Mercurial > repos > bgruening > bigwig_to_bedgraph
changeset 0:3799012ce2ff draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/bigwig_to_bedgraph commit b3c2bbc3342107c35a1dee05ccc1e4eddffd8a50-dirty
| author | bgruening |
|---|---|
| date | Tue, 22 Sep 2015 04:12:40 -0400 |
| parents | |
| children | |
| files | bigwig_to_bedgraph.xml test-data/bigWigToBedGraph.bw test-data/bigWigToBedGraph_result1.bedgraph test-data/bigWigToBedGraph_result2.bedgraph test-data/bigWigToBedGraph_test2.bw tool_dependencies.xml |
| diffstat | 6 files changed, 58 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/bigwig_to_bedgraph.xml Tue Sep 22 04:12:40 2015 -0400 @@ -0,0 +1,37 @@ +<tool id="bigwig_to_bedgraph" name="bigWigToBedGraph" version="0.1.0"> + <description> + Convert from bigWig to bedGraph format + </description> + <requirements> + <requirement type="package" version="312">ucsc_tools</requirement> + </requirements> + <stdio> + <exit_code range="1:" /> + </stdio> + <command><![CDATA[ + bigWigToBedGraph "${input}" "${output}" + ]]></command> + <inputs> + <param format="bigwig" name="input" type="data" label="bigwig file to convert" help=""/> + </inputs> + <outputs> + <data format="bedgraph" name="output" /> + </outputs> + <tests> + <test> + <param name="input" value="bigWigToBedGraph.bw" ftype="bigwig"/> + <output name="output" file="bigWigToBedGraph_result1.bedgraph" ftype="bedgraph" /> + </test> + <test><!-- The following crashes on old binaries of bigWigToBedGraph --> + <param name="input" value="bigWigToBedGraph_test2.bw" ftype="bigwig"/> + <output name="output" file="bigWigToBedGraph_result2.bedgraph" ftype="bedgraph" /> + </test> + </tests> + <help><![CDATA[ + +**What it does** + +Converts bigWig files to bedGraph format. + + ]]></help> +</tool>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/bigWigToBedGraph_result1.bedgraph Tue Sep 22 04:12:40 2015 -0400 @@ -0,0 +1,11 @@ +chrM 0 210 47 +chrM 210 220 46 +chrM 220 230 41 +chrM 230 240 32 +chrM 240 250 24 +chrM 250 260 13 +chrM 260 16310 10 +chrM 16310 16320 9 +chrM 16320 16330 5 +chrM 16330 16340 4 +chrM 16340 16350 2
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/bigWigToBedGraph_result2.bedgraph Tue Sep 22 04:12:40 2015 -0400 @@ -0,0 +1,4 @@ +chr1 210 220 46 +chr2 210 220 46 +chr3 0 210 47 +gacvbdefgrthjinhgacvbdefgrthjinhgacvefgrthjinhga 210 220 46
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Tue Sep 22 04:12:40 2015 -0400 @@ -0,0 +1,6 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="ucsc_tools" version="312"> + <repository changeset_revision="2d6bafd63401" name="package_ucsc_tools_312" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> + </package> +</tool_dependency>