Mercurial > repos > mvdbeek > bam_readtagger
comparison findcluster.xml @ 17:777fd55e66ac draft
planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit f28b0130760f515502b7858bd92adf948a942f39-dirty
| author | mvdbeek |
|---|---|
| date | Mon, 03 Apr 2017 09:40:32 -0400 |
| parents | ffd8bf1b9ebc |
| children | 8fef53971086 |
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| 16:ffd8bf1b9ebc | 17:777fd55e66ac |
|---|---|
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="0.3.12">readtagger</requirement> | 4 <requirement type="package" version="0.3.12">readtagger</requirement> |
| 5 </requirements> | 5 </requirements> |
| 6 <version_command>findcluster --version</version_command> | 6 <version_command>findcluster --version</version_command> |
| 7 <command detect_errors="aggressive"><![CDATA[ | 7 <command detect_errors="aggressive"><![CDATA[ |
| 8 ln -f -s $input_path input.bam && | |
| 9 ln -f -s $input.metadata.bam_index input.bam.bai && | |
| 8 findcluster | 10 findcluster |
| 9 --input_path '$input' | 11 --input_path input.bam |
| 10 #if $reference_fasta: | 12 #if $reference_fasta: |
| 11 --reference_fasta '$reference_fasta' | 13 --reference_fasta '$reference_fasta' |
| 12 #end if | 14 #end if |
| 13 --output_bam '$output_bam' | 15 --output_bam '$output_bam' |
| 14 --output_gff '$output_gff' | 16 --output_gff '$output_gff' |