| Previous changeset 2:71ace43428ca (2015-11-23) Next changeset 4:af383638de66 (2015-11-23) |
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Commit message:
planemo upload commit 801bf168032a13f6405518bddb35a24c9e9a8cd4-dirty |
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modified:
align_families.xml duplex.xml make_families.xml |
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| diff -r 71ace43428ca -r 13bcc2f459b0 align_families.xml --- a/align_families.xml Mon Nov 23 17:57:34 2015 -0500 +++ b/align_families.xml Mon Nov 23 18:07:11 2015 -0500 |
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| @@ -1,6 +1,10 @@ <?xml version="1.0"?> <tool id="align_families" name="Align families" version="0.1"> <description>from duplex sequencing data</description> + <requirements> + <requirement type="package" version="7.221">mafft</requirement> + <requirement type="package" version="0.1">duplex</requirement> + </requirements> <command interpreter="python" detect_errors="exit_code">align_families.py $input > $output </command> <inputs> @@ -9,10 +13,6 @@ <outputs> <data name="output" format="tabular"/> </outputs> - <requirements> - <requirement type="package" version="7.221">mafft</requirement> - <requirement type="package" version="0.1">duplex</requirement> - </requirements> <tests> <test> <param name="input" value="smoke.families.tsv"/> |
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| diff -r 71ace43428ca -r 13bcc2f459b0 duplex.xml --- a/duplex.xml Mon Nov 23 17:57:34 2015 -0500 +++ b/duplex.xml Mon Nov 23 18:07:11 2015 -0500 |
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| @@ -1,6 +1,9 @@ <?xml version="1.0"?> <tool id="duplex" name="Make consensus reads" version="0.1"> <description>from duplex sequencing data</description> + <requirements> + <requirement type="package" version="0.1">duplex</requirement> + </requirements> <command interpreter="python" detect_errors="exit_code"><![CDATA[ duplex.py -r $min_reads -q $qual_thres -F $qual_format $input #if $keep_sscs: |
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| diff -r 71ace43428ca -r 13bcc2f459b0 make_families.xml --- a/make_families.xml Mon Nov 23 17:57:34 2015 -0500 +++ b/make_families.xml Mon Nov 23 18:07:11 2015 -0500 |
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| @@ -1,6 +1,10 @@ <?xml version="1.0"?> <tool id="make_families" name="Make families" version="0.1"> <description>from duplex sequencing data</description> + <requirements> + <requirement type="package" version="0.1">duplex</requirement> + <!-- <requirement type="set_environment">DUPLEX_DIR</requirement> --> + </requirements> <command>paste $fastq1 $fastq2 | paste - - - - | awk -f \$DUPLEX_DIR/make-barcodes.awk -v TAG_LEN=$taglen -v INVARIANT=$invariant |