# HG changeset patch
# User iuc
# Date 1527203434 14400
# Node ID 8c26026e7ad9d6f28197a825af57ab2060d97909
# Parent  d0e7cc22351fcead0eba06be8eba99570ae76d29
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crossmap commit 23fab16cd40acbd5b0e9d640ed3858040db7a622

diff -r d0e7cc22351f -r 8c26026e7ad9 crossmap_wig.xml
--- 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>
diff -r d0e7cc22351f -r 8c26026e7ad9 macros.xml
--- 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"/>