JQUERYPLUGIN::CHILI-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
<span id="PageTop"></span><div class="foswikiPage"><div id="patternScreen">
@ -1125,6 +1125,5 @@ Topic revision: <span class='patternRevInfo'>29 Mar 2012, suter_a</span></div>
</body>
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</html>

21
doc/html/user/MUSR/QuickStart.html
View File

@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
<!-- Mirrored from intranet.psi.ch/MUSR/QuickStart?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:00:58 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
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<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8" /><!-- /Added by HTTrack -->
<head>
<link rel="stylesheet" href="../pub/System/HeadlinesPlugin/style.css" type="text/css" media="all" />
<title> MUSR :: QuickStart</title>
@ -14,14 +14,14 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<link rel="icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="shortcut icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/QuickStart?t=1481904043" type="application/x-wiki" title="edit QuickStart" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/QuickStart?t=1494785296" type="application/x-wiki" title="edit QuickStart" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<base /><!--[if IE]></base><![endif]--><link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -104,11 +104,11 @@
<!--JQUERYPLUGIN::MIGRATE-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiForm-->
<!--JQUERYPLUGIN::COMMENT-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
<!--PatternSkin/pattern--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
@ -285,6 +285,5 @@ Topic revision: <span class='patternRevInfo'>10 Jul 2011, wojek</span></div>
</body>
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</html>

31
doc/html/user/MUSR/TutorialSingleHisto.html
View File

@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
<!-- Mirrored from intranet.psi.ch/MUSR/TutorialSingleHisto?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Fri, 16 Dec 2016 16:00:55 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
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<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8" /><!-- /Added by HTTrack -->
<head>
<link rel="stylesheet" href="../pub/System/HeadlinesPlugin/style.css" type="text/css" media="all" />
<title> MUSR :: TutorialSingleHisto</title>
@ -14,10 +14,10 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<link rel="icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="shortcut icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/TutorialSingleHisto?t=1481904042" type="application/x-wiki" title="edit TutorialSingleHisto" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/TutorialSingleHisto?t=1494785295" type="application/x-wiki" title="edit TutorialSingleHisto" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRss" />
<base /><!--[if IE]></base><![endif]--><style class='head TABLEPLUGIN_default' type="text/css" media="all">
body .foswikiTable {border-width:1px}
body .foswikiTable .tableSortIcon img {padding-left:.3em; vertical-align:text-bottom}
@ -32,8 +32,6 @@ body .foswikiTable tr.foswikiTableRowdataBg0 td.foswikiSortedCol {background-col
body .foswikiTable tr.foswikiTableRowdataBg1 td {background-color:#f7f7f6}
body .foswikiTable tr.foswikiTableRowdataBg1 td.foswikiSortedCol {background-color:#f0f0ee}
</style><!--TABLEPLUGIN_default-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<style class='head TABLEPLUGIN_specific' type="text/css" media="all">
body .foswikiTable#tableTutorialSingleHisto1 td {vertical-align:middle; vertical-align:top}
body .foswikiTable#tableTutorialSingleHisto1 td.foswikiTableCol0 {text-align:left}
@ -52,10 +50,12 @@ body .foswikiTable#tableTutorialSingleHisto1 th.foswikiSortedCol {background-col
body .foswikiTable#tableTutorialSingleHisto1 tr.foswikiTableRowdataBg0 td {background-color:#ffffff}
body .foswikiTable#tableTutorialSingleHisto1 tr.foswikiTableRowdataBg0 td.foswikiSortedCol {background-color:#f5f5f5}
</style><!--TABLEPLUGIN_specific-->
<link class='head JQUERYPLUGIN::TWISTY' rel='stylesheet' href='../pub/System/TwistyPlugin/twisty327a.css?version=1.6.0' type='text/css' media='all' /><!--JQUERYPLUGIN::TWISTY: requires= missing ids: JavascriptFiles/foswikiPref-->
<link class='head IMAGEPLUGIN' rel="stylesheet" href="../pub/System/ImagePlugin/style.css" type="text/css" media="all" /><!--IMAGEPLUGIN-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head JQUERYPLUGIN::TWISTY' rel='stylesheet' href='../pub/System/TwistyPlugin/twisty327a.css?version=1.6.0' type='text/css' media='all' /><!--JQUERYPLUGIN::TWISTY: requires= missing ids: JavascriptFiles/foswikiPref-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -138,12 +138,12 @@ body .foswikiTable#tableTutorialSingleHisto1 tr.foswikiTableRowdataBg0 td.foswik
<!--JQUERYPLUGIN::MIGRATE-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
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<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--PatternSkin/pattern--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
@ -270,7 +270,7 @@ STATISTIC --- 2011-07-09 10:58:44
</li></ul>
<p></p>
<h1 id="A_2_Determine_t0_and_the_data_range_using_61musrt0_61"> 2 Determine <i>t</i><sub>0</sub> and the data range using <code>musrt0</code> </h1>
Before the given model can be fitted to the data, the data ranges and time zeros of the different RUN blocks have to be set correctly. This can be achieved using <code><a href="MusrFit.html#MusrT0">musrt0</a></code>. Starting this program by selecting the <img alt="musrt0.png" src="../pub/MUSR/MusrGui/musrt0.png" /> button in <code>musredit</code> or calling from a terminal <pre>musrt0 3110&#95;tutorial.msr</pre> opens an interactive window plotting the data of the first RUN block:<br />
Before the given model can be fitted to the data, the data ranges and time zeros of the different RUN blocks have to be set correctly. This can be achieved using <code><a href="MusrFit.html#MusrT0">musrt0</a></code>. Starting this program by selecting the <img alt="musrt0.png" src="../pub/MUSR/MusrGui/musrt0.html" /> button in <code>musredit</code> or calling from a terminal <pre>musrt0 3110&#95;tutorial.msr</pre> opens an interactive window plotting the data of the first RUN block:<br />
<img class='imagePlain imagePlain_center ' src='../pub/MUSR/TutorialSingleHisto/musrt0-1.png' alt='musrt0-1' title='musrt0-1.png' width='708' height='529' style='' /><br />
The green line (at bin 1) represents time zero, the blue lines the start (at bin 1) and end (at bin 8000) of the data range and the optional red lines give the limits of the background range (if the background shall not be determined by the fit). All lines can be either dragged to reasonable locations or set by pressing the corresponding keyboard shortcuts. In the example the time zero can be set by pressing <strong>T</strong> (which moves the green line to the bin containing the maximum number of counts), the start of the data range should be set to about five bins later by zooming into the graph around bin 250 and pressing <strong>d</strong> when the cursor is found at a suitable location:<br />
<img class='imagePlain imagePlain_center ' src='../pub/MUSR/TutorialSingleHisto/igp_9c0f9b31d4414f37be0d3d171836fe63_musrt0-2.png' alt='musrt0-2' title='musrt0-2.png' width='688' height='529' style='' /><br />
@ -278,7 +278,7 @@ After all lines have been adjusted for the first histogram, one can go on to the
A full description of <code>musrt0</code> can be found <a href="MusrFit.html#MusrT0">here</a>.
<p></p>
<h1 id="A_3_Fit_the_model_to_the_data_using_61musrfit_61"> 3 Fit the model to the data using <code>musrfit</code> </h1>
Now that the basics of the <code>msr</code> file have been introduced and the necessary adjustments have been done one can proceed with fitting the specified model to the data. This is done by selecting the <img alt="musrfit.png" src="../pub/MUSR/MusrGui/musrfit.png" /> button in <code>musredit</code> or calling from a terminal <pre>musrfit 3110&#95;tutorial.msr</pre>
Now that the basics of the <code>msr</code> file have been introduced and the necessary adjustments have been done one can proceed with fitting the specified model to the data. This is done by selecting the <img alt="musrfit.png" src="../pub/MUSR/MusrGui/musrfit.html" /> button in <code>musredit</code> or calling from a terminal <pre>musrfit 3110&#95;tutorial.msr</pre>
<p></p>
After the fitting procedure has finished the <code>msr</code> file is updated and contains the newly determined values of the fit parameters.
<p></p>
@ -298,7 +298,7 @@ Assuming the successive runs <strong>3111</strong> through <strong>3114</strong>
From the terminal this would be done as follows:<pre>
msr2data 3110 3114 &#95;tutorial fit-3110 -o tutorial-T-dependence.dat data
</pre>
To achieve the same in <code>musredit</code> one selects <img alt="musrmsr2data.png" src="../pub/MUSR/MusrGui/musrmsr2data.png" /> and fills the form accordingly:<br />
To achieve the same in <code>musredit</code> one selects <img alt="musrmsr2data.png" src="../pub/MUSR/MusrGui/musrmsr2data.html" /> and fills the form accordingly:<br />
<img class='imagePlain imagePlain_center ' src='../pub/MUSR/TutorialSingleHisto/msr2data.png' alt='msr2data' title='msr2data.png' width='612' height='605' style='' />
<p></p>
<h1 id="A_6_Further_reading"> 6 Further reading </h1>
@ -401,6 +401,5 @@ Topic revision: <span class='patternRevInfo'>02 Sep 2011, wojek</span></div>
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</html>

29
doc/html/user/MUSR/WebHome.html
View File

@ -1,7 +1,7 @@
<!DOCTYPE html><html lang="en">
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<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=utf-8"><!-- /Added by HTTrack -->
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<head>
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<title> MUSR :: MUSR</title>
@ -14,14 +14,14 @@
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<link rel="icon" href="../pub/Main/WebPreferences/favicon.ico" type="image/x-icon" />
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<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/WebHome?t=1481904045" type="application/x-wiki" title="edit WebHome" />
<link rel="alternate" href="https://intranet.psi.ch/wiki/bin/edit/MUSR/WebHome?t=1494785300" type="application/x-wiki" title="edit WebHome" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
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<base /><!--[if IE]></base><![endif]--><link class='head CLASSIFICATIONPLUGIN::CSS' rel="stylesheet" href="../pub/System/ClassificationPlugin/styles.css" media="all" /><!--CLASSIFICATIONPLUGIN::CSS-->
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
<link class='head JQUERYPLUGIN::COMMENT' rel='stylesheet' href='../pub/System/CommentPlugin/commentf5b6.css?version=3.0' type='text/css' media='all' /><!--JQUERYPLUGIN::COMMENT-->
<link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<link class='head SMILIESPLUGIN' rel='stylesheet' href='../pub/System/SmiliesPlugin/smilies.css' type='text/css' media='all' /><!--SMILIESPLUGIN--><link rel='stylesheet' href='../pub/System/SkinTemplates/base.css' media='all' type='text/css' />
<style type="text/css" media="all">
@import url('../pub/System/PatternSkinTheme/layout.css');
@import url('../pub/System/PatternSkinTheme2009/style.css');
@ -101,14 +101,14 @@
<!--<![endif]-->
<!--JQUERYPLUGIN-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JQUERYPLUGIN::LIVEQUERY-->
<!--JQUERYPLUGIN::FOSWIKI-->
<!--JQUERYPLUGIN::MIGRATE-->
<!--JavascriptFiles/foswikiString-->
<!--JavascriptFiles/foswikiPref-->
<!--JavascriptFiles/foswikiForm-->
<!--JQUERYPLUGIN::FOSWIKI::PREFERENCES-->
<!--JQUERYPLUGIN::COMMENT-->
<!--JavascriptFiles/foswikiForm-->
<!--PatternSkin/pattern--><link class='head FOOTNOTEPLUGIN_LINKCSS' rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
@ -122,12 +122,12 @@
<div class="patternContent"><div class="foswikiTopic"> <h1 id="Welcome_to_the_MUSR_web"> Welcome to the MUSR web </h1>
<p></p>
<h2 id="Documentation_of_the_SR_data_analysis_suite_61musrfit_61"> Documentation of the &#956;SR data analysis suite <code>musrfit</code> </h2> <ul>
<li> <a href="CiteMusrFit.html">How to cite <code>musrfit</code>? <img class='smily' src='../pub/Main/SmiliesPluginPSI_/yes.gif' alt='yes' title='yes' /> </a>
<li> <a href="CiteMusrFit.html">How to cite <code>musrfit</code>? <img class='smily' src='../pub/Main/SmiliesPluginPSI/yes.gif' alt='yes' title='yes' /> </a>
</li> <li> <a href="TutorialSingleHisto.html">Single-histogram-fit tutorial for <code>musrfit</code> introducing the basic features of the programs and <code>msr</code> files</a>
</li> <li> <a href="MusrFit.html">User manual of the &#956;SR data analysis software <code>musrfit</code> </a>
</li> <li> <a href="MusrFitSetup.html">Setting up <code>musrfit</code> on Different Platforms</a>
</li> <li> <a href="MusrFitSetup.html">Setting up <code>musrfit</code> on Different Platforms <img src="../pub/System/DocumentGraphics/new.png" alt="NEW" title="NEW" width="30" height="16" /> <strong><span class='foswikiRedFG'>ROOT6!</span></strong></a>
</li> <li> <a href="QuickStart.html">Quick start page for <code>WKM</code> users</a>
</li> <li> <a href="MusrGui.html">Documentation of <code>musrgui</code>/<code>musredit</code>&mdash;editors interfacing <code>musrfit</code> </a>
</li> <li> <a href="MusrGui.html">Documentation of <code>musrgui</code>/<code>musredit</code>&mdash;editors interfacing <code>musrfit</code> <img src="../pub/System/DocumentGraphics/updated.png" alt="UPDATED" title="UPDATED" width="55" height="16" /></a>
</li> <li> <a href="Msr2Data.html">Documentation of <code>msr2data</code>&mdash;a program for automatically processing multiple musrfit <code>msr</code> files</a>
</li> <li> <a href="MusrFit.html#Any2Many"><code>any2many</code>&mdash;a universal &#956;SR-file-format converter</a>
</li> <li> <a href="MusrRoot.html"><code>MusrRoot</code>: an extensible open file format for &#956;SR</a>
@ -138,12 +138,12 @@
</li> <li> <a href="MusrFitAcknowledgements.html">Acknowledgements</a>
</li></ul>
<p></p>
-- <a href="http://www.psi.ch/low-energy-muons/people">AS</a> &amp; (<a href="http://www.fsf.org/register_form?referrer=8369">BMW</a>) - last update Dec 15, 2016</div>
-- <a href="http://www.psi.ch/low-energy-muons/people">AS</a> &amp; (<a href="http://www.fsf.org/register_form?referrer=8369">BMW</a>) - last update May 14, 2017</div>
<p></p>
<p></p>
</div>
<div class="patternInfo">This topic: MUSR<span class='foswikiSeparator'>&nbsp;&gt;&nbsp;</span>WebHome <br />
Topic revision: <span class='patternRevInfo'>15 Dec 2016, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
Topic revision: <span class='patternRevInfo'>14 May 2017, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
</div>
</div>
</div>
@ -161,6 +161,5 @@ Topic revision: <span class='patternRevInfo'>15 Dec 2016, <a href="https://intr
</body>
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2
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@ -0,0 +1,2 @@
Ihr Aufruf ist nicht korrekt. <br>
Hier geht es zum <a href="https://intranet.psi.ch/">PSI Intranet</a>.

