Mercurial > repos > devteam > fastq_to_fasta
changeset 1:3f358f73d45e draft
planemo upload commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734
| author | devteam |
|---|---|
| date | Tue, 13 Oct 2015 12:40:10 -0400 |
| parents | 9d253ab73d8b |
| children | 44ed3f74ea7a |
| files | fastq_to_fasta.xml tool_dependencies.xml |
| diffstat | 2 files changed, 7 insertions(+), 7 deletions(-) [+] |
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--- a/fastq_to_fasta.xml Tue Aug 20 10:38:07 2013 -0400 +++ b/fastq_to_fasta.xml Tue Oct 13 12:40:10 2015 -0400 @@ -1,9 +1,9 @@ -<tool id="cshl_fastq_to_fasta" name="FASTQ to FASTA"> +<tool id="cshl_fastq_to_fasta" name="FASTQ to FASTA" version="1.0.0"> <description>converter</description> <requirements> <requirement type="package" version="0.0.13">fastx_toolkit</requirement> </requirements> - <command>gunzip -cf $input | fastq_to_fasta $SKIPN $RENAMESEQ -o $output -v + <command>gunzip -cf $input | fastq_to_fasta $SKIPN $RENAMESEQ -o $output -v #if $input.ext == "fastqsanger": -Q 33 #end if @@ -61,22 +61,22 @@ GGTCAATGATGAGTTGGCACTGTAGGCACCATCAAT +CSHL_4_FC042GAMMII_2_1_517_596 40 40 40 40 40 40 40 40 40 40 38 40 40 40 40 40 14 40 40 40 40 40 36 40 13 14 24 24 9 24 9 40 10 10 15 40 - + Will be converted to FASTA (with 'rename sequence names' = NO):: >CSHL_4_FC042GAMMII_2_1_517_596 GGTCAATGATGAGTTGGCACTGTAGGCACCATCAAT - + Will be converted to FASTA (with 'rename sequence names' = YES):: >1 GGTCAATGATGAGTTGGCACTGTAGGCACCATCAAT - + ------ This tool is based on `FASTX-toolkit`__ by Assaf Gordon. - .. __: http://hannonlab.cshl.edu/fastx_toolkit/ + .. __: http://hannonlab.cshl.edu/fastx_toolkit/ </help> <!-- FASTQ-to-FASTA is part of the FASTX-toolkit, by A.Gordon (gordon@cshl.edu) --> </tool>
--- a/tool_dependencies.xml Tue Aug 20 10:38:07 2013 -0400 +++ b/tool_dependencies.xml Tue Oct 13 12:40:10 2015 -0400 @@ -1,6 +1,6 @@ <?xml version="1.0"?> <tool_dependency> <package name="fastx_toolkit" version="0.0.13"> - <repository changeset_revision="1cd326991d32" name="package_fastx_toolkit_0_0_13" owner="devteam" toolshed="http://testtoolshed.g2.bx.psu.edu" /> + <repository changeset_revision="e76e81b3eccf" name="package_fastx_toolkit_0_0_13" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> </tool_dependency>