Mercurial > repos > yufei-luo > s_mart
changeset 64:783e6ed4eb66
Minor bug correction.
Added casts to str in Galaxy XML files. Also closed the writer in the Python script "changeTagName."
| author | m-zytnicki |
|---|---|
| date | Mon, 19 Oct 2015 14:16:44 +0200 |
| parents | 5f210bc9f486 |
| children | 090709ab81d1 |
| files | SMART/Java/Python/changeTagName.py SMART/galaxy/CompareOverlappingAdapt.xml SMART/galaxy/CompareOverlappingSmallQuery.xml SMART/galaxy/CompareOverlappingSmallRef.xml |
| diffstat | 4 files changed, 7 insertions(+), 6 deletions(-) [+] |
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--- 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()
--- 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 </command>
--- 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 </command>
--- 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 </command>