2
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@ -0,0 +1,2 @@
Ihr Aufruf ist nicht korrekt. <br>
Hier geht es zum <a href="https://intranet.psi.ch/">PSI Intranet</a>.

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@ -0,0 +1,2 @@
Ihr Aufruf ist nicht korrekt. <br>
Hier geht es zum <a href="https://intranet.psi.ch/">PSI Intranet</a>.

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59
doc/templates/asymDefault.msr vendored
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@ -1,59 +0,0 @@
TITLE
###############################################################
FITPARAMETER
# Nr. Name Value Step Pos_Error Boundaries
1 alpha 0.989765 1.0 none 0 none
2 asy 0.26 0.1 none 0 0.33
3 phase 8.5 1.0 none
4 field 100.0 0.1 none 0 none
5 rate 0.36 0.02 none 0 100
###############################################################
THEORY
asymmetry 2
TFieldCos 3 fun1 (phase frequency)
simplExpo 5
###############################################################
FUNCTIONS
fun1 = par4 * gamma_mu
###############################################################
RUN lem07_his_0147 MUE4 PSI ROOT-NPP (name beamline institute data-file-format)
fittype 2 (asymmetry fit)
alpha 1
map 0 0 0 0 0 0 0 0 0 0
forward 1
backward 3
background 65000 66500 65000 66500
data 3413 63000 3413 63000
t0 3413 3413
fit 0.00 8.00 (fw bw)
packing 75
###############################################################
COMMANDS
SET BATCH
MINIMIZE
MINOS
SAVE
END RETURN
###############################################################
FOURIER
units Gauss # fourier in field units
fourier_power 12
apodization NONE # NONE, WEAK, MEDIUM, STRONG
plot power
phase 8.5
#range_for_phase_correction 50.0 70.0
range 0.0 200.0
###############################################################
PLOT 2 (asymmetry plot)
runs 1
range 0.00 8.00 -0.30 0.30
###############################################################
STATISTIC --- 2008-04-04 07:44:31
chisq = 569.50931, NDF = 542, chisq/NDF = 1.05075518

60
doc/templates/singleHistoDefault.msr vendored
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@ -1,60 +0,0 @@
TITLE
###############################################################
FITPARAMETER
# Nr. Name Value Step Pos_Error Boundaries
1 Asy 0.26 0.01 none 0 0.33
2 Rate 0.36 0.01 none
3 Field 100.0 1.0 none 0 200
4 N0_L 150.0 0.01 none
5 Bkg_L 4.9 0.01 none
6 Phase_L 7.0 1.5 none -50 50
###############################################################
THEORY
asymmetry 1
simplExpo 2 (rate)
TFieldCos map1 fun1 (phase frequency)
###############################################################
FUNCTIONS
fun1 = par3 * gamma_mu
###############################################################
RUN lem07_his_0111 MUE4 PSI ROOT-NPP (name beamline institute data-file-format)
fittype 0 (single histogram fit)
norm 4
backgr.fit 5
lifetimecorrection
map 6 0 0 0 0 0 0 0 0 0
forward 1
data 3413 65000
t0 3413
fit 0.20 8.2
packing 50
###############################################################
COMMANDS
SET BATCH
MINIMIZE
MINOS
SAVE
END RETURN
###############################################################
PLOT 0 (single histo plot)
runs 1
range 0.00 7.00 -0.30 0.30
###############################################################
FOURIER
units Gauss # fourier in field units
fourier_power 12
apodization NONE # NONE, WEAK, MEDIUM, STRONG
plot power
phase 8.5
#range_for_phase_correction 50.0 70.0
range 0.0 200.0
###############################################################
STATISTIC --- 2008-06-09 14:09:39
chisq = 1446.93547, NDF = 1377, chisq/NDF = 1.05078829

5
src/Makefile.am
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@ -2,7 +2,7 @@
BUILT_SOURCES = git-revision.h
git-revision.h : Makefile
echo \#define GIT_REVISION \"`git log -n 1 --pretty=format:"%ad - %h"`\" > include/git-revision.h
sh git_revision.sh ./include git-revision.h
if PNEXUS_ENABLED
PNEXUSDIRS = external/nexus
@ -71,4 +71,5 @@ AM_CPPFLAGS += $(HDF5_CFLAGS) $(NEXUS_CFLAGS) $(PNEXUS_CXXFLAGS)
endif
LIBS = $(PMUSR_LIBS) $(USERFCN_LIBS) $(MUSR_ROOT_LIBS) $(LEM_LIBS) $(PSIBIN_LIBS) $(MUD_LIBS) $(PNEXUS_LIBS) \
$(FFTW3_LIBS) $(GSL_LIBS) $(DKS_CFLAGS) $(ROOT_LIBS) $(LIBXML2_LIBS ) $(BOOST_LIBS)
$(FFTW3_LIBS) $(GSL_LIBS) $(DKS_CFLAGS) $(ROOT_LIBS) $(LIBXML2_LIBS) $(BOOST_LIBS)

4
src/any2many.cpp
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@ -198,9 +198,9 @@ int main(int argc, char *argv[])
any2many_syntax();
else if (strstr(argv[1], "--v")) {
#ifdef HAVE_CONFIG_H
cout << endl << "any2many version: " << PACKAGE_VERSION << ", git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "any2many version: " << PACKAGE_VERSION << ", git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#else
cout << endl << "any2many git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "any2many git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#endif
} else {
any2many_syntax();

12
src/classes/Makefile.PMusr
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@ -202,27 +202,27 @@ $(EXTOBJS): ../external/MuSR_software/Class_MuSR_PSI/MuSR_td_PSI_bin.cpp
TLemRunHeaderDict.cxx: ../external/TLemRunHeader/TLemRunHeader.h ../external/TLemRunHeader/TLemRunHeaderLinkDef.h
@echo "Generating dictionary $@..."
rootcint -f $@ -c -p $^
rootcling -f $@ -c -p $^
TLemStatsDict.cxx: ../external/TLemRunHeader/TLemStats.h ../external/TLemRunHeader/TLemStatsLinkDef.h
@echo "Generating dictionary $@..."
rootcint -f $@ -c -p $^
rootcling -f $@ -c -p $^
PStartupHandlerDict.cpp: ../include/PStartupHandler.h ../include/PStartupHandlerLinkDef.h
@echo "Generating dictionary $@..."
rootcint -f $@ -c -p $^
rootcling -f $@ -c -p $^
PMusrCanvasDict.cpp: ../include/PMusrCanvas.h ../include/PMusrCanvasLinkDef.h
@echo "Generating dictionary $@..."
rootcint -v -f $@ -c -p $^
rootcling -v -f $@ -c -p $^
PMusrT0Dict.cpp: ../include/PMusrT0.h ../include/PMusrT0LinkDef.h
@echo "Generating dictionary $@..."
rootcint -v -f $@ -c -p $^
rootcling -v -f $@ -c -p $^
PUserFcnBaseDict.cpp: ../include/PUserFcnBase.h ../include/PUserFcnBaseLinkDef.h
@echo "Generating dictionary $@..."
rootcint -v -f $@ -c -p $^
rootcling -v -f $@ -c -p $^
install: leminstall musrinstall

2
src/classes/Makefile.PUserFcn
View File

@ -89,7 +89,7 @@ $(OBJS): %.o: %.cpp
PUserFcnDict.cpp: ../include/PUserFcn.h ../include/PUserFcnLinkDef.h
@echo "Generating dictionary $@..."
rootcint -f $@ -c -p $^
rootcling -f $@ -c -p $^
install: all
@echo "Installing shared lib: libPUserFcn.so ( you must be root ;-) )"

2
src/classes/PFitter.cpp
View File

@ -1438,6 +1438,8 @@ Bool_t PFitter::ExecuteMinos()
// the 2nd condition is from an all together unused variable
// the 3rd condition is a variable fixed via the FIX command
if ((fMnUserParams.Error(i) != 0.0) && (fRunInfo->ParameterInUse(i) != 0) && (!fMnUserParams.Parameters().at(i).IsFixed())) {
cout << ">> PFitter::ExecuteMinos(): calculate errors for " << fParams[i].fName << endl;
// 1-sigma MINOS errors
ROOT::Minuit2::MinosError err = minos.Minos(i);

