Mercurial > repos > petr-novak > re_utils
comparison pairScan.xml @ 22:58807b35777a draft
planemo upload commit 20bdf879b52796d3fb251a20807191ff02084d3c-dirty
| author | petr-novak |
|---|---|
| date | Wed, 02 Aug 2023 11:31:12 +0000 |
| parents | f4ed6a65a2ff |
| children | cab41d23e2a3 |
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| 21:f4ed6a65a2ff | 22:58807b35777a |
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| 1 | 1 |
| 2 <tool id="pairScan" name="Scan paired-end reads for overlap" version="1.0.0.1"> | 2 <tool id="pairScan" name="Scan paired-end reads for overlap" version="1.0.0.3"> |
| 3 <description> Scan paired-end reads for overlap </description> | 3 <description> Scan paired-end reads for overlap </description> |
| 4 <requirements> | 4 <requirements> |
| 5 <requirement type="package">python-levenshtein</requirement> | 5 <requirement type="package">python-levenshtein</requirement> |
| 6 </requirements> | 6 </requirements> |
| 7 <required_files> | 7 <required_files> |
| 8 <include type="literal" path="pairScan.py"/> | 8 <include type="literal" path="pairScan.py"/> |
| 9 </required_files> | 9 </required_files> |
| 10 | 10 |
| 11 <command interpreter="python"> | 11 <command> |
| 12 pairScan.py -f $fasta_input -o $min_overlap -m $max_mismatch -p $pass -b $bad -s $offset | 12 python '$__tool_directory__'/pairScan.py -f $fasta_input -o $min_overlap -m $max_mismatch -p $pass -b $bad -s $offset |
| 13 </command> | 13 </command> |
| 14 | 14 |
| 15 <inputs> | 15 <inputs> |
| 16 <param format="fasta" type="data" name="fasta_input" label="Reads in FASTA format" /> | 16 <param format="fasta" type="data" name="fasta_input" label="Reads in FASTA format" /> |
| 17 <param name="min_overlap" type="integer" size="3" value="30" min="20" max="100" label="Minimum overlap length [nt] " /> | 17 <param name="min_overlap" type="integer" size="3" value="30" min="20" max="100" label="Minimum overlap length [nt] " /> |