Mercurial > repos > iuc > bcftools_gtcheck
changeset 20:91c1e57d5c7f draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit bfc4ff4956b94885638ae07a2560bac5f84fcca8
| author | iuc |
|---|---|
| date | Tue, 16 Jul 2024 17:05:16 +0000 |
| parents | 3eac729e66c9 |
| children | |
| files | bcftools_gtcheck.xml macros.xml |
| diffstat | 2 files changed, 3 insertions(+), 3 deletions(-) [+] |
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--- a/bcftools_gtcheck.xml Thu Jan 12 15:36:04 2023 +0000 +++ b/bcftools_gtcheck.xml Tue Jul 16 17:05:16 2024 +0000 @@ -23,7 +23,7 @@ bcftools index $genotypes_vcf && #elif $section.genotypes.is_of_type('bcf') #set $genotypes_vcf = 'genotypes.bcf' - ln -s '$ection.genotypes' $genotypes_vcf && + ln -s '$section.genotypes' $genotypes_vcf && #if $section.genotypes.metadata.bcf_index: ln -s $section.genotypes.metadata.bcf_index ${genotypes_vcf}.csi && #else
--- a/macros.xml Thu Jan 12 15:36:04 2023 +0000 +++ b/macros.xml Tue Jul 16 17:05:16 2024 +0000 @@ -174,7 +174,7 @@ </token> <xml name="macro_AF_file"> - <param name="AF_file" argument="--AF-file" type="data" format="tabular" optional="true" label="Allele frequencies file" help="Tab-delimited file containing the columns CHR,POS,REF,ALT,AF" /> + <param argument="--AF-file" type="data" format="tabular" optional="true" label="Allele frequencies file" help="Tab-delimited file containing the columns CHR,POS,REF,ALT,AF" /> </xml> <!-- This may need to bgzip and tabix the file --> <token name="@PREPARE_AF_FILE@"> @@ -191,7 +191,7 @@ </token> <xml name="macro_estimate_AF"> - <param name="estimate_AF" argument="--estimate-AF" type="data" format="data" optional="true" label="Estimate allele frequency" help="Calculate AC,AN counts on the fly, using either all samples ("-") or samples listed in <file>" /> + <param argument="--estimate-AF" type="data" format="data" optional="true" label="Estimate allele frequency" help="Calculate AC,AN counts on the fly, using either all samples ("-") or samples listed in <file>" /> </xml> <token name="@ESTIMATE_AF@"> #if 'estimate_AF' in $section and $section.estimate_AF: