Mercurial > repos > iuc > crossmap_bw

changeset 3:f208825f64ec draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crossmap commit 23fab16cd40acbd5b0e9d640ed3858040db7a622
author iuc
date Thu, 24 May 2018 19:10:13 -0400
parents 566f43df9ef4
children 9aabf0c3604a
files crossmap_bigwig.xml macros.xml
diffstat 2 files changed, 5 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/crossmap_bigwig.xml	Fri Oct 20 11:33:27 2017 -0400
+++ b/crossmap_bigwig.xml	Thu May 24 19:10:13 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="crossmap_bw" name="CrossMap BigWig" version="@WRAPPER_VERSION@-0">
+<tool id="crossmap_bw" name="CrossMap BigWig" version="@WRAPPER_VERSION@">
     <description>Convert genome coordinates or annotation files between genome assemblies</description>
     <macros>
         <import>macros.xml</import>
@@ -11,9 +11,7 @@
 CrossMap.py bigwig
 '${chain_source.input_chain}'
 '${input}'
-'${output}'
-
-&& mv '${output}.bw' '${output}'
+output
     ]]></command>
 
     <inputs>
@@ -23,7 +21,7 @@
     </inputs>
 
     <outputs>
-        <data name="output" format="bigwig" label="${tool.name} on ${on_string}" />
+        <data name="output" format="bigwig" label="${tool.name} on ${on_string}" from_work_dir="output.bw" />
     </outputs>
 
     <tests>
@@ -54,7 +52,6 @@
 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 11:33:27 2017 -0400
+++ b/macros.xml	Thu May 24 19:10:13 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"/>