Mercurial > repos > iuc > crossmap_wig
diff crossmap_wig.xml @ 4:454886ffaa41 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crossmap commit 23fab16cd40acbd5b0e9d640ed3858040db7a622
author | iuc |
---|---|
date | Thu, 24 May 2018 19:09:00 -0400 |
parents | 792bd038a59c |
children | b81b5d67bd3b |
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--- a/crossmap_wig.xml Fri Oct 20 11:31:52 2017 -0400 +++ b/crossmap_wig.xml Thu May 24 19:09:00 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="crossmap_wig" name="CrossMap Wig" version="@WRAPPER_VERSION@-0"> +<tool id="crossmap_wig" name="CrossMap Wig" version="@WRAPPER_VERSION@"> <description>Convert genome coordinates or annotation files between genome assemblies</description> <macros> <import>macros.xml</import> @@ -10,10 +10,7 @@ CrossMap.py wig '${chain_source.input_chain}' '${input}' -'${output}' - -&& mv '${output}.bw' '${output}' -&& mv '${output}.sorted.bgr' '${output2}' +output ]]></command> <inputs> @@ -23,8 +20,8 @@ </inputs> <outputs> - <data name="output" format="wig" label="${tool.name} on ${on_string}" /> - <data name="output2" format="bedgraph" label="${tool.name} (bedgraph) on ${on_string}" /> + <data name="output" format="bigwig" label="${tool.name} on ${on_string}" from_work_dir="output.bw" /> + <data name="output2" format="bedgraph" label="${tool.name} (bedgraph) on ${on_string}" from_work_dir="output.sorted.bgr" /> </outputs> <tests> @@ -59,7 +56,6 @@ wigToBigWig tool. We export files in bedGraph because it is usually much smaller than file in wiggle format, and more importantly, CrossMap internally transforms wiggle into bedGraph to increase running speed. - ]]></help> <citations>