38
src/classes/PFourier.cpp
View File

@ -298,10 +298,12 @@ PFourier::PFourier(TH1F *data, Int_t unitTag, Double_t startTime, Double_t endTi
fIn = 0;
fOut = 0;
/*//as
#ifdef HAVE_DKS
fInDKS = 0;
fOutDKS = 0;
#endif
*/
SetUseFFTW(useFFTW);
@ -363,11 +365,13 @@ PFourier::PFourier(TH1F *data, Int_t unitTag, Double_t startTime, Double_t endTi
fIn = (fftw_complex *)fftw_malloc(sizeof(fftw_complex)*fNoOfBins);
fOut = (fftw_complex *)fftw_malloc(sizeof(fftw_complex)*fNoOfBins);
} else { // try DKS
/*//as
#ifdef HAVE_DKS
fInDKS = new double[fNoOfBins];
unsigned int size=fNoOfBins/2+1;
fOutDKS = new complex<double>[size];
#endif
*/
}
// check if memory allocation has been successful
@ -377,6 +381,7 @@ PFourier::PFourier(TH1F *data, Int_t unitTag, Double_t startTime, Double_t endTi
return;
}
} else { // try DKS
/*//as
#ifdef HAVE_DKS
if ((fInDKS == 0) || (fOutDKS == 0)) {
fValid = false;
@ -386,6 +391,9 @@ PFourier::PFourier(TH1F *data, Int_t unitTag, Double_t startTime, Double_t endTi
fValid = false;
return;
#endif
*/
fValid = false;
return;
}
if (fUseFFTW) {
@ -397,6 +405,7 @@ PFourier::PFourier(TH1F *data, Int_t unitTag, Double_t startTime, Double_t endTi
fValid = false;
}
} else { // try DKS
/*//as
#ifdef HAVE_DKS
// init DKSBase
fDks.setAPI("Cuda", 4);
@ -424,6 +433,8 @@ PFourier::PFourier(TH1F *data, Int_t unitTag, Double_t startTime, Double_t endTi
#else
fValid = false;
#endif
*/
fValid = false;
}
}
@ -443,6 +454,7 @@ PFourier::~PFourier()
if (fOut)
fftw_free(fOut);
} else {
/*//as
#ifdef HAVE_DKS
// free accelerator memory
fDks.freeMemory<double>(fReal_ptr, (int)fNoOfBins);
@ -453,6 +465,7 @@ PFourier::~PFourier()
if (fOut)
delete [] fOutDKS;
#endif
*/
}
}
@ -475,6 +488,7 @@ void PFourier::Transform(UInt_t apodizationTag)
if (fUseFFTW) {
fftw_execute(fFFTwPlan);
} else {
/*//as
#ifdef HAVE_DKS
int dimsize[3] = {(int)fNoOfBins, 1, 1};
int status=0, size=fNoOfBins/2+1;
@ -488,6 +502,9 @@ void PFourier::Transform(UInt_t apodizationTag)
fValid = false;
return;
#endif
*/
fValid = false;
return;
}
// correct the phase for tstart != 0.0
@ -510,6 +527,7 @@ void PFourier::Transform(UInt_t apodizationTag)
fOut[i][1] = im;
}
} else { // try DKS
/*//as
UInt_t size=fNoOfBins/2+1;
for (UInt_t i=0; i<size; i++) {
phase = 2.0*PI/(fTimeResolution*fNoOfBins) * i * shiftTime;
@ -519,6 +537,7 @@ void PFourier::Transform(UInt_t apodizationTag)
fOutDKS[i] = complex<double>(re, im);
#endif
}
*/
}
}
@ -590,11 +609,14 @@ TH1F* PFourier::GetRealFourier(const Double_t scale)
}
} else {
for (UInt_t i=0; i<noOfFourierBins; i++) {
/*//as
#ifdef HAVE_DKS
realFourier->SetBinContent(i+1, scale*fOutDKS[i].real());
#else
realFourier->SetBinContent(i+1, PMUSR_UNDEFINED);
#endif
*/
realFourier->SetBinContent(i+1, PMUSR_UNDEFINED); //as needs to be removed
realFourier->SetBinError(i+1, 0.0);
}
}
@ -739,11 +761,14 @@ TH1F* PFourier::GetImaginaryFourier(const Double_t scale)
}
} else {
for (UInt_t i=0; i<noOfFourierBins; i++) {
/*//as
#ifdef HAVE_DKS
imaginaryFourier->SetBinContent(i+1, scale*fOutDKS[i].imag());
#else
imaginaryFourier->SetBinContent(i+1, PMUSR_UNDEFINED);
#endif
*/
imaginaryFourier->SetBinContent(i+1, PMUSR_UNDEFINED); //as needs to be removed
imaginaryFourier->SetBinError(i+1, 0.0);
}
}
@ -787,11 +812,14 @@ TH1F* PFourier::GetPowerFourier(const Double_t scale)
}
} else {
for (UInt_t i=0; i<noOfFourierBins; i++) {
/*//as
#ifdef HAVE_DKS
pwrFourier->SetBinContent(i+1, scale*sqrt(fOutDKS[i].real()*fOutDKS[i].real()+fOutDKS[i].imag()*fOutDKS[i].imag()));
#else
pwrFourier->SetBinContent(i+1, PMUSR_UNDEFINED);
#endif
*/
pwrFourier->SetBinContent(i+1, PMUSR_UNDEFINED); //as needs to be removed
pwrFourier->SetBinError(i+1, 0.0);
}
}
@ -835,6 +863,7 @@ TH1F* PFourier::GetPhaseFourier(const Double_t scale)
re = fOut[i][0];
im = fOut[i][1];
} else {
/*//as
#ifdef HAVE_DKS
re = fOutDKS[i].real();
im = fOutDKS[i].imag();
@ -842,6 +871,9 @@ TH1F* PFourier::GetPhaseFourier(const Double_t scale)
re = 1.0;
im = 0.0;
#endif
*/
re = 1.0; //as needs to be removed
im = 0.0; //as needs to be removed
}
// calculate the phase
if (re == 0) {
@ -914,14 +946,18 @@ void PFourier::PrepareFFTwInputData(UInt_t apodizationTag)
}
} else {
for (UInt_t i=0; i<fNoOfData-t0bin; i++) {
/*//as
#ifdef HAVE_DKS
fInDKS[i] = fData->GetBinContent(i+t0bin) - mean;
#endif
*/
}
for (UInt_t i=fNoOfData-t0bin; i<fNoOfBins; i++) {
/*//as
#ifdef HAVE_DKS
fInDKS[i] = 0.0;
#endif
*/
}
}
@ -985,9 +1021,11 @@ void PFourier::ApodizeData(Int_t apodizationTag) {
if (fUseFFTW) {
fIn[i][0] *= q;
} else {
/*//as
#ifdef HAVE_DKS
fInDKS[i] *= q;
#endif
*/
}
}
}

2
src/classes/PMusrCanvas.cpp
View File

@ -1584,7 +1584,9 @@ void PMusrCanvas::ExportData(const Char_t *fileName)
switch (fPlotType) {
case MSR_PLOT_SINGLE_HISTO:
case MSR_PLOT_SINGLE_HISTO_RRF:
case MSR_PLOT_ASYM:
case MSR_PLOT_ASYM_RRF:
case MSR_PLOT_MU_MINUS:
if (fDifferenceView) { // difference view plot
switch (fCurrentPlotView) {

2
src/classes/PStartupHandler.cpp
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@ -598,7 +598,7 @@ Bool_t PStartupHandler::StartupFileExists(Char_t *fln)
}
//--------------------------------------------------------------------------
// WriteDefaulStartupFile
// WriteDefaultStartupFile
//--------------------------------------------------------------------------
Bool_t PStartupHandler::WriteDefaultStartupFile()
{

17
src/dump_header.cpp
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@ -762,9 +762,9 @@ int main(int argc, char *argv[])
return 0;
} else if (!strcmp(argv[i], "--version") || !strcmp(argv[i], "-v")) {
#ifdef HAVE_CONFIG_H
cout << endl << "dump_header: version " << PACKAGE_VERSION << ", git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "dump_header version: " << PACKAGE_VERSION << ", git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#else
cout << endl << "dump_header: git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "dump_header git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#endif
return 0;
} else if (!strcmp(argv[i], "-rn") || !strcmp(argv[i], "--runNo")) {
@ -929,13 +929,20 @@ int main(int argc, char *argv[])
}
bool found_fln = false;
// 1st check if the file name is found in the current directory
string pathFln("");
pathFln = "./" + fileName;
// 1st check if the file name is the full path-file name and the file exists
pathFln = fileName;
if (dump_file_exists(pathFln))
found_fln = true;
// 2nd check if file name is found in any default search paths if not already found in the current directory
// 2nd check if the file name is found in the current directory
if (!found_fln) {
pathFln = "./" + fileName;
if (dump_file_exists(pathFln))
found_fln = true;
}
// 3rd check if file name is found in any default search paths if not already found in the current directory
if (!found_fln) {
PStringVector pathList = startupHandler->GetDataPathList();
for (unsigned int i=0; i<pathList.size(); i++) {

2
src/external/BMWtools/BMWStartupHandlerLinkDef.h vendored
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@ -4,8 +4,6 @@
Author: Bastian M. Wojek
$Id$
***************************************************************************/
/***************************************************************************

17
src/external/MuSRFitGUI/MuSRFit4.pl vendored Executable file
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@ -0,0 +1,17 @@
#!/usr/bin/perl
use strict;
use warnings;
use QtCore4;
use QtGui4;
use MuSRFit4;
sub main {
my $app = Qt::Application(\@ARGV);
my $musrfit = MuSRFit4();
$musrfit->show();
exit $app->exec();
}
main();

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9
src/external/Nonlocal/Makefile.am vendored
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@ -68,12 +68,3 @@ uninstall-hook:
rm -f $(libdir)/libPNL_PippardFitter.so
endif
xmldir = $(HOME)/.musrfit/external
xml_DATA = nonlocal_startup.xml
install-xml_DATA: $(xml_DATA)
$(INSTALL_DATA) '$(xml_DATA)' '$xmldir'
uninstall-xml_DATA: $(xml_DATA)
$(RM) '$(xml_DATA)' '$xmldir'

2
src/external/Nonlocal/PNL_StartupHandlerLinkDef.h vendored
View File

@ -5,8 +5,6 @@
Author: Andreas Suter
e-mail: andreas.suter@psi.ch
$Id$
***************************************************************************/
/***************************************************************************

4
src/external/libBNMR/Makefile.libBNMR vendored
View File

@ -46,11 +46,11 @@ clean:; @rm -f $(OBJS) *Dict* core*
$(OBJS): %.o: %.cpp
$(CXX) $(INCLUDES) $(CXXFLAGS) -c $<
# Generate the ROOT CINT dictionary
# Generate the ROOT CLING dictionary
TlibBNMRDict.cpp: TBNMR.h TBNMRLinkDef.h
@echo "Generating dictionary $@..."
rootcint -f $@ -c -p -I$(ROOTINCLUDE) $^
rootcling -f $@ -c -p -I$(ROOTINCLUDE) $^
install: all
@echo "Installing shared lib: libTApproximation.so"

10
src/external/libPhotoMeissner/classes/Makefile.am vendored
View File

@ -65,13 +65,3 @@ uninstall-hook:
rm -f $(libdir)/libPPhotoMeissner.so
endif
# define default xml install
xmldir = $(HOME)/.musrfit/external
xml_DATA = ../test/photoMeissner_startup.xml
instal-xml_DATA: $(xml_DATA)
$(INSTALL_DATA) '$(xml_DATA)' '$(xmldir)'
uninstal-xml_DATA: $(xml_DATA)
$(RM) '$(xml_DATA)' '$(xmldir)'

10
src/external/libSpinValve/classes/Makefile.am vendored
View File

@ -65,13 +65,3 @@ uninstall-hook:
rm -f $(libdir)/libPSpinValve.so
endif
# define default xml install
xmldir = $(HOME)/.musrfit/external
xml_DATA = ../test/spinValve_startup.xml
instal-xml_DATA: $(xml_DATA)
$(INSTALL_DATA) '$(xml_DATA)' '$(xmldir)'
uninstal-xml_DATA: $(xml_DATA)
$(RM) '$(xml_DATA)' '$(xmldir)'

1
src/external/libSpinValve/test/spinValve_startup.xml vendored
View File

@ -1,7 +1,6 @@
<?xml version="1.0" encoding="UTF-8"?>
<spin_valve_proximity xmlns="http://nemu.web.psi.ch/musrfit/libSpinValve">
<comment>
$Id$
number_of_fields: number of sampling points in field around the Lorentzian peak
range: range in which the sampling points are placed, given in units of \beta(1\pm\Delta)
</comment>

28
src/git_revision.sh Executable file
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@ -0,0 +1,28 @@
#!/bin/bash
echo "Generating header for git hash" $1 $2
GIT_HEADER="$1/$2"
if [ -z "$2" ]; then
GIT_HEADER="$1/git-revision.h"
fi
GIT_BRANCH=`git rev-parse --abbrev-ref HEAD`
GIT_VERSION=`git log -n 1 --pretty=format:"%ad - %h"`
if grep --quiet "$GIT_VERSION" $GIT_HEADER; then
echo "No need to generate new $GIT_HEADER - git hash is unchanged"
exit 0;
fi
echo "git branch is : " $GIT_BRANCH
echo "git version is : " $GIT_VERSION
echo "#ifndef GIT_VERSION_H" > $GIT_HEADER
echo "#define GIT_VERSION_H" >> $GIT_HEADER
echo "" >> $GIT_HEADER
echo "#define GIT_BRANCH \"$GIT_BRANCH\"" >> $GIT_HEADER
echo "#define GIT_CURRENT_SHA1 \"$GIT_VERSION\"" >> $GIT_HEADER
echo "" >> $GIT_HEADER
echo "#endif //GIT_VERSION_H" >> $GIT_HEADER
echo "file is generated into" $GIT_HEADER

