Mercurial > repos > iuc > hisat2
changeset 5:67e9ee942e54 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hisat2 commit 64b86fe2d6708fadebe6b05fc5ae520046f870f4
author | iuc |
---|---|
date | Wed, 13 Apr 2016 16:38:16 -0400 |
parents | fd42a1fdc101 |
children | 6df301084f6e |
files | hisat2.xml test-data/hisat_output_1.bam test-data/hisat_output_2.bam test-data/hisat_output_3.bam tool_dependencies.xml |
diffstat | 5 files changed, 7 insertions(+), 8 deletions(-) [+] |
line wrap: on
line diff
--- a/hisat2.xml Tue Mar 15 13:02:47 2016 -0400 +++ b/hisat2.xml Wed Apr 13 16:38:16 2016 -0400 @@ -1,13 +1,12 @@ <?xml version="1.0"?> -<tool id="hisat2" name="HISAT2" version="1.0.1"> +<tool id="hisat2" name="HISAT" version="2.0.3"> <description>A fast and sensitive alignment program</description> <macros> <import>hisat2_macros.xml</import> </macros> <requirements> - <requirement type="package" version="2.0">hisat</requirement> <!-- Conda dependency --> - <requirement type="package" version="2.0.0beta">hisat2</requirement> + <requirement type="package" version="2.0.3">hisat2</requirement> <requirement type="package" version="1.2">samtools</requirement> </requirements> <stdio> @@ -252,7 +251,7 @@ <param ftype="fasta" name="history_item" value="phiX.fa" /> <param ftype="fastqsanger" name="reads_f" value="hisat_input_1_forward.fastq" /> <param ftype="fastqsanger" name="reads_r" value="hisat_input_1_reverse.fastq" /> - <output file="hisat_output_1.bam" ftype="bam" name="output_alignments" /> + <output file="hisat_output_1.bam" ftype="bam" name="output_alignments" lines_diff="2" /> </test> <test> <param name="input_format_selector" value="fastq" /> @@ -264,7 +263,7 @@ <param name="trim_five" value="15" /> <param ftype="fastqsanger" name="reads_f" value="hisat_input_2_forward.fastq" /> <param ftype="fastqsanger" name="reads_r" value="hisat_input_2_reverse.fastq" /> - <output file="hisat_output_2.bam" ftype="bam" name="output_alignments" /> + <output file="hisat_output_2.bam" ftype="bam" name="output_alignments" lines_diff="2" /> </test> <test> <param name="input_format_selector" value="fastq" /> @@ -279,7 +278,7 @@ <param name="paired_end_options_selector" value="advanced" /> <param name="no_mixed" value="True" /> <param name="no_discordant" value="True" /> - <output name="output_alignments" ftype="bam" file="hisat_output_3.bam" /> + <output name="output_alignments" ftype="bam" file="hisat_output_3.bam" lines_diff="2" /> </test> </tests> <help>
--- a/tool_dependencies.xml Tue Mar 15 13:02:47 2016 -0400 +++ b/tool_dependencies.xml Wed Apr 13 16:38:16 2016 -0400 @@ -1,7 +1,7 @@ <?xml version="1.0"?> <tool_dependency> - <package name="hisat" version="2.0"> - <repository changeset_revision="0f7f6f91aaee" name="package_hisat_2_0" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <package name="hisat" version="2.0.3"> + <repository changeset_revision="92cab2ab7948" name="package_hisat_2_0_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="samtools" version="1.2"> <repository changeset_revision="5b7172f9b230" name="package_samtools_1_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />