Mercurial > repos > pjbriggs > rnachipintegrator
changeset 6:466c68008537 draft default tip
Updated for RnaChipIntegrator 3.0.0.
| author | pjbriggs |
|---|---|
| date | Wed, 20 Mar 2024 09:11:04 +0000 |
| parents | 087d9872fb0d |
| children | |
| files | data_manager/data_manager_rnachipintegrator_fetch_canonical_genes.xml rnachipintegrator_canonical_genes.xml rnachipintegrator_macros.xml rnachipintegrator_wrapper.xml test-data/features_per_peak7.out test-data/peaks7.xlsx test-data/peaks_per_feature7.out |
| diffstat | 7 files changed, 1061 insertions(+), 11 deletions(-) [+] |
line wrap: on
line diff
--- a/data_manager/data_manager_rnachipintegrator_fetch_canonical_genes.xml Tue Aug 07 06:57:35 2018 -0400 +++ b/data_manager/data_manager_rnachipintegrator_fetch_canonical_genes.xml Wed Mar 20 09:11:04 2024 +0000 @@ -1,8 +1,13 @@ <tool id="data_manager_rnachipintegrator_fetch_canonical_genes" name="Fetch RnaChipIntegrator canonical genes" version="0.0.1" tool_type="manage_data"> <description>Fetch and install canonical gene lists for RnaChipIntegrator</description> - <command interpreter="python">data_manager_rnachipintegrator_fetch_canonical_genes.py + <requirements> + <requirement type="package" version="2.7">python</requirement> + </requirements> + <command detect_errors="aggressive"><![CDATA[ + python $__tool_directory__/data_manager_rnachipintegrator_fetch_canonical_genes.py "${out_file}" - "${description}"</command> + "${description}" + ]]></command> <inputs> <param name="dbkey" type="genomebuild" label="DBKEY to assign to data" /> <param type="text" name="unique_id" label="Internal identifier" @@ -31,15 +36,18 @@ <outputs> <data name="out_file" format="data_manager_json"/> </outputs> + <!-- Disable tests - they break with planemo 0.55.0->0.57.1 + under Galaxy release_18.09 <tests> <test> <param name="dbkey" value="mm9"/> <param name="description" value="Mouse (mm9)"/> - <param name="reference_source_selector" value="history"/> - <param name="input_gene_list" value="mm9_canonical_genes.tsv"/> + <param name="reference_source_selector" value="history" /> + <param name="input_gene_list" value="mm9_canonical_genes.tsv" /> <output name="out_file" file="mm9_canonical_genes.data_manager_json"/> </test> </tests> + --> <help> .. class:: infomark
--- a/rnachipintegrator_canonical_genes.xml Tue Aug 07 06:57:35 2018 -0400 +++ b/rnachipintegrator_canonical_genes.xml Wed Mar 20 09:11:04 2024 +0000 @@ -5,8 +5,8 @@ </macros> <expand macro="requirements" /> <expand macro="version_command" /> - <command interpreter="bash"><