8
src/include/PFourier.h
View File

@ -34,6 +34,11 @@
#include "config.h"
#endif
//as the next 3 lines will need to be deleted as soon as DKS Fourier is back in place
#include <vector>
using namespace std;
#include "fftw3.h"
/*//as
#ifndef HAVE_DKS
#include <vector>
using namespace std;
@ -43,6 +48,7 @@ using namespace std;
using namespace std;
#include "DKSBase.h"
#endif
*/
#include "Minuit2/FCNBase.h"
@ -153,6 +159,7 @@ class PFourier
fftw_complex *fIn; ///< real part of the Fourier transform
fftw_complex *fOut; ///< imaginary part of the Fourier transform
/*//as
#ifdef HAVE_DKS
double *fInDKS; ///< real part of the Fourier transform
complex<double> *fOutDKS; ///< imaginary part of the Fourier transform
@ -160,6 +167,7 @@ class PFourier
void *fReal_ptr; ///< real part of the Fourier on accelartor
void *fComp_ptr; ///< imaginary part of the Fourier on the acclerator
#endif
*/
virtual void PrepareFFTwInputData(UInt_t apodizationTag);
virtual void ApodizeData(Int_t apodizationTag);

14
src/include/PMusrCanvas.h
View File

@ -45,10 +45,10 @@
#include <TLatex.h>
#include "PMusr.h"
#ifndef __MAKECINT__
#ifndef __MAKECLING__
#include "PMsrHandler.h"
#include "PRunListCollection.h"
#endif // __MAKECINT__
#endif // __MAKECLING__
#define YINFO 0.1
#define YTITLE 0.95
@ -197,7 +197,7 @@ typedef vector<PMusrCanvasAsciiDump> PMusrCanvasAsciiDumpVector;
//--------------------------------------------------------------------------
/**
* <p>The preprocessor tag __MAKECINT__ is used to hide away from rootcint
* <p>The preprocessor tag __MAKECLING__ is used to hide away from rootcling
* the overly complex spirit header files.
*/
class PMusrCanvas : public TObject, public TQObject
@ -216,10 +216,10 @@ class PMusrCanvas : public TObject, public TQObject
virtual Bool_t IsValid() { return fValid; }
#ifndef __MAKECINT__
#ifndef __MAKECLING__
virtual void SetMsrHandler(PMsrHandler *msrHandler);
virtual void SetRunListCollection(PRunListCollection *runList) { fRunList = runList; }
#endif // __MAKECINT__
#endif // __MAKECLING__
virtual void SetTimeout(Int_t ival);
virtual void UpdateParamTheoryPad();
@ -278,10 +278,10 @@ class PMusrCanvas : public TObject, public TQObject
TH1F *fHistoFrame; ///< fHistoFrame is a 'global' frame needed in order to plot histograms with (potentially) different x-frames
#ifndef __MAKECINT__
#ifndef __MAKECLING__
PMsrHandler *fMsrHandler; ///< msr-file handler
PRunListCollection *fRunList; ///< data handler
#endif // __MAKECINT__
#endif // __MAKECLING__
PMusrCanvasDataSet fDataAvg; ///< set of all averaged data to be plotted (asymmetry/single histogram)

14
src/include/PMusrT0.h
View File

@ -42,9 +42,9 @@
#include <TTimer.h>
#include "PMusr.h"
#ifndef __MAKECINT__
#ifndef __MAKECLING__
#include "PMsrHandler.h"
#endif // __MAKECINT__
#endif // __MAKECLING__
#define PMUSRT0_FORWARD 0
#define PMUSRT0_BACKWARD 1
@ -113,7 +113,7 @@ class PMusrT0Data {
//--------------------------------------------------------------------------
/**
* <p>Handles the musrt0 graphical user interface.
* <p>The preprocessor tag __MAKECINT__ is used to hide away from rootcint
* <p>The preprocessor tag __MAKECLING__ is used to hide away from rootcling
* the overly complex spirit header files.
*/
class PMusrT0 : public TObject, public TQObject
@ -131,18 +131,18 @@ class PMusrT0 : public TObject, public TQObject
virtual void Quit(); // SLOT
virtual void SetTimeout(Int_t timeout);
#ifndef __MAKECINT__
#ifndef __MAKECLING__
virtual void SetMsrHandler(PMsrHandler *msrHandler);
#endif // __MAKECINT__
#endif // __MAKECLING__
virtual void InitT0();
virtual void InitDataAndBkg();
virtual Int_t GetStatus() { return fStatus; }
private:
#ifndef __MAKECINT__
#ifndef __MAKECLING__
PMsrHandler *fMsrHandler; ///< msr-file handler
#endif // __MAKECINT__
#endif // __MAKECLING__
Int_t fTimeout; ///< timeout after which the Done signal should be emited. If timeout <= 0, no timeout is taking place
Bool_t fValid; ///< true if raw data set are available, otherwise false

26
src/msr2data.cpp
View File

@ -68,7 +68,7 @@ using namespace boost::algorithm;
*/
bool isNumber(const string &s)
{
unsigned int number;
unsigned int number(0);
try {
number = boost::lexical_cast<unsigned int>(s);
return true;
@ -123,8 +123,10 @@ void msr2data_syntax()
cout << endl << " the successive files are generated using the musrfit output from the preceding runs";
cout << endl << " msr-<template> : same as above without calling musrfit";
cout << endl << " In case any fitting option is present, this option is ignored!";
cout << endl << " -k : if fitting is used, pass the option --keep-mn2-output to musrfit";
cout << endl << " -t : if fitting is used, pass the option --title-from-data-file to musrfit";
cout << endl << " -k, --keep-mn2-output : if fitting is used, pass the option --keep-mn2-output to musrfit";
cout << endl << " -t, --title-from-data-file : if fitting is used, pass the option --title-from-data-file to musrfit";
cout << endl << " -e, --estimateN0: estimate N0 for single histogram fits.";
cout << endl << " -p, --per-run-block-chisq: will per run block chisq to the msr-file.";
cout << endl;
cout << endl << " global : switch on the global-fit mode";
cout << endl << " Within that mode all specified runs will be united in a single msr file!";
@ -216,7 +218,10 @@ string msr2data_validArguments(const vector<string> &arg)
for (vector<string>::const_iterator iter(arg.begin()); iter != arg.end(); ++iter) {
if ( (!iter->compare("header")) || (!iter->compare("noheader")) || (!iter->compare("nosummary")) \
|| (!iter->substr(0,3).compare("fit")) || (!iter->compare("-k")) || (!iter->compare("-t")) \
|| (!iter->substr(0,3).compare("fit")) || (!iter->compare("-k")) || (!iter->compare("--keep-mn2-output")) \
|| (!iter->compare("-t")) || (!iter->compare("--title-from-data-file")) \
|| (!iter->compare("-e")) || (!iter->compare("--estimateN0")) \
|| (!iter->compare("-p")) || (!iter->compare("--per-run-block-chisq")) \
|| (!iter->compare("data")) || (!iter->substr(0,4).compare("msr-")) || (!iter->compare("global")) \
|| (!iter->compare("global+")) || (!iter->compare("global+!")) || (!iter->compare("new")) \
|| !iter->compare("paramList") )
@ -265,6 +270,7 @@ string msr2data_outputfile(vector<string> &arg, bool db = true)
if (!iter->compare("-o")) {
if ((iterNext != arg.end()) && (iterNext->compare("header")) && (iterNext->compare("noheader")) && (iterNext->compare("nosummary")) \
&& (iterNext->substr(0,3).compare("fit")) && (iterNext->compare("-k")) && (iterNext->compare("-t")) \
&& (iterNext->compare("-e")) && (iterNext->compare("-p")) \
&& (iterNext->compare("data")) && (iterNext->substr(0,3).compare("msr")) && (iterNext->compare("global")) \
&& (iterNext->compare("global+")) && (iterNext->compare("global+!")) && (iterNext->compare("new"))) {
outputFile = *iterNext;
@ -510,9 +516,9 @@ int main(int argc, char *argv[])
return 0;
} else if (!strcmp(argv[1], "--version")) {
#ifdef HAVE_CONFIG_H
cout << endl << "msr2data version: " << PACKAGE_VERSION << ", git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "msr2data version: " << PACKAGE_VERSION << ", git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#else
cout << endl << "msr2data git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "msr2data git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#endif
return 0;
} else {
@ -741,10 +747,14 @@ int main(int argc, char *argv[])
// check if any options should be passed to musrfit
if (temp) {
if (!msr2data_useOption(arg, "-k"))
if (!msr2data_useOption(arg, "-k") || !msr2data_useOption(arg, "--keep-mn2-output"))
musrfitOptions.append("-k ");
if (!msr2data_useOption(arg, "-t"))
if (!msr2data_useOption(arg, "-t") || !msr2data_useOption(arg, "--title-from-data-file"))
musrfitOptions.append("-t ");
if (!msr2data_useOption(arg, "-e") || !msr2data_useOption(arg, "--estimateN0"))
musrfitOptions.append("-e ");
if (!msr2data_useOption(arg, "-p") || !msr2data_useOption(arg, "--per-run-block-chisq"))
musrfitOptions.append("-p ");
}
// if no fitting should be done, check if only the input files should be created

4
src/musrFT.cpp
View File

@ -305,9 +305,9 @@ Int_t musrFT_parse_options(Int_t argc, Char_t *argv[], musrFT_startup_param &sta
tstr = argv[i];
if (tstr.BeginsWith("--version")) {
#ifdef HAVE_CONFIG_H
cout << endl << "musrFT version: " << PACKAGE_VERSION << ", git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "musrFT version: " << PACKAGE_VERSION << ", git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#else
cout << endl << "musrFT git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "musrFT git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#endif
return 1;
} else if (tstr.BeginsWith("--help")) {

4
src/musrRootValidation.cpp
View File

@ -575,9 +575,9 @@ int main(int argc, char *argv[])
} else if (argc==2) {
if (!strcmp(argv[1], "--version")) {
#ifdef HAVE_CONFIG_H
cout << endl << "musrRootValidation version: " << PACKAGE_VERSION << ", git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "musrRootValidation version: " << PACKAGE_VERSION << ", git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#else
cout << endl << "musrRootValidation git-rev: " << GIT_REVISION << endl << endl;
cout << endl << "musrRootValidation git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1 << endl << endl;
#endif
return 0;
} else {

