LMU/musrfit
5
0
Fork 0
Code Issues 6 Pull Requests Actions Packages Projects Releases 4 Activity

updated docu. replaced MusrRoot example. some minor change in photo_meissner

Browse Source
This commit is contained in:
suter_a
2012-09-03 07:56:56 +00:00
parent be9457281d
commit da0d0e6ed9
16 changed files with 1146 additions and 828 deletions
Download Patch File Download Diff File Expand all files Collapse all files

145
doc/html/user/MUSR/MusrFitSetup.html
View File

@@ -1,31 +1,19 @@
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
<html lang="en_US">
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd"><html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en_US" lang="en_US">
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFitSetup?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Wed, 27 Jun 2012 11:12:54 GMT -->
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFitSetup?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Mon, 03 Sep 2012 07:32:02 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=iso-8859-1"><!-- /Added by HTTrack -->
<head>
<link rel="stylesheet" href="../pub/System/HeadlinesPlugin/style.css" type="text/css" media="all" />
<title> MUSR :: MusrFitSetup</title>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" /> <meta name="robots" content="noindex" /> <link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<meta name="scripturl" content="https://intranet.psi.ch/wiki/bin" />
<meta name="scriptsuffix" content="" />
<meta name="WEBTOPIC" content="MusrFitSetup" />
<meta name="WEB" content="MUSR" />
<meta name="SCRIPTURLPATH" content="/wiki/bin" />
<meta name="SCRIPTSUFFIX" content="" />
<meta name="TEXT_JUMP" content="Jump" />
<meta name="TEXT_SEARCH" content="Search" />
<title> MUSR :: MusrFitSetup</title>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
<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=1346657491" type="application/x-wiki" title="edit MusrFitSetup" />
<meta name="TEXT_NUM_TOPICS" content="Number of topics:" />
<meta name="TEXT_MODIFY_SEARCH" content="Modify search" />
<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=1340795552" type="application/x-wiki" title="edit MusrFitSetup" />
<meta name="description" content="MusrFitSetup" />
<base /><!--[if IE]></base><![endif]-->
<style type="text/css" media="all">
<meta name="robots" content="noindex" /><link rel="alternate" type="application/rss+xml" title="RSS Feed" href="WebRsshtml.html" />
<base /><!--[if IE]></base><![endif]-->
<style type="text/css" media="all">
@import url('../pub/System/SkinTemplates/base.css');
</style>
<style type="text/css" media="all">
@@ -107,21 +95,28 @@ pre {
box-shadow: 0 0 10px #ccc;
}
</style><![endif]-->
<link rel="stylesheet" href="../pub/System/FootNotePlugin/styles.css" type="text/css" media="all" /><!--FOOTNOTEPLUGIN_LINKCSS-->
</head>
<body class="foswikiNoJs patternViewPage patternPrintPage">
<body class="foswikiNoJs patternViewPage">
<a name="PageTop"></a><div class="foswikiPage"><div id="patternScreen">
<div id="patternPageShadow">
<div id="patternPage">
<div id="patternOuter">
<div id="patternWrapper"><div id="patternOuter">
<div id="patternFloatWrap">
<div id="patternMain">
<div id="patternMainContents">
<div id="patternMain"><div id="patternClearHeaderCenter"></div>
<div id="patternMainContents"><div class="patternTop"><span class="patternHomePath foswikiLeft"><a href="WebHome.html" class="foswikiCurrentWebHomeLink">MUSR</a><span class='natSep'>&nbsp;&#187; </span><a href="MusrFit.html">MusrFit</a><span class='natSep'>&nbsp;&#187; </span><a href="MusrFitSetup.html" class="foswikiCurrentTopicLink">MusrFitSetup</a></span><span class="patternToolBar foswikiRight"><span><a href='MusrFitSetupc99a.html?cover=print;cover=print' rel='nofollow' title='Printable version of this topic' accesskey='p'><span class='foswikiAccessKey'>P</span>rint version</a></span><a href="https://intranet.psi.ch/MUSR/MusrFitSetup?restrictions=on" id="restriction_link"><img src='../pub/System/PsiSkin/lock_open.png' class='lock' height='16' width='23' title='open in PSI - click for more information'/></a></span><div class="foswikiClear"></div></div><div class="foswikiContentHeader">
