Add Samtools Collate #7674
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Add Samtools Collate #7674
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Contributor
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should I pump the version of the failed tools in the collection? |
Contributor
No, thats not needed |
bernt-matthias
added
the
skip-version-check
| <inputs> | ||
| <param name="input" type="data" format="sam,bam,cram" label="Input File"/> | ||
| <section name="advanced_options" title="Advanced Options" expanded="no"> | ||
| <param name="add_pg" type="boolean" label="Add @PG in Header" checked="true" truevalue="" falsevalue="--no-PG" help="Add a @PG line to the header of the output file. "/> |
| <param name="input" type="data" format="sam,bam,cram" label="Input File"/> | ||
| <section name="advanced_options" title="Advanced Options" expanded="no"> | ||
| <param name="add_pg" type="boolean" label="Add @PG in Header" checked="true" truevalue="" falsevalue="--no-PG" help="Add a @PG line to the header of the output file. "/> | ||
| <param name="tmp_files" type="integer" label="Number of temporary files" value="64" min="0" help="Number of temporary files to use. "/> |
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Can we remove this parameter. Not sure if a user should be able to control this. At least we should set a limit
| </param> | ||
| <when value="no"></when> | ||
| <when value="-f"> | ||
| <param name="num_reads" type="integer" label="Number of Stored Reads" min="0" value="10000" help="Number of reads to store in memory (for use in fast mode)"/> |
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Same as for tmp_files. Then we also save the conditional
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FOR CONTRIBUTOR:
There are two labels that allow to ignore specific (false positive) tool linter errors:
skip-version-check: Use it if only a subset of the tools has been updated in a suite.skip-url-check: Use it if github CI sees 403 errors, but the URLs work.