335
src/musredit/PAdmin.cpp
View File

@ -36,7 +36,10 @@ using namespace std;
#include <QFile>
#include <QTextStream>
#include <QVector>
#include <QDir>
#include <QProcessEnvironment>
#include "musrfit-info.h"
#include "PAdmin.h"
//--------------------------------------------------------------------------
@ -294,6 +297,7 @@ bool PAdminXMLParser::characters(const QString& str)
flag = true;
else
flag = false;
fAdmin->fMsr2DataParam.estimateN0 = flag;
fAdmin->setEstimateN0Flag(flag);
break;
case eChisqPreRunBlock:
@ -301,6 +305,7 @@ bool PAdminXMLParser::characters(const QString& str)
flag = true;
else
flag = false;
fAdmin->fMsr2DataParam.perRunBlockChisq = flag;
fAdmin->setChisqPerRunBlockFlag(flag);
break;
case eRecentFile:
@ -576,13 +581,21 @@ QString PAdminXMLParser::expandPath(const QString &str)
QString msg;
QString newStr="";
QProcessEnvironment procEnv = QProcessEnvironment::systemEnvironment();
QStringList list = str.split("/");
for ( QStringList::Iterator it = list.begin(); it != list.end(); ++it ) {
token = *it;
if (token.contains("$")) {
token.remove('$');
path = std::getenv(token.toLatin1());
if (!procEnv.contains(token)) {
msg = QString("Couldn't find '%1'. Some things might not work properly").arg(token);
QMessageBox::warning(0, "**WARNING**", msg, QMessageBox::Ok, QMessageBox::NoButton);
newStr = "";
break;
}
path = procEnv.value(token, "");
if (path.isEmpty()) {
msg = QString("Couldn't expand '%1'. Some things might not work properly").arg(token);
QMessageBox::warning(0, "**WARNING**", msg, QMessageBox::Ok, QMessageBox::NoButton);
@ -631,8 +644,6 @@ PAdmin::PAdmin() : QObject()
fEstimateN0 = true;
fChisqPreRunBlock = false;
fMsr2DataParam.firstRun = -1;
fMsr2DataParam.lastRun = -1;
fMsr2DataParam.runList = QString("");
fMsr2DataParam.runListFileName = QString("");
fMsr2DataParam.msrFileExtension = QString("");
@ -641,10 +652,12 @@ PAdmin::PAdmin() : QObject()
fMsr2DataParam.writeDbHeader = true;
fMsr2DataParam.ignoreDataHeaderInfo = false;
fMsr2DataParam.keepMinuit2Output = false;
fMsr2DataParam.estimateN0 = fEstimateN0;
fMsr2DataParam.writeColumnData = false;
fMsr2DataParam.recreateDbFile = false;
fMsr2DataParam.chainFit = true;
fMsr2DataParam.openFilesAfterFitting = true;
fMsr2DataParam.perRunBlockChisq = fChisqPreRunBlock;
fMsr2DataParam.titleFromDataFile = true;
fMsr2DataParam.createMsrFileOnly = false;
fMsr2DataParam.fitOnly = false;
@ -656,18 +669,25 @@ PAdmin::PAdmin() : QObject()
QString path = QString("./");
QString fln = QString("musredit_startup.xml");
QString pathFln = path + fln;
QProcessEnvironment procEnv = QProcessEnvironment::systemEnvironment();
if (!QFile::exists(pathFln)) {
// 2nd: check $HOME/.musrfit/musredit/musredit_startup.xml
path = std::getenv("HOME");
path = procEnv.value("HOME", "");
pathFln = path + "/.musrfit/musredit/" + fln;
if (!QFile::exists(pathFln)) {
// 3rd: check $MUSRFITPATH/musredit_startup.xml
path = std::getenv("MUSRFITPATH");
path = procEnv.value("MUSRFITPATH", "");
pathFln = path + "/" + fln;
if (!QFile::exists(pathFln)) {
// 4th: check $ROOTSYS/bin/musredit_startup.xml
path = std::getenv("ROOTSYS");
path = procEnv.value("ROOTSYS", "");
pathFln = path + "/bin/" + fln;
if (!QFile::exists(pathFln)) {
// 5th: not found anyware hence create it
path = procEnv.value("HOME", "");
pathFln = path + "/.musrfit/musredit/" + fln;
createMusreditStartupFile();
}
}
}
}
@ -859,6 +879,12 @@ int PAdmin::savePrefs(QString pref_fln)
else
data[i] = " <enable_musrt0>n</enable_musrt0>";
}
if (data[i].contains("<font_name>") && data[i].contains("</font_name>")) {
data[i] = QString(" <font_name>%1</font_name>").arg(fFontName);
}
if (data[i].contains("<font_size>") && data[i].contains("</font_size>")) {
data[i] = QString(" <font_size>%1</font_size>").arg(fFontSize);
}
}
// write prefs
@ -908,6 +934,7 @@ void PAdmin::saveRecentFiles()
{
// check if musredit_startup.xml is present in the current directory, and if yes, use this file to
// save the recent file names otherwise use the "master" musredit_startup.xml
QString str("");
QString fln = QString("./musredit_startup.xml");
if (!QFile::exists(fln))
@ -965,6 +992,302 @@ void PAdmin::saveRecentFiles()
}
}
//--------------------------------------------------------------------------
/**
* @brief PAdmin::createMusreditStartupFile
*/
void PAdmin::createMusreditStartupFile()
{
// get $HOME
QProcessEnvironment procEnv = QProcessEnvironment::systemEnvironment();
QString pathName = procEnv.value("HOME", "");
pathName += "/.musrfit/musredit";
// check if the directory $HOME/.musrfit/musredit exists if not create it
QDir dir(pathName);
if (!dir.exists()) {
// directory $HOME/.musrfit/musredit does not exist hence create it
dir.mkpath(pathName);
}
// create default musredit_startup.xml file in $HOME/.musrfit/musredit
pathName += "/musredit_startup.xml";
QFile file(pathName);
if (!file.open(QIODevice::WriteOnly | QIODevice::Text))
return;
QTextStream fout(&file);
fout << "<?xml version=\"1.0\" encoding=\"UTF-8\"?>" << endl;
fout << "<musredit_startup xmlns=\"http://lmu.web.psi.ch/musrfit/user/MUSR/MusrGui.html\">" << endl;
fout << " <comment>" << endl;
fout << " This is handling default setting parameters for the musredit." << endl;
fout << " </comment>" << endl;
fout << " <general>" << endl;
fout << " <exec_path>" << MUSRFIT_PREFIX << "/bin</exec_path>" << endl;
fout << " <default_save_path>./</default_save_path>" << endl;
fout << " <msr_default_file_path>" << MUSRFIT_DOC_DIR << "/templates</msr_default_file_path>" << endl;
fout << " <timeout>3600</timeout>" << endl;
fout << " <keep_minuit2_output>n</keep_minuit2_output>" << endl;
fout << " <dump_ascii>n</dump_ascii>" << endl;
fout << " <dump_root>n</dump_root>" << endl;
fout << " <title_from_data_file>y</title_from_data_file>" << endl;
fout << " <chisq_per_run_block>n</chisq_per_run_block>" << endl;
fout << " <estimate_n0>y</estimate_n0>" << endl;
fout << " <musrview_show_fourier>n</musrview_show_fourier>" << endl;
fout << " <musrview_show_avg>n</musrview_show_avg>" << endl;
fout << " <enable_musrt0>y</enable_musrt0>" << endl;
fout << " </general>" << endl;
fout << " <recent_files>" << endl;
fout << " <path_file_name>" << MUSRFIT_DOC_DIR << "/examples/test-histo-PSI-BIN.msr</path_file_name>" << endl;
fout << " </recent_files>" << endl;
fout << " <help_section>" << endl;
fout << " <musr_web_main>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html</musr_web_main>" << endl;
fout << " <musr_web_title>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheTitle</musr_web_title>" << endl;
fout << " <musr_web_parameters>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheFitparameterBlock</musr_web_parameters>" << endl;
fout << " <musr_web_theory>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheTheoryBlock</musr_web_theory>" << endl;
fout << " <musr_web_functions>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheFunctionsBlock</musr_web_functions>" << endl;
fout << " <musr_web_run>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheRunBlock</musr_web_run>" << endl;
fout << " <musr_web_command>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheCommandsBlock</musr_web_command>" << endl;
fout << " <musr_web_fourier>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheFourierBlock</musr_web_fourier>" << endl;
fout << " <musr_web_plot>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#ThePlotBlock</musr_web_plot>" << endl;
fout << " <musr_web_statistic>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#TheStatisticBlock</musr_web_statistic>" << endl;
fout << " <musr_web_msr2data>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/Msr2Data.html</musr_web_msr2data>" << endl;
fout << " <musr_web_musrFT>file://" << MUSRFIT_DOC_DIR << "/html/user/MUSR/MusrFit.html#A_2.3_musrFT</musr_web_musrFT>" << endl;
fout << " </help_section>" << endl;
fout << " <font_settings>" << endl;
#ifdef Q_OS_MAC
fout << " <font_name>Courier New</font_name>" << endl;
fout << " <font_size>16</font_size>" << endl;
#else
fout << " <font_name>Monospace</font_name>" << endl;
fout << " <font_size>12</font_size>" << endl;
#endif
fout << " </font_settings>" << endl;
fout << " <msr_file_defaults>" << endl;
fout << " <beamline>mue4</beamline>" << endl;
fout << " <institute>psi</institute>" << endl;
fout << " <file_format>root-npp</file_format>" << endl;
fout << " <lifetime_correction>y</lifetime_correction>" << endl;
fout << " </msr_file_defaults>" << endl;
fout << " <msr2data_defaults>" << endl;
fout << " <chain_fit>y</chain_fit>" << endl;
fout << " <write_data_header>y</write_data_header>" << endl;
fout << " <ignore_data_header_info>n</ignore_data_header_info>" << endl;
fout << " <keep_minuit2_output>n</keep_minuit2_output>" << endl;
fout << " <write_column_data>n</write_column_data>" << endl;
fout << " <recreate_data_file>n</recreate_data_file>" << endl;
fout << " <open_file_after_fitting>y</open_file_after_fitting>" << endl;
fout << " <create_msr_file_only>n</create_msr_file_only>" << endl;
fout << " <fit_only>n</fit_only>" << endl;
fout << " <global>n</global>" << endl;
fout << " <global_plus>n</global_plus>" << endl;
fout << " </msr2data_defaults>" << endl;
fout << " <func_pixmap_path>" << MUSRFIT_DOC_DIR << "/latex_images</func_pixmap_path>" << endl;
fout << " <theory_functions>" << endl;
fout << " <func>" << endl;
fout << " <name>asymmetry</name>" << endl;
fout << " <comment></comment>" << endl;
fout << " <label>Asymmetry</label>" << endl;
fout << " <pixmap>asymmetry.png</pixmap>" << endl;
fout << " <params>1</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>simplExpo</name>" << endl;
fout << " <comment>(rate)</comment>" << endl;
fout << " <label>simple Exp</label>" << endl;
fout << " <pixmap>simpleExp.png</pixmap>" << endl;
fout << " <params>1</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>generExpo</name>" << endl;
fout << " <comment>(rate exponent)</comment>" << endl;
fout << " <label>general Exp</label>" << endl;
fout << " <pixmap>generalExp.png</pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>simpleGss</name>" << endl;
fout << " <comment>(rate)</comment>" << endl;
fout << " <label>simple Gauss</label>" << endl;
fout << " <pixmap>simpleGauss.png</pixmap>" << endl;
fout << " <params>1</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>statGssKT</name>" << endl;
fout << " <comment>(rate)</comment>" << endl;
fout << " <label>static Gauss KT</label>" << endl;
fout << " <pixmap>statGssKT.png</pixmap>" << endl;
fout << " <params>1</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>statGssKTLF</name>" << endl;
fout << " <comment>(frequency damping)</comment>" << endl;
fout << " <label>static Gauss KT LF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>dynGssKTLF</name>" << endl;
fout << " <comment>(frequency damping hopping-rate)</comment>" << endl;
fout << " <label>dynamic Gauss KT LF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>3</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>statExpKT</name>" << endl;
fout << " <comment>(rate)</comment>" << endl;
fout << " <label>static Lorentz KT</label>" << endl;
fout << " <pixmap>statExpKT.png</pixmap>" << endl;
fout << " <params>1</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>statExpKTLF</name>" << endl;
fout << " <comment>(frequency damping)</comment>" << endl;
fout << " <label>static Lorentz KT LF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>dynExpKTLF</name>" << endl;
fout << " <comment>(frequency damping hopping-rate)</comment>" << endl;
fout << " <label>dynamic Lorentz KT LF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>3</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>combiLGKT</name>" << endl;
fout << " <comment>(lorentzRate gaussRate)</comment>" << endl;
fout << " <label>combined Lorentz-Gauss KT</label>" << endl;
fout << " <pixmap>combiLGKT.png</pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>strKT</name>" << endl;
fout << " <comment>(rate beta)</comment>" << endl;
fout << " <label>stretched Kubo-Toyabe</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>spinGlass</name>" << endl;
fout << " <comment>(rate hopping-rate order)</comment>" << endl;
fout << " <label>zero field spin glass function</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>3</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>rdAnisoHf</name>" << endl;
fout << " <comment>(frequency rate)</comment>" << endl;
fout << " <label>random anisotropic hyperfine function</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>abragam</name>" << endl;
fout << " <comment>(rate hopping-rate)</comment>" << endl;
fout << " <label>Abragam</label>" << endl;
fout << " <pixmap>abragam.png</pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>TFieldCos</name>" << endl;
fout << " <comment>(phase frequency)</comment>" << endl;
fout << " <label>TF cos</label>" << endl;
fout << " <pixmap>tfCos.png</pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>internFld</name>" << endl;
fout << " <comment>(fraction phase frequency Trate Lrate)</comment>" << endl;
fout << " <label>internal Lorentz field</label>" << endl;
fout << " <pixmap>internalField.png</pixmap>" << endl;
fout << " <params>5</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>internFldGK</name>" << endl;
fout << " <comment>(fraction frequency Trate Lrate beta)</comment>" << endl;
fout << " <label>internal field, Gaussian broadened</label>" << endl;
fout << " <pixmap>internalFieldGK.png</pixmap>" << endl;
fout << " <params>5</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>internFldLL</name>" << endl;
fout << " <comment>(fraction frequency Trate Lrate)</comment>" << endl;
fout << " <label>internal field, Lorentzian broadened</label>" << endl;
fout << " <pixmap>internalFieldLL.png</pixmap>" << endl;
fout << " <params>4</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>bessel</name>" << endl;
fout << " <comment>(phase frequency)</comment>" << endl;
fout << " <label>spherical Bessel 0th order</label>" << endl;
fout << " <pixmap>bessel.png</pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>internBsl</name>" << endl;
fout << " <comment>(fraction phase frequency Trate Lrate)</comment>" << endl;
fout << " <label>static internal Bessel</label>" << endl;
fout << " <pixmap>internalBessel.png</pixmap>" << endl;
fout << " <params>5</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>skewedGss</name>" << endl;
fout << " <comment>(phase frequency rate_m rate_p)</comment>" << endl;
fout << " <label>skewed Gaussian</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>4</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>staticNKZF</name>" << endl;
fout << " <comment>(damping_D0 R_b)</comment>" << endl;
fout << " <label>static Noakes-Kalvius ZF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>2</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>staticNKTF</name>" << endl;
fout << " <comment>(phase frequency damping_D0 R_b)</comment>" << endl;
fout << " <label>static Noakes-Kalvius TF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>4</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>dynamicNKZF</name>" << endl;
fout << " <comment>(damping_D0 R_b nu_c)</comment>" << endl;
fout << " <label>dynamic Noakes-Kalvius ZF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>3</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>dynamicNKTF</name>" << endl;
fout << " <comment>(phase frequency damping_D0 R_b nu_c)</comment>" << endl;
fout << " <label>dynamic Noakes-Kalvius TF</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>5</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>polynom</name>" << endl;
fout << " <comment>(tshift p0 p1 ... pn)</comment>" << endl;
fout << " <label>polynom</label>" << endl;
fout << " <pixmap>polynom.png</pixmap>" << endl;
fout << " <params>4</params>" << endl;
fout << " </func>" << endl;
fout << " <func>" << endl;
fout << " <name>userFcn</name>" << endl;
fout << " <comment></comment>" << endl;
fout << " <label>user function</label>" << endl;
fout << " <pixmap></pixmap>" << endl;
fout << " <params>0</params>" << endl;
fout << " </func>" << endl;
fout << " </theory_functions>" << endl;
fout << "</musredit_startup>" << endl;
file.close();
}
//--------------------------------------------------------------------------
// END
//--------------------------------------------------------------------------