<p></p>
<p></p>
<div class="patternContent"><div class="foswikiTopic"><h1><a name="Setting_up_61_61musrfit_61_61_on_Different_Platforms"></a> Setting up <code><b>musrfit</b></code> on Different Platforms </h1>
<p></p>
<link rel='stylesheet' href='../webbase/css/oscar.css' type='text/css'>
<link rel='stylesheet' href='../labels/style/bubbles.css' type='text/css'>
<link rel='stylesheet' href='../labels/support/jquery.qtip.css' type='text/css'>
<p></p>
<p></p>
</div><div class="patternContent"><div class="foswikiTopic"><h1><a name="Setting_up_61_61musrfit_61_61_on_Different_Platforms"></a> Setting up <code><b>musrfit</b></code> on Different Platforms </h1>
<p></p>
<a name="foswikiTOC"></a><div class="foswikiToc"> <ul>
<li> <a href="MusrFitSetup.html#Setting_up_61_61musrfit_61_61_on_Different_Platforms"> Setting up musrfit on Different Platforms </a>
@@ -339,7 +334,7 @@ musrview test-histo-ROOT-NPP.msr
<p></p>
Notes
<p></p>
<a name="FootNote1note"></a><span class="FootNoteLabel"><a href="MusrFitSetup.html#FootNote1text" class="foswikiCurrentWebHomeLink"> <strong>1</strong> </a></span>: <span class="FootNote">In case only a single user is working at the machine it might be considerable to change the ownership of the <code>ROOT</code> folder so that the user has easy write access to this directory: <!-- verbatim3 --></span>
<a name="FootNote1note"></a><span class="FootNoteLabel"><a href="MusrFitSetup.html#FootNote1text" class="foswikiCurrentWebHomeLink"> <strong>1</strong> </a></span>: <span class="FootNote">In case only a single user is working at the machine it might be considerable to change the ownership of the <code>ROOT</code> folder so that the user has easy write access to this directory: <!-- verbatim2252 --></span>
<p></p>
<a name="FootNote2note"></a><span class="FootNoteLabel"><a href="MusrFitSetup.html#FootNote2text" class="foswikiCurrentWebHomeLink"> <strong>2</strong> </a></span>: <span class="FootNote"> When using <code>GCC</code> &#8805; 4.2 please make sure that the environment variables <strong>USE_PARALLEL_MINUIT2</strong> and <strong>USE_OPENMP</strong> are <em>not</em> set! Otherwise <code>MINUIT2</code> will be compiled with parallelization support and cannot be used together with <code>musrfit</code> afterwards since the <code>musrfit</code> code is <em>not</em> fully thread-safe! When compiled with <code>GCC</code> &#8805; 4.2 <code>musrfit</code> itself will parallelize the &chi;<sup>2</sup> calculation.</span>
<p></p>
@@ -529,7 +524,7 @@ With Mac OS X the situation is up to some extent similar like on MS Windows but
<h2><a name="A_5.1_Requirements_40_61_61MacPorts_61_61_41"></a> 5.1 Requirements (<code><b>MacPorts</b></code>) </h2>
<h3><a name="A_5.1.1_Everything_but_61_61ROOT_61_61_and_61_61NeXus_61_61"></a> 5.1.1 Everything but <code><b>ROOT</b></code> and <code><b>NeXus</b></code> </h3>
Before proceeding with the usage of the <code><a href="http://www.macports.org/" target="_top">MacPorts</a></code> system first a few useful tools provided by Apple together with OS X (on the installation DVD/CDs) should be installed: <dl>
<dt> <a href="http://developer.apple.com/technology/tools.html" target="_top">Xcode tools</a> </dt><dd> Useful developer tools including for instance the GNU compiler collection
<dt> <a href="http://developer.apple.com/technology/tools.html" target="_top">Xcode tools</a> </dt><dd> Useful developer tools including for instance the GNU compiler collection. Starting from XCode &gt;= 4.3 the command line tools need to be installed manually.
</dd> <dt> X11 </dt><dd> The X-window system (automatically installed on 10.5 Leopard and 10.6 Snow Leopard)
</dd></dl>
<p></p>
@@ -586,9 +581,12 @@ For installing the <code>ROOT</code> system there are two <strong>independent</s
<li> Visit the <code>ROOT</code> <a href="http://root.cern.ch/drupal/content/downloading-root" target="_top">web page</a> and download the packed precompiled binary version matching the OS X version. Then unpack the bundle to its final destination (e.g. /opt/root-system).
