Mercurial > repos > mini > strelka
changeset 1:f48854499d41
Deleted selected files
| author | mini |
|---|---|
| date | Thu, 25 Sep 2014 12:02:14 -0400 |
| parents | 7a9f20ca4ad5 |
| children | 7c35d3efd1e7 |
| files | strelka2/strelka.xml |
| diffstat | 1 files changed, 0 insertions(+), 35 deletions(-) [+] |
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--- a/strelka2/strelka.xml Thu Sep 25 11:59:08 2014 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,35 +0,0 @@ -<tool id="strelka2" name="Strelka 2" version="1.0.14"> - <requirements> - <requirement type="package" version="0.1.18">samtools</requirement> - <requirement type="package" version="0.1.11">vcftools</requirement> - </requirements> - <description>Strelka without dependencie built-in</description> - <command interpreter="python"> - strelka_wrapper.py - --tumorBam $tumorBam - --normalBam $normalBam - --refFile $refFile - --configFile $configFile - </command> - - <inputs> - <param format="bam" name="tumorBam" type="data" label="Tumor bam file"/> - <param format="bam" name="normalBam" type="data" label="Normal bam file"/> - <param format="fasta" name="refFile" type="data" label="ref fasta file"/> - <param format="ini" name="configFile" type="data" label="config file"/> - </inputs> - - <outputs> - <data format="vcf" name="output_vcf_1" label="${tool.name} on ${on_string} (passed.somatic.snvs.vcf)" from_work_dir="StrelkaAnalysis/results/passed.somatic.snvs.vcf" /> - <data format="vcf" name="output_vcf_2" label="${tool.name} on ${on_string} (passed.somatic.indels.vcf)" from_work_dir="StrelkaAnalysis/results/passed.somatic.indels.vcf" /> - <data format="vcf" name="output_vcf_3" label="${tool.name} on ${on_string} (all.somatic.snvs.vcf)" from_work_dir="StrelkaAnalysis/results/all.somatic.snvs.vcf" /> - <data format="vcf" name="output_vcf_4" label="${tool.name} on ${on_string} (all.somatic.indels.vcf)" from_work_dir="StrelkaAnalysis/results/all.somatic.indels.vcf" /> - </outputs> - <trackster_conf/> - - - <help> -Strelka, a method for somatic SNV and small indel detectipon from sequencing data of matched tumor-normal samples. - </help> - -</tool>