1
src/musredit/PAdmin.h
View File

@ -209,6 +209,7 @@ class PAdmin : public QObject
QVector<PTheory> fTheory; ///< stores all known theories. Needed when generating theory blocks from within musredit.
void saveRecentFiles(); ///< save recent file list
void createMusreditStartupFile(); ///< create default musredit_startup.xml
};
#endif // _PADMIN_H_

82
src/musredit/PMsr2DataDialog.cpp
View File

@ -54,18 +54,6 @@ PMsr2DataDialog::PMsr2DataDialog(PMsr2DataParam *msr2DataParam, const QString he
fRunTag = -1;
fFirst_lineEdit->setValidator( new QIntValidator(fFirst_lineEdit) );
if (fMsr2DataParam->firstRun != -1) {
str = QString("%1").arg(fMsr2DataParam->firstRun);
fFirst_lineEdit->setText(str);
}
fLast_lineEdit->setValidator( new QIntValidator(fLast_lineEdit) );
if (fMsr2DataParam->lastRun != -1) {
str = QString("%1").arg(fMsr2DataParam->lastRun);
fLast_lineEdit->setText(str);
}
if (!fMsr2DataParam->runListFileName.isEmpty()) {
fRunListFileName_lineEdit->setText(fMsr2DataParam->runListFileName);
}
@ -95,10 +83,12 @@ PMsr2DataDialog::PMsr2DataDialog(PMsr2DataParam *msr2DataParam, const QString he
fWriteDataHeader_checkBox->setChecked(fMsr2DataParam->writeDbHeader);
fIgnoreDataHeaderInfo_checkBox->setChecked(fMsr2DataParam->ignoreDataHeaderInfo);
fKeepMinuit2Output_checkBox->setChecked(fMsr2DataParam->keepMinuit2Output);
fEstimateN0_checkBox->setChecked(fMsr2DataParam->estimateN0);
fWriteColumnData_checkBox->setChecked(fMsr2DataParam->writeColumnData);
fRecreateDataFile_checkBox->setChecked(fMsr2DataParam->recreateDbFile);
fChainFit_checkBox->setChecked(fMsr2DataParam->chainFit);
fOpenFilesAfterFitting_checkBox->setChecked(fMsr2DataParam->openFilesAfterFitting);
fWritePerRunBlockChisq_checkBox->setChecked(fMsr2DataParam->perRunBlockChisq);
fTitleFromData_checkBox->setChecked(fMsr2DataParam->titleFromDataFile);
fCreateMsrFileOnly_checkBox->setChecked(fMsr2DataParam->createMsrFileOnly);
fFitOnly_checkBox->setChecked(fMsr2DataParam->fitOnly);
@ -115,16 +105,6 @@ PMsr2DataDialog::PMsr2DataDialog(PMsr2DataParam *msr2DataParam, const QString he
*/
PMsr2DataParam* PMsr2DataDialog::getMsr2DataParam()
{
if (fFirst_lineEdit->text().isEmpty()) {
fMsr2DataParam->firstRun = -1;
} else {
fMsr2DataParam->firstRun = fFirst_lineEdit->text().toInt();
}
if (fLast_lineEdit->text().isEmpty()) {
fMsr2DataParam->lastRun = -1;
} else {
fMsr2DataParam->lastRun = fLast_lineEdit->text().toInt();
}
fMsr2DataParam->runList = fRunList_lineEdit->text();
fMsr2DataParam->runListFileName = fRunListFileName_lineEdit->text();
fMsr2DataParam->msrFileExtension = fMsrFileExtension_lineEdit->text();
@ -138,10 +118,12 @@ PMsr2DataParam* PMsr2DataDialog::getMsr2DataParam()
fMsr2DataParam->writeDbHeader = fWriteDataHeader_checkBox->isChecked();
fMsr2DataParam->ignoreDataHeaderInfo = fIgnoreDataHeaderInfo_checkBox->isChecked();
fMsr2DataParam->keepMinuit2Output = fKeepMinuit2Output_checkBox->isChecked();
fMsr2DataParam->estimateN0 = fEstimateN0_checkBox->isChecked();
fMsr2DataParam->writeColumnData = fWriteColumnData_checkBox->isChecked();
fMsr2DataParam->recreateDbFile = fRecreateDataFile_checkBox->isChecked();
fMsr2DataParam->chainFit = fChainFit_checkBox->isChecked();
fMsr2DataParam->openFilesAfterFitting = fOpenFilesAfterFitting_checkBox->isChecked();
fMsr2DataParam->perRunBlockChisq = fWritePerRunBlockChisq_checkBox->isChecked();
fMsr2DataParam->titleFromDataFile = fTitleFromData_checkBox->isChecked();
fMsr2DataParam->createMsrFileOnly = fCreateMsrFileOnly_checkBox->isChecked();
fMsr2DataParam->fitOnly = fFitOnly_checkBox->isChecked();
@ -151,50 +133,6 @@ PMsr2DataParam* PMsr2DataDialog::getMsr2DataParam()
return fMsr2DataParam;
}
//----------------------------------------------------------------------------------------------------
/**
* <p>SLOT: called when in the 'Run List Input', the 'First' text field is activated. It clears any
* entries in 'Run List' and 'Run List File Name'. It furthermore sets the run tag.
*
* \param str string content of the QTextEdit field.
*/
void PMsr2DataDialog::runFirstEntered(const QString &str)
{
if (str.length() == 0)
return;
fRunTag = 0;
if (!fRunList_lineEdit->text().isEmpty())
fRunList_lineEdit->clear();
if (!fRunListFileName_lineEdit->text().isEmpty())
fRunListFileName_lineEdit->clear();
}
//----------------------------------------------------------------------------------------------------
/**
* <p>SLOT: called when in the 'Run List Input', the 'Last' text field is activated. It clears any
* entries in 'Run List' and 'Run List File Name'. It furthermore sets the run tag.
*
* \param str string content of the QTextEdit field.
*/
void PMsr2DataDialog::runLastEntered(const QString &str)
{
if (str.length() == 0)
return;
fRunTag = 0;
if (!fRunList_lineEdit->text().isEmpty())
fRunList_lineEdit->clear();
if (!fRunListFileName_lineEdit->text().isEmpty())
fRunListFileName_lineEdit->clear();
if (fLast_lineEdit->text().length() == 1)
fLast_lineEdit->update();
}
//----------------------------------------------------------------------------------------------------
/**
* <p>SLOT: called when in the 'Run List Input', the 'Run List' text field is activated. It clears any
@ -207,12 +145,8 @@ void PMsr2DataDialog::runListEntered(const QString &str)
if (str.length() == 0)
return;
fRunTag = 1;
fRunTag = 0;
if (!fFirst_lineEdit->text().isEmpty())
fFirst_lineEdit->clear();
if (!fLast_lineEdit->text().isEmpty())
fLast_lineEdit->clear();
if (!fRunListFileName_lineEdit->text().isEmpty())
fRunListFileName_lineEdit->clear();
}
@ -229,12 +163,8 @@ void PMsr2DataDialog::runListFileNameEntered(const QString &str)
if (str.length() == 0)
return;
fRunTag = 2;
fRunTag = 1;
if (!fFirst_lineEdit->text().isEmpty())
fFirst_lineEdit->clear();
if (!fLast_lineEdit->text().isEmpty())
fLast_lineEdit->clear();
if (!fRunList_lineEdit->text().isEmpty())
fRunList_lineEdit->clear();
}

4
src/musredit/PMsr2DataDialog.h
View File

@ -51,8 +51,6 @@ class PMsr2DataDialog : public QDialog, private Ui::PMsr2DataDialog
virtual PMsr2DataParam* getMsr2DataParam();
public slots:
void runFirstEntered(const QString&);
void runLastEntered(const QString&);
void runListEntered(const QString&);
void runListFileNameEntered(const QString&);
void templateRunEntered(const QString&);
@ -65,7 +63,7 @@ class PMsr2DataDialog : public QDialog, private Ui::PMsr2DataDialog
void globalPlusOptionSet(bool checked);
private:
int fRunTag; ///< -1 = not valid, 0 = first last, 1 = run list, 2 = run list file name
int fRunTag; ///< -1 = not valid, 0 = run list, 1 = run list file name
PMsr2DataParam *fMsr2DataParam; ///< data structure used to handle the necessary input for msr2data.
QString fHelpUrl; ///< help url for the Fourier block
};

25
src/musredit/PSubTextEdit.cpp
View File

@ -62,6 +62,31 @@ PSubTextEdit::PSubTextEdit(PAdmin *admin, QWidget *parent) :
{
}
//----------------------------------------------------------------------------------------------------
/**
* @brief PSubTextEdit::getFitType
* @return
*/
int PSubTextEdit::getFitType()
{
QString str = toPlainText();
int idx = str.indexOf("fittype");
if (idx == -1)
return -1;
bool ok;
for (int i=idx+7; i<str.length(); i++) {
if (str[i] != ' ') {
idx = QString(str[i]).toInt(&ok);
if (!ok)
idx = -1;
break;
}
}
return idx;
}
//----------------------------------------------------------------------------------------------------
/**
* <p>Starts the msr-title input dialog window.

