Mercurial > repos > iuc > crossmap_vcf
changeset 3:9db73ff23c9f draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crossmap commit 23fab16cd40acbd5b0e9d640ed3858040db7a622
| author | iuc |
|---|---|
| date | Thu, 24 May 2018 19:09:50 -0400 |
| parents | 7a3c34157901 |
| children | 9d61d74f03a4 |
| files | crossmap_vcf.xml macros.xml |
| diffstat | 2 files changed, 6 insertions(+), 9 deletions(-) [+] |
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--- a/crossmap_vcf.xml Fri Oct 20 11:34:06 2017 -0400 +++ b/crossmap_vcf.xml Thu May 24 19:09:50 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="crossmap_vcf" name="CrossMap VCF" version="@WRAPPER_VERSION@-0"> +<tool id="crossmap_vcf" name="CrossMap VCF" version="@WRAPPER_VERSION@"> <description>Convert genome coordinates or annotation files between genome assemblies</description> <macros> <import>macros.xml</import> @@ -22,9 +22,7 @@ '${input_file}' '${seq_source.input_fasta}' -'${output}' - -&& mv '${output}.unmap' '$output_unmapped' +output ]]></command> <inputs> @@ -59,8 +57,8 @@ </inputs> <outputs> - <data name="output" format="vcf" label="${tool.name} on ${on_string}" /> - <data name="output_unmapped" format="vcf" label="${tool.name} (unmapped) on ${on_string}" /> + <data name="output" format="vcf" label="${tool.name} on ${on_string}" from_work_dir="output" /> + <data name="output_unmapped" format="vcf" label="${tool.name} (unmapped) on ${on_string}" from_work_dir="output.unmap" /> </outputs> <tests> @@ -107,7 +105,6 @@ you run CrossMap). - In the output VCF file, whether the chromosome IDs contain “chr” or not depends on the format of the input VCF file. - ]]></help> <citations>
--- a/macros.xml Fri Oct 20 11:34:06 2017 -0400 +++ b/macros.xml Thu May 24 19:09:50 2018 -0400 @@ -2,11 +2,11 @@ <macros> <xml name="requirements"> <requirements> - <requirement type="package" version="0.2.5">crossmap</requirement> + <requirement type="package" version="0.2.7">crossmap</requirement> <yield/> </requirements> </xml> - <token name="@WRAPPER_VERSION@">0.2.5</token> + <token name="@WRAPPER_VERSION@">0.2.7</token> <xml name="stdio"> <stdio> <regex match="Aborted (core dumped)" source="stdout" level="fatal"/>