Mercurial > repos > scottx611x > qualimap2_bamqc
changeset 10:4e5e0a116434 draft
planemo upload for repository https://github.com/scottx611x/qualimap2 commit dc78b7c4b1780b316ca4aba2be247969ac1100ec-dirty
| author | scottx611x |
|---|---|
| date | Thu, 26 Jul 2018 12:14:12 -0400 |
| parents | e14c864ee2b0 |
| children | 154272384f7b |
| files | qualimap_bamqc.py qualimap_bamqc.xml |
| diffstat | 2 files changed, 5 insertions(+), 5 deletions(-) [+] |
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--- a/qualimap_bamqc.py Thu Jul 26 11:44:20 2018 -0400 +++ b/qualimap_bamqc.py Thu Jul 26 12:14:12 2018 -0400 @@ -29,11 +29,11 @@ ) parser.add_argument('--input_file') parser.add_argument('--out_genome_file', default="genome_coverage.txt") - parser.add_argument('--out_dir') + parser.add_argument('--out_dir', default="qualimap_results") parser.add_argument('--java_mem_size', default="8G") args = parser.parse_args() - + qualimap_bamqc( args.input_file, args.out_genome_file,
--- a/qualimap_bamqc.xml Thu Jul 26 11:44:20 2018 -0400 +++ b/qualimap_bamqc.xml Thu Jul 26 12:14:12 2018 -0400 @@ -21,13 +21,13 @@ </inputs> <outputs> <data format="txt" name="genome_coverage" label="Qualimap BamQC coverage report"> - <discover_datasets pattern="genome_coverage*" visible="true" ext="txt" assign_primary_output="true"/> + <discover_datasets visible="true" ext="txt" assign_primary_output="true"/> </data> <data format="txt" name="genome_results" label="Qualimap BamQC results"> - <discover_datasets pattern="genome_results*" visible="true" ext="txt" directory="qualimap_results" assign_primary_output="true"/> + <discover_datasets pattern="__designation__" visible="true" ext="txt" directory="qualimap_results" assign_primary_output="true"/> </data> <data format="html" name="qualimap_html_results" label="Qualimap BamQC HTML report"> - <discover_datasets pattern="qualimapReport*" visible="true" ext="html" directory="qualimap_results" assign_primary_output="true"/> + <discover_datasets pattern="__designation__" visible="true" ext="html" directory="qualimap_results" assign_primary_output="true"/> </data> </outputs>