1
src/musredit/PSubTextEdit.h
View File

@ -46,6 +46,7 @@ class PSubTextEdit : public QPlainTextEdit
public:
PSubTextEdit(PAdmin *admin = 0, QWidget *parent = 0);
virtual ~PSubTextEdit() {}
int getFitType();
public slots:
void insertTitle();

63
src/musredit/PTextEdit.cpp
View File

@ -1700,7 +1700,8 @@ void PTextEdit::musrCalcChisq()
return;
int result = 0;
if (fAdmin->getEstimateN0Flag())
int fittype = currentEditor()->getFitType();
if (fAdmin->getEstimateN0Flag() && ((fittype==0) || (fittype==4)))
result = QMessageBox::question(this, "Estimate N0 active",
"Do you wish a chisq/mlh evaluation with an automatic N0 estimate?",
QMessageBox::Yes, QMessageBox::No);
@ -1722,7 +1723,7 @@ void PTextEdit::musrCalcChisq()
cmd.append(str);
cmd.append(QFileInfo(*fFilenames.find( currentEditor())).fileName() );
cmd.append("--chisq-only");
if (fAdmin->getEstimateN0Flag() && (result == QMessageBox::Yes))
if (fAdmin->getEstimateN0Flag() && (result == QMessageBox::Yes) && ((fittype==0) || (fittype==4)))
cmd.append("--estimateN0");
PFitOutputHandler fitOutputHandler(QFileInfo(*fFilenames.find( currentEditor() )).absolutePath(), cmd);
fitOutputHandler.setModal(true);
@ -1853,6 +1854,8 @@ void PTextEdit::musrMsr2Data()
// init fMsr2DataParam
fMsr2DataParam->keepMinuit2Output = fAdmin->getKeepMinuit2OutputFlag();
fMsr2DataParam->titleFromDataFile = fAdmin->getTitleFromDataFileFlag();
fMsr2DataParam->estimateN0 = fAdmin->getEstimateN0Flag();
fMsr2DataParam->perRunBlockChisq = fAdmin->getChisqPerRunBlockFlag();
PMsr2DataDialog *dlg = new PMsr2DataDialog(fMsr2DataParam, fAdmin->getHelpUrl("msr2data"));
@ -1874,6 +1877,8 @@ void PTextEdit::musrMsr2Data()
fMsr2DataParam = dlg->getMsr2DataParam();
fAdmin->setKeepMinuit2OutputFlag(fMsr2DataParam->keepMinuit2Output);
fAdmin->setTitleFromDataFileFlag(fMsr2DataParam->titleFromDataFile);
fAdmin->setEstimateN0Flag(fMsr2DataParam->estimateN0);
fAdmin->setChisqPerRunBlockFlag(fMsr2DataParam->perRunBlockChisq);
// analyze parameters
switch (dlg->getRunTag()) {
@ -1883,20 +1888,10 @@ void PTextEdit::musrMsr2Data()
QMessageBox::Ok, QMessageBox::NoButton);
return;
break;
case 0: // first last
first = QString("%1").arg(fMsr2DataParam->firstRun);
last = QString("%1").arg(fMsr2DataParam->lastRun);
if (first.isEmpty() || last.isEmpty()) {
QMessageBox::critical(this, "**ERROR**",
"If you choose the first/last option,\nfirst AND last needs to be provided.",
QMessageBox::Ok, QMessageBox::NoButton);
return;
}
break;
case 1: // run list
case 0: // run list
runList = fMsr2DataParam->runList;
break;
case 2: // run list file name
case 1: // run list file name
runListFileName = fMsr2DataParam->runListFileName;
fi.setFile(QFileInfo(*fFilenames.find( currentEditor() )).absolutePath() + "/" + runListFileName);
if (!fi.exists()) {
@ -1923,10 +1918,6 @@ void PTextEdit::musrMsr2Data()
// run list argument
switch (dlg->getRunTag()) {
case 0:
cmd.append(first);
cmd.append(last);
break;
case 1:
end = 0;
while (!runList.section(' ', end, end, QString::SectionSkipEmpty).isEmpty()) {
end++;
@ -1947,7 +1938,7 @@ void PTextEdit::musrMsr2Data()
cmd.append(str);
}
break;
case 2:
case 1:
cmd.append(runListFileName);
break;
default:
@ -2012,6 +2003,16 @@ void PTextEdit::musrMsr2Data()
cmd.append("-t");
}
// estimate N0 (for single histo and muMinus). Add flag only if a fit is done
if (fMsr2DataParam->estimateN0 && (fMsr2DataParam->fitOnly || fMsr2DataParam->templateRunNo != -1)) {
cmd.append("-e");
}
// write per-run-block chisq. Add flag only if a fit is done
if (fMsr2DataParam->perRunBlockChisq && (fMsr2DataParam->fitOnly || fMsr2DataParam->templateRunNo != -1)) {
cmd.append("-p");
}
// DB output wished
if (!fMsr2DataParam->dbOutputFileName.isEmpty()) {
str = "-o" + fMsr2DataParam->dbOutputFileName;
@ -2056,19 +2057,7 @@ void PTextEdit::musrMsr2Data()
if (!fMsr2DataParam->global) { // standard fits
switch(dlg->getRunTag()) {
case 0: // first run / last run list
if (fMsr2DataParam->firstRun != -1) {
for (int i=fMsr2DataParam->firstRun; i<=fMsr2DataParam->lastRun; i++) {
if (fMsr2DataParam->msrFileExtension.isEmpty())
fln = QString("%1").arg(i) + ".msr";
else
fln = QString("%1").arg(i) + fMsr2DataParam->msrFileExtension + ".msr";
load(QFileInfo(*fFilenames.find( currentEditor() )).absolutePath() + "/" + fln);
}
}
break;
case 1: // run list
case 0: // run list
list = getRunList(runList, ok);
if (!ok)
return;
@ -2082,7 +2071,7 @@ void PTextEdit::musrMsr2Data()
load(QFileInfo(*fFilenames.find( currentEditor() )).absolutePath() + "/" + fln);
}
break;
case 2: // run list file
case 1: // run list file
file = new QFile(QFileInfo(*fFilenames.find( currentEditor() )).absolutePath() + "/" + fMsr2DataParam->runListFileName);
if (!file->open(QIODevice::ReadOnly)) {
str = QString("Couldn't open run list file %1, sorry.").arg(fMsr2DataParam->runListFileName);
@ -2118,13 +2107,10 @@ void PTextEdit::musrMsr2Data()
// get the first run number needed to build the global fit file name
fln = QString("");
switch(dlg->getRunTag()) {
case 0: // first/last run
fln = QString("%1").arg(fMsr2DataParam->firstRun) + QString("+global") + fMsr2DataParam->msrFileExtension + QString(".msr");
break;
case 1: // run list
case 0: // run list
fln = runList.section(" ", 0, 0, QString::SectionSkipEmpty) + QString("+global") + fMsr2DataParam->msrFileExtension + QString(".msr");
break;
case 2: // run list file name
case 1: // run list file name
file = new QFile(QFileInfo(*fFilenames.find( currentEditor() )).absolutePath() + "/" + fMsr2DataParam->runListFileName);
if (!file->open(QIODevice::ReadOnly)) {
str = QString("Couldn't open run list file %1, sorry.").arg(fMsr2DataParam->runListFileName);
@ -2403,6 +2389,7 @@ void PTextEdit::musrDump()
QVector<QString> cmd;
QString str = fAdmin->getExecPath() + "/dump_header";
cmd.append(str);
cmd.append("-fn");
cmd.append(fileName);
PDumpOutputHandler dumpOutputHandler(cmd);

182
src/musredit/forms/PMsr2DataDialog.ui
View File

@ -9,8 +9,8 @@
<rect>
<x>0</x>
<y>0</y>
<width>552</width>
<height>599</height>
<width>584</width>
<height>578</height>
</rect>
</property>
<property name="windowTitle">
@ -25,8 +25,8 @@
<rect>
<x>0</x>
<y>0</y>
<width>551</width>
<height>131</height>
<width>581</width>
<height>111</height>
</rect>
</property>
<property name="font">
@ -47,93 +47,13 @@
<widget class="QWidget" name="layoutWidget">
<property name="geometry">
<rect>
<x>10</x>
<x>11</x>
<y>30</y>
<width>531</width>
<height>97</height>
<width>561</width>
<height>70</height>
</rect>
</property>
<layout class="QVBoxLayout" name="verticalLayout_2">
<item>
<layout class="QHBoxLayout" name="horizontalLayout_2">
<item>
<widget class="QLabel" name="fFirst_label">
<property name="text">
<string>First</string>
</property>
</widget>
</item>
<item>
<widget class="QLineEdit" name="fFirst_lineEdit">
<property name="toolTip">
<string>start run number</string>
</property>
<property name="whatsThis">
<string>start run number</string>
</property>
</widget>
</item>
<item>
<spacer name="horizontalSpacer_2">
<property name="orientation">
<enum>Qt::Horizontal</enum>
</property>
<property name="sizeType">
<enum>QSizePolicy::Expanding</enum>
</property>
<property name="sizeHint" stdset="0">
<size>
<width>40</width>
<height>20</height>
</size>
</property>
</spacer>
</item>
<item>
<widget class="QLabel" name="fLast_label">
<property name="text">
<string>Last</string>
</property>
</widget>
</item>
<item>
<widget class="QLineEdit" name="fLast_lineEdit">
<property name="toolTip">
<string>end run number</string>
</property>
<property name="whatsThis">
<string>end run number</string>
</property>
</widget>
</item>
<item>
<spacer name="horizontalSpacer_3">
<property name="orientation">
<enum>Qt::Horizontal</enum>
</property>
<property name="sizeType">
<enum>QSizePolicy::Fixed</enum>
</property>
<property name="sizeHint" stdset="0">
<size>
<width>200</width>
<height>20</height>
</size>
</property>
</spacer>
</item>
<item>
<widget class="QLabel" name="fOrFirstLast_label">
<property name="text">
<string>&lt;b&gt;OR&lt;/b&gt;</string>
</property>
<property name="textFormat">
<enum>Qt::AutoText</enum>
</property>
</widget>
</item>
</layout>
</item>
<item>
<layout class="QHBoxLayout" name="horizontalLayout_3">
<item>
@ -232,8 +152,8 @@ p, li { white-space: pre-wrap; }
<property name="geometry">
<rect>
<x>0</x>
<y>130</y>
<width>551</width>
<y>110</y>
<width>581</width>
<height>71</height>
</rect>
</property>
@ -245,8 +165,8 @@ p, li { white-space: pre-wrap; }
<rect>
<x>10</x>
<y>30</y>
<width>531</width>
<height>29</height>
<width>561</width>
<height>31</height>
</rect>
</property>
<layout class="QHBoxLayout" name="horizontalLayout_5">
@ -262,9 +182,12 @@ p, li { white-space: pre-wrap; }
<property name="orientation">
<enum>Qt::Horizontal</enum>
</property>
<property name="sizeType">
<enum>QSizePolicy::Fixed</enum>
</property>
<property name="sizeHint" stdset="0">
<size>
<width>40</width>
<width>30</width>
<height>20</height>
</size>
</property>
@ -297,8 +220,8 @@ p, li { white-space: pre-wrap; }
<property name="geometry">
<rect>
<x>0</x>
<y>200</y>
<width>551</width>
<y>180</y>
<width>581</width>
<height>80</height>
</rect>
</property>
@ -311,7 +234,7 @@ p, li { white-space: pre-wrap; }
<x>10</x>
<y>30</y>
<width>531</width>
<height>29</height>
<height>31</height>
</rect>
</property>
<layout class="QHBoxLayout" name="horizontalLayout_6">
@ -364,8 +287,8 @@ p, li { white-space: pre-wrap; }
<property name="geometry">
<rect>
<x>0</x>
<y>280</y>
<width>551</width>
<y>260</y>
<width>581</width>
<height>80</height>
</rect>
</property>
@ -378,7 +301,7 @@ p, li { white-space: pre-wrap; }
<x>10</x>
<y>30</y>
<width>531</width>
<height>29</height>
<height>31</height>
</rect>
</property>
<layout class="QHBoxLayout" name="horizontalLayout_7">
@ -419,8 +342,8 @@ p, li { white-space: pre-wrap; }
<property name="geometry">
<rect>
<x>0</x>
<y>360</y>
<width>551</width>
<y>340</y>
<width>581</width>
<height>172</height>
</rect>
</property>
@ -432,7 +355,7 @@ p, li { white-space: pre-wrap; }
<rect>
<x>6</x>
<y>20</y>
<width>541</width>
<width>571</width>
<height>116</height>
</rect>
</property>
@ -473,6 +396,13 @@ p, li { white-space: pre-wrap; }
</property>
</widget>
</item>
<item>
<widget class="QCheckBox" name="fEstimateN0_checkBox">
<property name="text">
<string>Estimate N0</string>
</property>
</widget>
</item>
</layout>
</item>
<item>
@ -517,6 +447,13 @@ p, li { white-space: pre-wrap; }
</property>
</widget>
</item>
<item>
<widget class="QCheckBox" name="fWritePerRunBlockChisq_checkBox">
<property name="text">
<string>Write per-run-block Chisq</string>
</property>
</widget>
</item>
</layout>
</item>
<item>
@ -601,21 +538,24 @@ p, li { white-space: pre-wrap; }
<rect>
<x>170</x>
<y>140</y>
<width>371</width>
<width>401</width>
<height>23</height>
</rect>
</property>
<property name="whatsThis">
<string>parameter numbers to be exported, e.g. 1-16, or 1 3-7, etc.</string>
</property>
<property name="frame">
<bool>true</bool>
</property>
</widget>
</widget>
<widget class="QWidget" name="layoutWidget">
<property name="geometry">
<rect>
<x>5</x>
<y>540</y>
<width>541</width>
<y>520</y>
<width>571</width>
<height>51</height>
</rect>
</property>
@ -669,8 +609,6 @@ p, li { white-space: pre-wrap; }
</widget>
</widget>
<tabstops>
<tabstop>fFirst_lineEdit</tabstop>
<tabstop>fLast_lineEdit</tabstop>
<tabstop>fRunList_lineEdit</tabstop>
<tabstop>fRunListFileName_lineEdit</tabstop>
<tabstop>fMsrFileExtension_lineEdit</tabstop>
@ -744,38 +682,6 @@ p, li { white-space: pre-wrap; }
</hint>
</hints>
</connection>
<connection>
<sender>fFirst_lineEdit</sender>
<signal>textChanged(QString)</signal>
<receiver>PMsr2DataDialog</receiver>
<slot>runFirstEntered(QString)</slot>
<hints>
<hint type="sourcelabel">
<x>82</x>
<y>44</y>
</hint>
<hint type="destinationlabel">
<x>113</x>
<y>504</y>
</hint>
</hints>
</connection>
<connection>
<sender>fLast_lineEdit</sender>
<signal>textChanged(QString)</signal>
<receiver>PMsr2DataDialog</receiver>
<slot>runLastEntered(QString)</slot>
<hints>
<hint type="sourcelabel">
<x>229</x>
<y>44</y>
</hint>
<hint type="destinationlabel">
<x>348</x>
<y>500</y>
</hint>
</hints>
</connection>
<connection>
<sender>fRunList_lineEdit</sender>
<signal>textChanged(QString)</signal>