</li> <li> If there is no precompiled binary version of <code>ROOT</code> available for your system or e.g. <code>ROOT</code> should be compiled with another version of <code>GCC</code> visit the <a href="http://root.cern.ch/drupal/content/downloading-root" target="_top">web page</a> and download the 'complete source tree for all systems'. Then unpack this source tree to its destination (e.g. /opt/root-system). In case only a single user is working at the machine it might be considerable to change the ownership of the <code>ROOT</code> folder so that the user ("username" in the example) has easy write access to this directory: <pre class="bash">sudo chown -R username:staff /opt/root-system/ </pre> Finally, <code>ROOT</code> can be configured (here using the minimal set of options) and compiled as stated right below: <pre class="bash">
cd /opt/root-system
./configure --gminimal --enable-asimage --enable-mathmore --enable-minuit2 --enable-xml
./configure --gminimal --enable-fink --enable-asimage --enable-mathmore --enable-minuit2 --enable-xml
make
</pre>
</li> <li> In case you are just migrating to the latest Mac OS X version (<em>e.g.</em> from 10.7 to 10.8.1) often for a period of a few weeks it is necessary to work with the SVN trunk version of <code>ROOT</code>, <em>i.e.</em> that you have to checkout <code>ROOT</code> via <code>svn</code>: <pre class="bash">
svn co https://root.cern.ch/svn/root/trunk root
</pre> For details see <a href="http://root.cern.ch/drupal/content/subversion-howto#How_do_I_check_out_the_ROOT_Subv" target="_top">ROOT: How to's</a>.
</li></ul>
<p></p>
In order to finalize the <code>ROOT</code> installation and to prepare already the installation of <code>musrfit</code> and <code>musrgui</code> / <code>musredit</code> this is a good time for setting necessary environment variables for the use in Mac OS X. Put the following lines (without the comments in parentheses and with the paths adjusted to your local installation) into the file <strong>~/.MacOSX/environment.plist</strong> and <span class='foswikiRedFG'>re-login</span>:<br>
@@ -802,30 +800,81 @@ cd doc/examples
musrview test-histo-ROOT-NPP.msr
</pre>
<p></p>
-- <a href="http://www.fsf.org/register_form?referrer=8369" target="_top">BMW</a> &amp; <a href="http://lmu.web.psi.ch/lem/group.html" target="_top">AS</a></div><!-- /foswikiTopic-->
<p></p>
<div id="attachment_list" style="display:none"></div>
<p></p>
</div><!-- /patternContent vom pattern template-->
<p></p>
-- <a href="http://www.fsf.org/register_form?referrer=8369" target="_top">BMW</a> &amp; <a href="http://lmu.web.psi.ch/lem/group.html" target="_top">AS</a> </div>
<div class="foswikiContentFooter"></div><!-- -->
<!-- -->
<!-- -->
<!-- -->
<!-- -->
<span class='foswikiClear'></span>
<div class="foswikiMetaData foswikiMetaDataNotAllowed">
<div class="jqTabPane jqTabPaneSimple {select:'1', autoMaxExpand:false, animate:true, minHeight:230}">
<!-- -->
<!-- -->
<!-- --><!-- -->
<!-- -->
<!-- --><!-- -->
<!-- --><!-- -->
<!-- -->
</div><!-- //ENDTABPANE -->
</div>
<!-- -->
<!-- -->
<div class="foswikiFormSteps">
<a name="topic-actions"></a>
<div class="patternTopicActions foswikiFormStep">
<span class="patternActionButtons"><span><a href='https://intranet.psi.ch/wiki/bin/edit/MUSR/MusrFitSetup?t=1346657491' rel='nofollow' title='Edit this topic text' accesskey='e'><span class='foswikiAccessKey'>E</span>dit</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span class="foswikiRequiresChangePermission"><a href='https://intranet.psi.ch/wiki/bin/attach/MUSR/MusrFitSetup' rel='nofollow' title='Attach an image or document to this topic' accesskey='a'><span class='foswikiAccessKey'>A</span>ttach</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span><a href='MusrFitSetupc99a.html?cover=print;cover=print' rel='nofollow' title='Printable