| Previous changeset 0:91230b9141c1 (2022-07-29) Next changeset 2:19e4e2d98ebb (2024-09-02) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/checkm commit a96defec82bfa9628fa821ffa6df5c68314a41d8 |
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modified:
macros.xml taxonomy_wf.xml |
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| diff -r 91230b9141c1 -r 2e995a9aa00e macros.xml --- a/macros.xml Fri Jul 29 20:32:07 2022 +0000 +++ b/macros.xml Mon Aug 08 20:01:28 2022 +0000 |
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| @@ -119,7 +119,7 @@ <filter>'alignment_file' in extra_outputs</filter> </data>--> <data name="marker_gene_stats" format="tabular" from_work_dir="output/storage/marker_gene_stats.tsv" label="${tool.name} on ${on_string}: Marker gene statistics"> - <filter>'marker_gene_stats' in extra_outputs</filter> + <filter>extra_outputs and 'marker_gene_stats' in extra_outputs</filter> </data> </xml> <xml name="rank_taxon"> |
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| diff -r 91230b9141c1 -r 2e995a9aa00e taxonomy_wf.xml --- a/taxonomy_wf.xml Fri Jul 29 20:32:07 2022 +0000 +++ b/taxonomy_wf.xml Mon Aug 08 20:01:28 2022 +0000 |
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| @@ -54,30 +54,30 @@ <data name="results" format="tabular" label="${tool.name} on ${on_string}: Bin statistics"/> <!-- taxon_set outputs --> <data name="marker_file" format="tabular" from_work_dir="output/*.ms" label="${tool.name} on ${on_string}: Marker genes"> - <filter>'marker_file' in extra_outputs</filter> + <filter>extra_outputs and 'marker_file' in extra_outputs</filter> </data> <!--analyze outputs--> <collection name="hmmer_analyze" type="list" label="${tool.name} on ${on_string}: Marker gene HMM hits to each bin"> - <filter>'hmmer_analyze' in extra_outputs</filter> + <filter>extra_outputs and 'hmmer_analyze' in extra_outputs</filter> <discover_datasets pattern="(?P<designation>.*)/hmmer\.analyze\.txt" format="txt" directory="output/bins/" recurse="true" match_relative_path="true"/> </collection> <data name="bin_stats_analyze" format="tabular" from_work_dir="output/storage/bin_stats.analyze.tsv" label="${tool.name} on ${on_string}: Marker gene bin stats"> - <filter>'bin_stats_analyze' in extra_outputs</filter> + <filter>extra_outputs and 'bin_stats_analyze' in extra_outputs</filter> </data> <data name="checkm_hmm_info" format="zip" from_work_dir="output/storage/checkm_hmm_info.pkl.gz" label="${tool.name} on ${on_string}: Marker gene HMM info for each bin" > - <filter>'checkm_hmm_info' in extra_outputs</filter> + <filter>extra_outputs and 'checkm_hmm_info' in extra_outputs</filter> </data> <collection name="hmmer_analyze_ali" type="list" label="${tool.name} on ${on_string}: HMMER alignment file for each bin"> - <filter>analyze['ali'] and 'hmmer_analyze_ali' in extra_outputs</filter> + <filter>analyze['ali'] and extra_outputs and 'hmmer_analyze_ali' in extra_outputs</filter> <discover_datasets pattern="(?P<designation>.*)/hmmer\.analyze\.ali\.txt" format="txt" directory="output/bins/" recurse="true" match_relative_path="true"/> </collection> <!--qa outputs--> <data name="bin_stats_ext" format="tabular" from_work_dir="output/storage/bin_stats_ext.tsv" label="${tool.name} on ${on_string}: Marker gene bin extensive stats"> - <filter>'bin_stats_ext' in extra_outputs</filter> + <filter>extra_outputs and 'bin_stats_ext' in extra_outputs</filter> </data> <expand macro="qa_extra_outputs" /> <data name="marker_gene_stats" format="tabular" from_work_dir="output/storage/marker_gene_stats.tsv" label="${tool.name} on ${on_string}: Marker gene statistics"> - <filter>'marker_gene_stats' in extra_outputs</filter> + <filter>extra_outputs and 'marker_gene_stats' in extra_outputs</filter> </data> </outputs> <tests> |