| Previous changeset 5:9da7052375b9 (2015-11-12) Next changeset 7:1efce8a693ca (2015-11-12) |
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Commit message:
planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/crossmap_galaxy_wrapper commit 7ab6217b10b7483a03140eddc9c0567551b41b62 |
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modified:
crossmap.xml |
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| diff -r 9da7052375b9 -r 5ef4ac8f2956 crossmap.xml --- a/crossmap.xml Thu Nov 12 09:06:25 2015 -0500 +++ b/crossmap.xml Thu Nov 12 10:42:27 2015 -0500 |
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| @@ -12,7 +12,7 @@ <regex match=".*" source="both" level="log"/> </stdio> - <version_command>python \$CROSSMAP_ROOT_DIR/bin/CrossMap.py 2>&1 | head -n 1 | grep -E --only-matching 'CrossMap.*'</version_command> + <version_command>python $CROSSMAP_ROOT_DIR/bin/CrossMap.py 2>&1 | head -n 1 | grep -E --only-matching 'CrossMap.*'</version_command> <command><!-- First line of CrossMap has hardcoded "#!/usr/bin/python". This makes use of Galaxy's python: --> python \$CROSSMAP_ROOT_DIR/bin/CrossMap.py @@ -304,7 +304,7 @@ </inputs> <outputs> - <data format="text" name="output" label="${tool.name} on "> + <data format="text" name="output" label="${tool.name} on ${on_string}"> <change_format> <when input="multiple.input_format" value="bam" format="bam" /> <when input="multiple.input_format" value="sam" format="sam" /> @@ -312,19 +312,19 @@ <when input="multiple.input_format" value="bigwig" format="bigwig" /> <when input="multiple.input_format" value="gff" format="gff" /> <when input="multiple.input_format" value="vcf" format="vcf" /> - <when input="imultiple.nput_format" value="wig" format="bigwig" /> + <when input="multiple.input_format" value="wig" format="bigwig" /> </change_format> </data> - <data format="text" name="output_unmapped" label="${tool.name} unmapped on "> - <filter>input_format in ["bam" , "vcf"]</filter> + <data format="text" name="output_unmapped" label="${tool.name} (unmapped) on ${on_string}"> + <filter>multiple['input_format'] in ["bam" , "vcf"]</filter> <change_format> <when input="multiple.input_format" value="bam" format="bam" /> <when input="multiple.input_format" value="vcf" format="vcf" /> </change_format> </data> - <data format="text" name="output2" label="${tool.name} on "> - <filter>input_format in ["wig"]</filter> + <data format="text" name="output2" label="${tool.name} (bedgraph) on ${on_string}"> + <filter>multiple['input_format'] in ["wig"]</filter> <change_format> <when input="multiple.input_format" value="wig" format="bedgraph" /> </change_format> |