Repository 'bigwig_to_bedgraph'
hg clone https://toolshed.g2.bx.psu.edu/repos/bgruening/bigwig_to_bedgraph

Changeset 0:3799012ce2ff (2015-09-22)
Commit message:
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/bigwig_to_bedgraph commit b3c2bbc3342107c35a1dee05ccc1e4eddffd8a50-dirty
added:
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
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diff -r 000000000000 -r 3799012ce2ff bigwig_to_bedgraph.xml
--- /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>
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diff -r 000000000000 -r 3799012ce2ff test-data/bigWigToBedGraph.bw
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diff -r 000000000000 -r 3799012ce2ff test-data/bigWigToBedGraph_result1.bedgraph
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/bigWigToBedGraph_result1.bedgraph Tue Sep 22 04:12:40 2015 -0400
b
@@ -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
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diff -r 000000000000 -r 3799012ce2ff test-data/bigWigToBedGraph_result2.bedgraph
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/bigWigToBedGraph_result2.bedgraph Tue Sep 22 04:12:40 2015 -0400
b
@@ -0,0 +1,4 @@
+chr1 210 220 46
+chr2 210 220 46
+chr3 0 210 47
+gacvbdefgrthjinhgacvbdefgrthjinhgacvefgrthjinhga 210 220 46
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diff -r 000000000000 -r 3799012ce2ff test-data/bigWigToBedGraph_test2.bw
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diff -r 000000000000 -r 3799012ce2ff tool_dependencies.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml Tue Sep 22 04:12:40 2015 -0400
b
@@ -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>