version of this topic' accesskey='p'><span class='foswikiAccessKey'>P</span>rint version</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span><a href='https://intranet.psi.ch/print/pdf.php?url=MUSR/MusrFitSetup?cover=print' title='PDF version of this topic'>PDF</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span><span class="foswikiRequiresChangePermission"><a href='https://intranet.psi.ch/wiki/bin/oops/MUSR/MusrFitSetup?template=oopshistory' rel='nofollow' title='View total topic history' accesskey='h'><span class='foswikiAccessKey'>H</span>istory</a></span>: r52&nbsp;<a rel="nofollow" href="https://intranet.psi.ch/wiki/bin/compare/MUSR/MusrFitSetup?rev1=51;rev2=52">&lt;</a>&nbsp;<a rel="nofollow" href="https://intranet.psi.ch/MUSR/MusrFitSetup?rev=51">r51</a>&nbsp;<a rel="nofollow" href="https://intranet.psi.ch/wiki/bin/compare/MUSR/MusrFitSetup?rev1=50;rev2=51">&lt;</a>&nbsp;<a rel="nofollow" href="https://intranet.psi.ch/MUSR/MusrFitSetup?rev=50">r50</a>&nbsp;<a rel="nofollow" href="https://intranet.psi.ch/wiki/bin/compare/MUSR/MusrFitSetup?rev1=49;rev2=50">&lt;</a>&nbsp;<a rel="nofollow" href="https://intranet.psi.ch/MUSR/MusrFitSetup?rev=49">r49</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span><a href='https://intranet.psi.ch/MUSR/MusrFitSetup?template=backlinksweb' rel='nofollow' title='Search the MUSR Web for topics that link to here' accesskey='b'><span class='foswikiAccessKey'>B</span>acklinks</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span><a href='https://intranet.psi.ch/MUSR/MusrFitSetup?raw=on' rel='nofollow' title='View without formatting' accesskey='v'><span class='foswikiAccessKey'>V</span>iew wiki text</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span><a href='https://intranet.psi.ch/MUSR/MusrFitSetup?refresh=on' title='Refresh images and LaTeX charts'>Refresh</a></span><span class='foswikiSeparator'>&nbsp;|&nbsp;</span><span><a href='https://intranet.psi.ch/MUSR/MusrFitSetup?template=more&amp;maxrev=52&amp;currrev=52' rel='nofollow' title='Delete or rename this topic; set parent topic; view and compare revisions' accesskey='m'><span class='foswikiAccessKey'>M</span>ore topic actions</a></span></span>
</div>
</div></div><div class="patternInfo"><span class="patternRevInfo">Topic revision: 03 Sep 2012, <a href="https://intranet.psi.ch/Main/AndreasSuter">AndreasSuter</a></span></div>
</div>
</div><div id="patternSideBar"><div id="patternClearHeaderLeft"></div>
<div id="patternSideBarContents">
<div class="patternLeftBarPersonal">
<ul><li class="patternLogIn"><a href="https://intranet.psi.ch/wiki/bin/logon/MUSR/MusrFitSetup">Log In</a> or <a href="https://intranet.psi.ch/System/UserRegistration">Register</a></li></ul>
</div>
<p></p>
<p></p>
<b>PSI Webs</b> <ul>
<li> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/psi.png" width="16" height="16" alt="psi" /></span> <a href="https://intranet.psi.ch/Main/WebHome">WebHome</a>
</li> <li> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/psi.png" width="16" height="16" alt="psi" /></span> <a href="https://intranet.psi.ch/Main/WebList">weitere Webs</a>
</li></ul>
<hr />
<b>System Webs</b> <ul>
<li> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/foswiki.png" width="16" height="16" alt="foswiki" /></span> <a href="https://intranet.psi.ch/Sandbox/WebHome">WebHome</a>
</li> <li> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/foswiki.png" width="16" height="16" alt="foswiki" /></span> <a href="https://intranet.psi.ch/System/WebHome">Documentation</a>
</li></ul>
<hr /> <ul>
<li> <a href="https://intranet.psi.ch/MUSR/WebCreateNewTopic?parent=MusrFitSetup" target="_top"><span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/newtopic.png" width="16" height="16" alt="newtopic" /></span> Create New Topic</a>
