Mercurial > repos > iuc > crossmap_wig
changeset 3:8c26026e7ad9 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crossmap commit 23fab16cd40acbd5b0e9d640ed3858040db7a622
| author | iuc |
|---|---|
| date | Thu, 24 May 2018 19:10:34 -0400 |
| parents | d0e7cc22351f |
| children | 3cb69f2ecea2 |
| files | crossmap_wig.xml macros.xml |
| diffstat | 2 files changed, 6 insertions(+), 10 deletions(-) [+] |
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--- a/crossmap_wig.xml Fri Oct 20 11:33:40 2017 -0400 +++ b/crossmap_wig.xml Thu May 24 19:10:34 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>
--- a/macros.xml Fri Oct 20 11:33:40 2017 -0400 +++ b/macros.xml Thu May 24 19:10:34 2018 -0400 @@ -2,11 +2,11 @@ <macros> <xml name="requirements"> <requirements> - <requirement type="package" version="0.2.5">crossmap</requirement> + <requirement type="package" version="0.2.7">crossmap</requirement> <yield/> </requirements> </xml> - <token name="@WRAPPER_VERSION@">0.2.5</token> + <token name="@WRAPPER_VERSION@">0.2.7</token> <xml name="stdio"> <stdio> <regex match="Aborted (core dumped)" source="stdout" level="fatal"/>