# HG changeset patch # User m-zytnicki # Date 1445257004 -7200 # Node ID 783e6ed4eb664e638e4fdd8d717ee11e28599df0 # Parent 5f210bc9f486eb967d8f1e8566da8d046f4cdc92 Minor bug correction. Added casts to str in Galaxy XML files. Also closed the writer in the Python script "changeTagName." diff -r 5f210bc9f486 -r 783e6ed4eb66 SMART/Java/Python/changeTagName.py --- a/SMART/Java/Python/changeTagName.py Mon Oct 19 12:02:29 2015 +0200 +++ b/SMART/Java/Python/changeTagName.py Mon Oct 19 14:16:44 2015 +0200 @@ -83,6 +83,7 @@ parser.transcriptListParser.close() writer.write() + writer.close() if options.mysql: mysqlWriter.write() diff -r 5f210bc9f486 -r 783e6ed4eb66 SMART/galaxy/CompareOverlappingAdapt.xml --- a/SMART/galaxy/CompareOverlappingAdapt.xml Mon Oct 19 12:02:29 2015 +0200 +++ b/SMART/galaxy/CompareOverlappingAdapt.xml Mon Oct 19 14:16:44 2015 +0200 @@ -8,9 +8,9 @@ #if $OptionDistance.Dist == 'Yes': -d $OptionDistance.distance #end if - #if $OptionCA == 'Collinear': + #if str($OptionCA) == 'Collinear': -c - #elif $OptionCA == 'AntiSense': + #elif str($OptionCA) == 'AntiSense': -a #end if diff -r 5f210bc9f486 -r 783e6ed4eb66 SMART/galaxy/CompareOverlappingSmallQuery.xml --- a/SMART/galaxy/CompareOverlappingSmallQuery.xml Mon Oct 19 12:02:29 2015 +0200 +++ b/SMART/galaxy/CompareOverlappingSmallQuery.xml Mon Oct 19 14:16:44 2015 +0200 @@ -14,9 +14,9 @@ #if $OptionPcOverlapRef.present == 'Yes': -P $OptionPcOverlapRef.minOverlap #end if - #if $OptionCA == 'Collinear': + #if str($OptionCA) == 'Collinear': -c - #elif $OptionCA == 'AntiSense': + #elif str($OptionCA) == 'AntiSense': -a #end if diff -r 5f210bc9f486 -r 783e6ed4eb66 SMART/galaxy/CompareOverlappingSmallRef.xml --- a/SMART/galaxy/CompareOverlappingSmallRef.xml Mon Oct 19 12:02:29 2015 +0200 +++ b/SMART/galaxy/CompareOverlappingSmallRef.xml Mon Oct 19 14:16:44 2015 +0200 @@ -14,9 +14,9 @@ #if $OptionPcOverlapRef.present == 'Yes': -P $OptionPcOverlapRef.minOverlap #end if - #if $OptionCA == 'Collinear': + #if str($OptionCA) == 'Collinear': -c - #elif $OptionCA == 'AntiSense': + #elif str($OptionCA) == 'AntiSense': -a #end if PKAfQZ|8 openms_noisefiltergaussian-da0add7a8abd/.hg_archival.txtUT _PKAfQGl6 openms_noisefiltergaussian-da0add7a8abd/404-urls.patchUT _PKAfQV.d ? openms_noisefiltergaussian-da0add7a8abd/NoiseFilterGaussian.xmlUT _PKAfQn:  openms_noisefiltergaussian-da0add7a8abd/OMSSAAdapter.patchUT _PKAfQ?dWY < openms_noisefiltergaussian-da0add7a8abd/PepNovoAdapter.patchUT _PKAfQrq 5 Ropenms_noisefiltergaussian-da0add7a8abd/filetypes.txtUT _PKAfQqT" 3 openms_noisefiltergaussian-da0add7a8abd/fill_ctd.pyUT _PKAfQ-YjSq: 'openms_noisefiltergaussian-da0add7a8abd/fill_ctd_clargs.pyUT _PKAfQ )7 openms_noisefiltergaussian-da0add7a8abd/generate-foo.shUT _PKAfQp ? 3 ^-openms_noisefiltergaussian-da0add7a8abd/generate.shUT _PKAfQzb= 3openms_noisefiltergaussian-da0add7a8abd/hardcoded_params.jsonUT _PKAfQB6kgd2 U<openms_noisefiltergaussian-da0add7a8abd/macros.xmlUT _PKAfQm|vU1; %Eopenms_noisefiltergaussian-da0add7a8abd/macros_autotest.xmlUT _PKAfQ0_!BA openms_noisefiltergaussian-da0add7a8abd/macros_discarded_auto.xmlUT _PKz