</li> <li> <a href="WebTopicList.html"> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/index.png" width="16" height="16" alt="index" /></span> Show All Topics</a>
</li> <li> <a href="WebSearch.html"> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/searchtopic.png" width="16" height="16" alt="searchtopic" /></span> Search in Topics</a>
</li> <li> <a href="WebChanges.html"> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/changes.png" width="16" height="16" alt="changes" /></span> Recent Changes</a>
</li> <li> <a href="WebNotify.html"> <span class="foswikiIcon"><img src="../pub/System/DocumentGraphics/notify.png" width="16" height="16" alt="notify" /></span> Define Notifications</a>
</li></ul>
<p></p>
</div></div>
</div>
<div class="clear">&nbsp;</div>
</div><div id="patternBottomBar"><div id="patternBottomBarContents"><div id="patternWebBottomBar">Ideas, requests, problems regarding <a href="https://intranet.psi.ch/Main/WebHome">PSI Wiki</a>? <a href="mailto&#58;psi&#46;intranet&#64;psi&#46;ch&#63;subject&#61;PSI&#32;Wiki&#37;20Feedback&#37;20on&#37;20MUSR&#46;MusrFitSetup">Send feedback</a></div></div></div>
</div></div><div id="patternTopBar">
<div id="patternTopBarContentsWrapper">
<div id="patternTopBarContents"><table border="0" cellpadding="0" cellspacing="0" style="width:100%" summary="">
<tr><td valign="middle"><span id="foswikiLogo" class="foswikiImage"><a href="WebHome.html"><img src="../pub/Main/WebPreferences/psi_logo_150.gif" border="0" alt="Paul Scherrer Institut" style="border:none; margin: -8px 0 0 15px;" /></a></span></td>
<td align="right" valign="top" class="patternMetaMenu" id="psimetanav">
<ul>
<li> <form name="quickSearchForm" action="https://intranet.psi.ch/PSI/Search"><input type="hidden" name="filter" value="web:MUSR" /><input type="text" class="foswikiInputField" id="quickSearchBox" name="search" value="" size="18" /><input type="hidden" name="scope" value="all" /><!-- <input type="hidden" name="web" value="MUSR" /> --> <noscript>&nbsp;<input type="submit" size="5" class="foswikiButton" name="submit" value="Search" />&nbsp;</noscript><input type="image" class="searchsubmit" alt="Search" value="Suche..." name="sa" src="../webbase/img/search.png"> </form>
</li> <li> <form name="changeLanguage" action="https://intranet.psi.ch/wiki/bin/oops/MUSR/MusrFitSetup" method="get"> <input type="hidden" name="redirectto" value="/MUSR/MusrFitSetup?cover=print" /> <select name="language" class="foswikiSelect" onchange="document.changeLanguage.submit()"> <option value="de">Deutsch</option> <option selected="selected" value="en">English</option></select> <input type="hidden" name="template" value="oopslanguagechanged" /> <noscript> <input class="foswikiButton" type="submit" value="Change language" /> </noscript> </form>
</li></ul>
</td></tr></table>
</div><!--/patternTopBarContents-->
</div><!--/patternTopBarContentsWrapper-->
</div><!-- /patternTopBar--><div id="patternBottomBar"><div id="patternBottomBarContents"><div id="patternWebBottomBar">Ideas, requests, problems regarding <a href="https://intranet.psi.ch/Main/WebHome">PSI Wiki</a>? <a href="mailto&#58;psi&#46;intranet&#64;psi&#46;ch&#63;subject&#61;PSI&#32;Wiki&#37;20Feedback&#37;20on&#37;20MUSR&#46;MusrFitSetup">Send feedback</a></div></div></div>
</div>
</div>
</div>
</div></div><!-- /endWrap -->
<p></p>
<p></p>
<p></p>
<p></p>
<p></p>
</body>
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFitSetup?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Wed, 27 Jun 2012 11:12:56 GMT -->
</div></body>
<!-- Mirrored from intranet.psi.ch/MUSR/MusrFitSetup?cover=print by HTTrack Website Copier/3.x [XR&CO'2010], Mon, 03 Sep 2012 07:32:03 GMT -->
<!-- Added by HTTrack --><meta http-equiv="content-type" content="text/html;charset=iso-8859-1"><!-- /Added by HTTrack -->
</html>
<p></p>
<p></p>
<p></p>
<p></p>