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comparison uvp.xml @ 8:888953979f8c draft default tip

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"planemo upload for repository https://github.com/dfornika/galaxytools/blob/master/tools/uvp commit d0b060e7d9cc9fd89926dbc07fc93c8a1471b3fe-dirty"
author dfornika
date Mon, 28 Oct 2019 18:36:17 -0400
parents 679d120f8c09
children
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7:679d120f8c09 8:888953979f8c
18 #else: 18 #else:
19 ln -s '${single_paired.input_sequences}' 'R1.fastq.gz' && 19 ln -s '${single_paired.input_sequences}' 'R1.fastq.gz' &&
20 #end if 20 #end if
21 uvp 21 uvp
22 --threads \${GALAXY_SLOTS:-1} 22 --threads \${GALAXY_SLOTS:-1}
23 --verbose
23 #if $single_paired.single_paired_selector == 'yes' 24 #if $single_paired.single_paired_selector == 'yes'
24 -n 'sample' 25 -n 'sample'
25 -q 'R1.fastq.gz' 26 -q 'R1.fastq.gz'
26 -q2 'R2.fastq.gz' 27 -q2 'R2.fastq.gz'
27 #elif $single_paired.single_paired_selector == "collection": 28 #elif $single_paired.single_paired_selector == "collection":
64 <param name="annotate" type="boolean" truevalue="--annotate" falsevalue="" /> 65 <param name="annotate" type="boolean" truevalue="--annotate" falsevalue="" />
65 </inputs> 66 </inputs>
66 <outputs> 67 <outputs>
67 <data name="lineage_report" label="Lineage Report" format="tabular" from_work_dir="Results/sample/sample.lineage_report.txt"/> 68 <data name="lineage_report" label="Lineage Report" format="tabular" from_work_dir="Results/sample/sample.lineage_report.txt"/>
68 <data name="validation_report" label="Validation Report" format="tabular" from_work_dir="Results/sample/validation/Validation_report.txt"/> 69 <data name="validation_report" label="Validation Report" format="tabular" from_work_dir="Results/sample/validation/Validation_report.txt"/>
70 <data name="kraken_report" label="Kraken Report" format="tabular" from_work_dir="Results/sample/kraken/final_report.txt"/>
69 <data name="low_quals" label="Low-quality" format="tabular" from_work_dir="QC/low_quals.txt"/> 71 <data name="low_quals" label="Low-quality" format="tabular" from_work_dir="QC/low_quals.txt"/>
70 </outputs> 72 </outputs>
71 <tests> 73 <tests>
72 </tests> 74 </tests>
73 <help> 75 <help>