2
src/musredit/main.cpp
View File

@ -53,7 +53,7 @@ int main( int argc, char ** argv )
cout << endl << endl;
return 0;
} else if (!strcmp(argv[1], "--version") || !strcmp(argv[1], "-v")) {
cout << endl << "musredit git-rev: " << GIT_REVISION;
cout << endl << "musredit git-branch: " << GIT_BRANCH << ", git-rev: " << GIT_CURRENT_SHA1;
cout << endl << endl;
return 0;
}

4
src/musredit/musredit.h
View File

@ -41,8 +41,6 @@
* parameters see <code>msr2data --help</code> and the online documentation.
*/
typedef struct {
int firstRun; ///< first run number of a sequence of runs (usage 2 of msr2data)
int lastRun; ///< last run number of a sequence of runs (usage 2 of msr2data)
QString runList; ///< list of run numbers (usage 3 of msr2data)
QString runListFileName; ///< run list filename (usage 4 of msr2data)
QString msrFileExtension; ///< msr filename extension, e.g. '0100_h13.msr' -> '_h13'
@ -57,6 +55,8 @@ typedef struct {
bool chainFit; ///< flag: true = chain fit, i.e. the template for a fit is the preceeding run. false = the template is always the source for the new msr-file
bool openFilesAfterFitting; ///< flag: true = open msr-file after fit in musredit. false = do not open msr-file after fit.
bool titleFromDataFile; ///< flag indicating if the title for the msr-file shall be extracted from the data-file ('-t' in msr2data)
bool estimateN0; ///< flag indicating if the N0 shall be estimated for single histogram fitting
bool perRunBlockChisq; ///< flag indicating if per-run-block-chisq shall be dumped into the msr-file
bool createMsrFileOnly; ///< flag: true = just create the msr-files without any fitting ('msr-<template>' in msr2data)
bool fitOnly; ///< flag: true = just perform the fits wihtout generating any msr-files ('fit' in msr2data).
bool global; ///< flag: true = 'global' option

12
src/musredit/musredit.pro
View File

@ -1,10 +1,6 @@
TEMPLATE = app
TARGET = musredit
!exists( musredit_startup.xml ) {
error( "Configuration file musredit_startup.xml not found! Please configure musrfit first, before trying to install musredit!" )
}
# install path for musredit
count( PREFIX, 1 ) {
MUSREDIT_INSTALL_PATH = $${PREFIX}/bin
@ -67,8 +63,6 @@ macx {
unix:xml.path = $$(HOME)/.musrfit/musredit
macx:xml.path = $$(HOME)/.musrfit/musredit
win32:xml.path = c:/musrfit/bin
xml.files = musredit_startup.xml
INSTALLS += xml
CONFIG += qt \
warn_on \
@ -78,7 +72,10 @@ QT += xml
QT += webkit
QT += network
INCLUDEPATH += "../include"
HEADERS = musredit.h \
musrfit-info.h \
PHelp.h \
PTextEdit.h \
PSubTextEdit.h \
@ -101,7 +98,8 @@ HEADERS = musredit.h \
PGetFourierBlockDialog.h \
PGetPlotBlockDialog.h \
PMsr2DataDialog.h \
PMusrEditAbout.h
PMusrEditAbout.h \
../include/git-revision.h
SOURCES = PHelp.cpp \
PTextEdit.cpp \

1
src/musredit_qt5/Makefile.am
View File

@ -2,4 +2,3 @@
CLEANFILES = *~ core moc_* ui_*

291
src/musredit_qt5/forms/PGetDefaultDialog.ui
View File

@ -1,291 +0,0 @@
<?xml version="1.0" encoding="UTF-8"?>
<ui version="4.0">
<class>PGetDefaultDialog</class>
<widget class="QDialog" name="PGetDefaultDialog">
<property name="windowModality">
<enum>Qt::WindowModal</enum>
</property>
<property name="geometry">
<rect>
<x>0</x>
<y>0</y>
<width>400</width>
<height>168</height>
</rect>
</property>
<property name="windowTitle">
<string>Run</string>
</property>
<property name="windowIcon">
<iconset resource="../musredit.qrc">
<normaloff>:/images/musrfit.xpm</normaloff>:/images/musrfit.xpm</iconset>
</property>
<widget class="QWidget" name="layoutWidget">
<property name="geometry">
<rect>
<x>10</x>
<y>130</y>
<width>381</width>
<height>27</height>
</rect>
</property>
<layout class="QHBoxLayout" name="horizontalLayout">
<item>
<widget class="QPushButton" name="fHelp_pushButton">
<property name="text">
<string>&amp;Help</string>
</property>
</widget>
</item>
<item>
<spacer name="horizontalSpacer">
<property name="orientation">
<enum>Qt::Horizontal</enum>
</property>
<property name="sizeHint" stdset="0">
<size>
<width>118</width>
<height>20</height>
</size>
</property>
</spacer>
</item>
<item>
<widget class="QPushButton" name="fOk_pushButton">
<property name="text">
<string>&amp;OK</string>
</property>
</widget>
</item>
<item>
<widget class="QPushButton" name="fCancel_pushButton">
<property name="text">
<string>&amp;Cancel</string>
</property>
</widget>
</item>
</layout>
</widget>
<widget class="QWidget" name="layoutWidget">
<property name="geometry">
<rect>
<x>12</x>
<y>12</y>
<width>84</width>
<height>111</height>
</rect>
</property>
<layout class="QVBoxLayout" name="verticalLayout">
<item>
<widget class="QLabel" name="fRunFileName_label">
<property name="text">
<string>Run File Name</string>
</property>
</widget>
</item>
<item>
<widget class="QLabel" name="fBeamline_label">
<property name="minimumSize">
<size>
<width>68</width>
<height>0</height>
</size>
</property>
<property name="text">
<string>Beamline</string>
</property>
</widget>
</item>
<item>
<widget class="QLabel" name="fInstitute_label">
<property name="minimumSize">
<size>
<width>68</width>
<height>0</height>
</size>
</property>
<property name="text">
<string>Institute</string>
</property>
</widget>
</item>
<item>
<widget class="QLabel" name="fFileFormat_label">
<property name="minimumSize">
<size>
<width>68</width>
<height>0</height>
</size>
</property>
<property name="text">
<string>File Format</string>
</property>
</widget>
</item>
</layout>
</widget>
<widget class="QWidget" name="layoutWidget">
<property name="geometry">
<rect>
<x>99</x>
<y>12</y>
<width>291</width>
<height>111</height>
</rect>
</property>
<layout class="QVBoxLayout" name="verticalLayout_2">
<item>
<widget class="QLineEdit" name="fRunFileName_lineEdit"/>
</item>
<item>
<widget class="QLineEdit" name="fBeamline_lineEdit"/>
</item>
<item>
<widget class="QComboBox" name="fInstitute_comboBox">
<property name="minimumSize">
<size>
<width>80</width>
<height>0</height>
</size>
</property>
<item>
<property name="text">
<string>PSI</string>
</property>
</item>
<item>
<property name="text">
<string>RAL</string>
</property>
</item>
<item>
<property name="text">
<string>TRIUMF</string>
</property>
</item>
<item>
<property name="text">
<string>JPARC</string>
</property>
</item>
</widget>
</item>
<item>
<widget class="QComboBox" name="fFileFormat_comboBox">
<item>
<property name="text">
<string>NeXuS</string>
</property>
</item>
<item>
<property name="text">
<string>ROOT-NPP</string>
</property>
</item>
<item>
<property name="text">
<string>ROOT-PPC</string>
</property>
</item>
<item>
<property name="text">
<string>PSI-BIN</string>
</property>
</item>
<item>
<property name="text">
<string>MDU</string>
</property>
</item>
<item>
<property name="text">
<string>MDU-ASCII</string>
</property>
</item>
<item>
<property name="text">
<string>MUD</string>
</property>
</item>
<item>
<property name="text">
<string>WKM</string>
</property>
</item>
<item>
<property name="text">
<string>ASCII</string>
</property>
</item>
<item>
<property name="text">
<string>DB</string>
</property>
</item>
</widget>
</item>
</layout>
</widget>
</widget>
<tabstops>
<tabstop>fOk_pushButton</tabstop>
<tabstop>fCancel_pushButton</tabstop>
<tabstop>fHelp_pushButton</tabstop>
</tabstops>
<resources>
<include location="../musredit.qrc"/>
</resources>
<connections>
<connection>
<sender>fCancel_pushButton</sender>
<signal>clicked()</signal>
<receiver>PGetDefaultDialog</receiver>
<slot>reject()</slot>
<hints>
<hint type="sourcelabel">
<x>337</x>
<y>272</y>
</hint>
<hint type="destinationlabel">
<x>355</x>
<y>225</y>
</hint>
</hints>
</connection>
<connection>
<sender>fOk_pushButton</sender>
<signal>clicked()</signal>
<receiver>PGetDefaultDialog</receiver>
<slot>accept()</slot>
<hints>
<hint type="sourcelabel">
<x>286</x>
<y>265</y>
</hint>
<hint type="destinationlabel">
<x>243</x>
<y>227</y>
</hint>
</hints>
</connection>
<connection>
<sender>fHelp_pushButton</sender>
<signal>clicked()</signal>
<receiver>PGetDefaultDialog</receiver>
<slot>helpContent()</slot>
<hints>
<hint type="sourcelabel">
<x>50</x>
<y>273</y>
</hint>
<hint type="destinationlabel">
<x>115</x>
<y>221</y>
</hint>
</hints>
</connection>
</connections>
<slots>
<slot>helpContent()</slot>
</slots>
</ui>

674
src/musredit_qt5/musrStep/LICENSE Normal file
View File

@ -0,0 +1,674 @@
GNU GENERAL PUBLIC LICENSE
Version 3, 29 June 2007
Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/>
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Preamble
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END OF TERMS AND CONDITIONS
How to Apply These Terms to Your New Programs
If you develop a new program, and you want it to be of the greatest
possible use to the public, the best way to achieve this is to make it
free software which everyone can redistribute and change under these terms.
To do so, attach the following notices to the program. It is safest
to attach them to the start of each source file to most effectively
state the exclusion of warranty; and each file should have at least
the "copyright" line and a pointer to where the full notice is found.
musrStep_qt5
Copyright (C) 2016 Andreas Suter
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
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, see <http://www.gnu.org/licenses/>.
Also add information on how to contact you by electronic and paper mail.
If the program does terminal interaction, make it output a short
notice like this when it starts in an interactive mode:
musrStep_qt5 Copyright (C) 2016 Andreas Suter
This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
This is free software, and you are welcome to redistribute it
under certain conditions; type `show c' for details.
The hypothetical commands `show w' and `show c' should show the appropriate
parts of the General Public License. Of course, your program's commands
might be different; for a GUI interface, you would use an "about box".
You should also get your employer (if you work as a programmer) or school,
if any, to sign a "copyright disclaimer" for the program, if necessary.
For more information on this, and how to apply and follow the GNU GPL, see
<http://www.gnu.org/licenses/>.
The GNU General Public License does not permit incorporating your program
into proprietary programs. If your program is a subroutine library, you
may consider it more useful to permit linking proprietary applications with
the library. If this is what you want to do, use the GNU Lesser General
Public License instead of this License. But first, please read
<http://www.gnu.org/philosophy/why-not-lgpl.html>.

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