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comparison trips_bam_to_sqlite/trips_bam_to_sqlite.xml @ 5:8b059b0a19dc draft

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author jackcurragh
date Fri, 27 May 2022 10:14:00 +0000
parents 4ee95ba271a5
children 1be4bbe849e3
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4:4ee95ba271a5 5:8b059b0a19dc
1 <tool id="bam_to_sqlite" name="BAM to Sqlite (TRIPS-Viz)" version="1.0a"> 1 <tool id="bam_to_sqlite" name="BAM to Sqlite" version="1.1">
2 <description>Convert BAM file to SQLITE for TRIPS-Viz</description> 2 <description>Convert BAM file to SQLITE for Trips-Viz</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.19.0">pysam</requirement> 4 <requirement type="package" version="0.19.0">pysam</requirement>
5 <requirement type="package" version="1.7.0">sqlitedict</requirement> 5 <requirement type="package" version="1.7.0">sqlitedict</requirement>
6 <requirement type="package" version="3.37.1">sqlite</requirement> 6 <requirement type="package" version="3.37.1">sqlite</requirement>
7 <requirement type="package" version="1.15">samtools</requirement> 7 <requirement type="package" version="1.13">samtools</requirement>
8
8 </requirements> 9 </requirements>
9 <command><![CDATA[ 10 <command><![CDATA[
10 python $__tool_directory__/bam_to_sqlite.py $input1 $input2 $input3 $output1 11 python $__tool_directory__/bam_to_sqlite.py $input1 $input2 $input3 $output1
11 ]]></command> 12 ]]></command>
12 <inputs> 13 <inputs>