Mercurial > repos > petr-novak > re_utils
comparison extract_contigs_from_archive.xml @ 34:91996b991991 draft default tip
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| author | petr-novak |
|---|---|
| date | Fri, 16 Feb 2024 15:22:21 +0000 |
| parents | 93595f42a04d |
| children |
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| 33:f1738f8649b0 | 34:91996b991991 |
|---|---|
| 1 <tooll id="extract_contigs" name="Extract contigs from RepeatExplorer2 archive" version="1.0.0.3"> | 1 <tool id="extract_contigs" name="Extract contigs from RepeatExplorer2 archive" version="1.0.0.3"> |
| 2 <command detect_errors="exit_code"> | 2 <command detect_errors="exit_code"> |
| 3 <![CDATA[ | 3 <![CDATA[ |
| 4 unzip -p ${RepeatExplorer_archive} contigs.fasta > ${contigs} | 4 unzip -p ${RepeatExplorer_archive} contigs.fasta > ${contigs} |
| 5 && | 5 && |
| 6 mkdir -p tempdir | 6 mkdir -p tempdir |
| 20 | 20 |
| 21 <outputs> | 21 <outputs> |
| 22 <data name="contigs" format="fasta" label="Contigs from RepeatExplorer clustering from data ${RepeatExplorer_archive.hid}" /> | 22 <data name="contigs" format="fasta" label="Contigs from RepeatExplorer clustering from data ${RepeatExplorer_archive.hid}" /> |
| 23 <data name="aln" format="txt" label="Contigs from RepeatExplorer clustering in aln format from data ${RepeatExplorer_archive.hid}" /> | 23 <data name="aln" format="txt" label="Contigs from RepeatExplorer clustering in aln format from data ${RepeatExplorer_archive.hid}" /> |
| 24 </outputs> | 24 </outputs> |
| 25 </tooll> | 25 </tool> |