Mercurial > repos > iuc > crossmap_vcf
comparison crossmap_vcf.xml @ 4:9d61d74f03a4 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crossmap commit 2dbcf8154aff86b27a1dd535407d20168c4ef697"
| author | iuc |
|---|---|
| date | Wed, 11 Sep 2019 19:29:21 -0400 |
| parents | 9db73ff23c9f |
| children | 71730c177cdf |
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| 3:9db73ff23c9f | 4:9d61d74f03a4 |
|---|---|
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements"/> | 6 <expand macro="requirements"/> |
| 7 <expand macro="stdio"/> | 7 <expand macro="stdio"/> |
| 8 <expand macro="version_command"/> | 8 <expand macro="version_command"/> |
| 9 | 9 |
| 10 <command><![CDATA[ | 10 <command detect_errors="aggressive"><![CDATA[ |
| 11 #set $input_file = str($seq_source.input) | 11 #set $input_file = str($seq_source.input) |
| 12 | 12 |
| 13 CrossMap.py vcf | 13 CrossMap.py vcf |
| 14 | 14 |
| 15 #if $seq_source.index_source_s == "cached" | 15 #if $seq_source.index_source_s == "cached" |
| 75 <has_text text="##liftOverProgram=CrossMap(https://sourceforge.net/projects/crossmap/)"/> | 75 <has_text text="##liftOverProgram=CrossMap(https://sourceforge.net/projects/crossmap/)"/> |
| 76 <has_text text="##new_reference_genome="/> | 76 <has_text text="##new_reference_genome="/> |
| 77 <has_text text="#CHROM"/> | 77 <has_text text="#CHROM"/> |
| 78 <has_text_matching expression="2.*?rs11449.*?PASS"/> | 78 <has_text_matching expression="2.*?rs11449.*?PASS"/> |
| 79 <has_text_matching expression="2.*?rs84825.*?PASS"/> | 79 <has_text_matching expression="2.*?rs84825.*?PASS"/> |
| 80 <has_text_matching expression="2.*?rs84823.*?PASS"/> | |
| 81 </assert_contents> | 80 </assert_contents> |
| 82 </output> | 81 </output> |
| 83 <output name="output_unmapped" file="test_vcf_01_output.vcf.unmap"/> | 82 <output name="output_unmapped" file="test_vcf_01_output.vcf.unmap"/> |
| 84 </test> | 83 </test> |
| 85 </tests> | 84 </tests> |