1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/206bd8b822ca/ changeset: 206bd8b822ca user: jgoecks date: 2012-09-27 20:12:15 summary: Cuffcompare wrapper: only include refmap datasets if reference annotation is used. affected #: 1 file
diff -r 9972ac6ee91d7cab4b762ab6c68ff0cacc8b108e -r 206bd8b822caab015f8447c92aeb63264afc3667 tools/ngs_rna/cuffcompare_wrapper.xml --- a/tools/ngs_rna/cuffcompare_wrapper.xml +++ b/tools/ngs_rna/cuffcompare_wrapper.xml @@ -80,13 +80,18 @@ from_work_dir="cc_output.stats" /><data format="tabular" name="input1_tmap" label="${tool.name} on ${on_string}: ${first_input.hid} data tmap file" from_work_dir="cc_output.input1.tmap" /> - <data format="tabular" name="input1_refmap" label="${tool.name} on ${on_string}: data ${first_input.hid} refmap file" - from_work_dir="cc_output.input1.refmap"/> + <data format="tabular" name="input1_refmap" + label="${tool.name} on ${on_string}: data ${first_input.hid} refmap file" + from_work_dir="cc_output.input1.refmap"> + <filter>annotation['use_ref_annotation'] == 'Yes'</filter> + </data><data format="tabular" name="input2_tmap" label="${tool.name} on ${on_string}: data ${input_files[0]['additional_input'].hid} tmap file" from_work_dir="cc_output.input2.tmap"> - <filter>len( input_files ) > 0</filter> + <filter>len( input_files ) > 1</filter></data> - <data format="tabular" name="input2_refmap" label="${tool.name} on ${on_string}: data ${input_files[0]['additional_input'].hid} refmap file" from_work_dir="cc_output.input2.refmap"> - <filter>len( input_files ) > 0</filter> + <data format="tabular" name="input2_refmap" + label="${tool.name} on ${on_string}: data ${input_files[0]['additional_input'].hid} refmap file" + from_work_dir="cc_output.input2.refmap"> + <filter>annotation['use_ref_annotation'] == 'Yes' and len( input_files ) > 1</filter></data><data format="tabular" name="transcripts_tracking" label="${tool.name} on ${on_string}: transcript tracking" from_work_dir="cc_output.tracking"><filter>len( input_files ) > 0</filter>
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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