Mercurial > repos > mvdbeek > igv_take_screenshots

comparison igv_make_screenshots.xml @ 25:c96924da37af draft

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planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit 0437e9e56f0af2ccfb5f119b0f290109807ed9b0-dirty
author mvdbeek
date Fri, 15 Jun 2018 12:56:58 -0400
parents 2b4c4b610be6
children 6f98222928ee
comparison
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24:2b4c4b610be6 25:c96924da37af
42 zip screenshots.zip *.png && 42 zip screenshots.zip *.png &&
43 cp screenshots.zip '$screenshots_out' 43 cp screenshots.zip '$screenshots_out'
44 #end if 44 #end if
45 ]]></command> 45 ]]></command>
46 <configfiles> 46 <configfiles>
47 <configfile name="igv_session">#import re 47 <configfile name="igv_session">
48 <![CDATA[<?xml version="1.0" encoding="UTF-8" standalone="no"?> 48 <![CDATA[<?xml version="1.0" encoding="UTF-8" standalone="no"?>
49 <Session genome="genome.fa" hasGeneTrack="false" hasSequenceTrack="true" version="8"> 49 <Session genome="genome.fa" hasGeneTrack="false" hasSequenceTrack="true" version="8">
50 <Resources> 50 <Resources>
51 #for $i, $inputsection in enumerate($inputfiles): 51 #for $i, $inputsection in enumerate($inputfiles):
52 @PATH@ 52 @PATH@
81 #end for 81 #end for
82 </Panel> 82 </Panel>
83 <PanelLayout dividerFractions="0.004995836802664446,0.12905911740216486,0.2681099084096586,0.5512073272273106,0.8409658617818485"/> 83 <PanelLayout dividerFractions="0.004995836802664446,0.12905911740216486,0.2681099084096586,0.5512073272273106,0.8409658617818485"/>
84 </Session> 84 </Session>
85 ]]></configfile> 85 ]]></configfile>
86 <configfile name="igv_session_remote">#import re 86 <configfile name="igv_session_remote">
87 <![CDATA[<?xml version="1.0" encoding="UTF-8" standalone="no"?> 87 <![CDATA[<?xml version="1.0" encoding="UTF-8" standalone="no"?>
88 <Session genome="dm6" hasGeneTrack="true" hasSequenceTrack="true" version="8"> 88 <Session genome="dm6" hasGeneTrack="true" hasSequenceTrack="true" version="8">
89 <Resources>#for $i, $inputsection in enumerate($inputfiles):@DISPLAY_LINK@<Resource path="$display_link"/>#end for 89 <Resources>#for $i, $inputsection in enumerate($inputfiles):@DISPLAY_LINK@<Resource path="$display_link"/>#end for
90 </Resources> 90 </Resources>
91 #for $i, $inputsection in enumerate($inputfiles): 91 #for $i, $inputsection in enumerate($inputfiles):
108 <Panel height="186" name="FeaturePanel" width="$width"> 108 <Panel height="186" name="FeaturePanel" width="$width">
109 <Track altColor="0,0,178" autoScale="false" color="0,0,178" displayMode="COLLAPSED" featureVisibilityWindow="-1" fontSize="10" id="Reference sequence" name="Reference sequence" sortable="false" visible="true"/> 109 <Track altColor="0,0,178" autoScale="false" color="0,0,178" displayMode="COLLAPSED" featureVisibilityWindow="-1" fontSize="10" id="Reference sequence" name="Reference sequence" sortable="false" visible="true"/>
110 #for $i, $inputsection in enumerate($inputfiles): 110 #for $i, $inputsection in enumerate($inputfiles):
111 #if not $inputsection.input.is_of_type('bam') 111 #if not $inputsection.input.is_of_type('bam')
112 #set $label=str($inputsection.label) if str($inputsection.label) else str($inputsection.input.element_identifier) 112 #set $label=str($inputsection.label) if str($inputsection.label) else str($inputsection.input.element_identifier)
113 @DISLPAY_LINK@ 113 @DISPLAY_LINK@
114 <Track altColor="0,0,178" autoScale="false" clazz="org.broad.igv.track.FeatureTrack" color="0,0,178" displayMode="COLLAPSED" featureVisibilityWindow="-1" fontSize="10" id="$display_link" name="$label" renderer="BASIC_FEATURE" sortable="false" visible="true" windowFunction="count"/> 114 <Track altColor="0,0,178" autoScale="false" clazz="org.broad.igv.track.FeatureTrack" color="0,0,178" displayMode="COLLAPSED" featureVisibilityWindow="-1" fontSize="10" id="$display_link" name="$label" renderer="BASIC_FEATURE" sortable="false" visible="true" windowFunction="count"/>
115 #end if 115 #end if
116 #end for 116 #end for
117 </Panel> 117 </Panel>
118 <PanelLayout dividerFractions="0.004995836802664446,0.12905911740216486,0.2681099084096586,0.5512073272273106,0.8409658617818485"/> 118 <PanelLayout dividerFractions="0.004995836802664446,0.12905911740216486,0.2681099084096586,0.5512073272273106,0.8409658617818485"/>