Mercurial > repos > dfornika > tbprofiler_json_to_tabular
annotate tbprofiler_json_to_tabular.xml @ 3:dbf6a9eaa9c1 draft
planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/tbprofiler_json_to_tabular commit 888d26702a84c2f8fd1428aff8cd869e94cc0bae
| author | dfornika |
|---|---|
| date | Mon, 24 Oct 2022 23:01:44 +0000 |
| parents | 2da090ebb942 |
| children | 83a8ac4ba65f |
| rev | line source |
|---|---|
|
3
dbf6a9eaa9c1
planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/tbprofiler_json_to_tabular commit 888d26702a84c2f8fd1428aff8cd869e94cc0bae
dfornika
parents:
2
diff
changeset
|
1 <tool id="tbprofiler_json_to_tabular" name="Convert tbprofiler json report to tabular" version="0.1.0+galaxy1"> |
| 2 | 2 <description>Convert tbprofiler json report to tabular</description> |
| 3 <requirements> | |
| 4 </requirements> | |
| 5 <command detect_errors="exit_code"><![CDATA[ | |
| 6 '$__tool_directory__/tbprofiler_json_to_tabular.py' | |
| 7 ${report} \ | |
| 8 --qc ${qc} \ | |
| 9 --gene-coverage ${gene_coverage} \ | |
| 10 --missing-positions ${missing_positions \ | |
| 11 --resistance-variants ${resistance_variants} | |
| 12 --other-variants ${other_variants} \ | |
| 13 --analysis-metadata ${analysis_metadata} | |
| 14 ]]></command> | |
| 15 <inputs> | |
| 16 <param name="report" type="data" format="json" /> | |
| 17 </inputs> | |
| 18 <outputs> | |
| 19 <data name="qc" label="QC" format="tabular"/> | |
| 20 <data name="gene_coverage" label="Gene Coverage" format="tabular"/> | |
| 21 <data name="missing_positions" label="Missing positions" format="tabular"/> | |
| 22 <data name="resistance_variants" label="Resistance variants" format="tabular"/> | |
| 23 <data name="other_variants" label="Other variants" format="tabular"/> | |
| 24 <data name="analysis_metadata" label="Analysis metadata" format="tabular"/> | |
| 25 </outputs> | |
| 26 <tests> | |
| 27 <test> | |
| 28 <param name="report" value="test-01_tbprofiler.json" /> | |
| 29 <output name="qc" file="test-01_qc.tsv" ftype="tabular" /> | |
| 30 <output name="gene_coverage" file="test-01_gene_coverage.tsv" ftype="tabular" /> | |
| 31 <output name="missing_positions" file="test-01_missing_positions.tsv" ftype="tabular" /> | |
| 32 <output name="resistance_variants" file="test-01_resistance_variants.tsv" ftype="tabular" /> | |
| 33 <output name="other_variants" file="test-01_other_variants.tsv" ftype="tabular" /> | |
| 34 <output name="analysis_metadata" file="test-01_analysis_metadata.tsv" ftype="tabular" /> | |
| 35 </test> | |
| 36 </tests> | |
| 37 <help><![CDATA[ | |
| 38 ]]></help> | |
| 39 <citations> | |
| 40 </citations> | |
| 41 </tool> |