Mercurial > repos > iuc > bwa_mem2
comparison bwa-mem2.xml @ 2:bbb670b70b54 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bwa_mem2 commit 563c0931e9fc14b0d6e8a7d64ad042a483ec9bb4"
| author | iuc |
|---|---|
| date | Wed, 24 Nov 2021 21:29:12 +0000 |
| parents | f15e2687f9de |
| children |
comparison
equal
deleted
inserted
replaced
| 1:54e1a39b5068 | 2:bbb670b70b54 |
|---|---|
| 3 <macros> | 3 <macros> |
| 4 <import>read_group_macros.xml</import> | 4 <import>read_group_macros.xml</import> |
| 5 <import>macros.xml</import> | 5 <import>macros.xml</import> |
| 6 </macros> | 6 </macros> |
| 7 <expand macro="requirements"/> | 7 <expand macro="requirements"/> |
| 8 <expand macro="xrefs"/> | |
| 8 <expand macro="stdio"/> | 9 <expand macro="stdio"/> |
| 9 <expand macro="xrefs"/> | |
| 10 <command><![CDATA[ | 10 <command><![CDATA[ |
| 11 @pipefail@ | 11 @pipefail@ |
| 12 @set_reference_fasta_filename@ | 12 @set_reference_fasta_filename@ |
| 13 | 13 |
| 14 ## Begin BWA-MEM command line | 14 ## Begin BWA-MEM command line |
| 304 <output name="bam_output" ftype="bam" file="bwa-mem-test1.bam" lines_diff="4" /> | 304 <output name="bam_output" ftype="bam" file="bwa-mem-test1.bam" lines_diff="4" /> |
| 305 </test> | 305 </test> |
| 306 <test> | 306 <test> |
| 307 <param name="reference_source_selector" value="history" /> | 307 <param name="reference_source_selector" value="history" /> |
| 308 <param name="ref_file" ftype="fasta" value="bwa-mem-mt-genome.fa"/> | 308 <param name="ref_file" ftype="fasta" value="bwa-mem-mt-genome.fa"/> |
| 309 <param name="index_a" value="is"/> | |
| 310 <param name="fastq_input_selector" value="paired"/> | 309 <param name="fastq_input_selector" value="paired"/> |
| 311 <param name="fastq_input1" ftype="fastqsanger" value="bwa-mem-fastq1.fq"/> | 310 <param name="fastq_input1" ftype="fastqsanger" value="bwa-mem-fastq1.fq"/> |
| 312 <param name="fastq_input2" ftype="fastqsanger" value="bwa-mem-fastq2.fq"/> | 311 <param name="fastq_input2" ftype="fastqsanger" value="bwa-mem-fastq2.fq"/> |
| 313 <param name="rg_selector" value="set"/> | 312 <param name="rg_selector" value="set"/> |
| 314 <param name="ID" value="rg1"/> | 313 <param name="ID" value="rg1"/> |