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changeset 1:40296713cd82 draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/vcflib/vcfsort commit 0b9b6512272b82637c2f1e831367e89aed77ae79
author devteam
date Thu, 15 Sep 2016 16:53:50 -0400
parents 433d50620231
children a8c5440d69e3
files macros.xml vcfsort.xml
diffstat 2 files changed, 29 insertions(+), 28 deletions(-) [+]
line wrap: on
line diff
--- a/macros.xml	Thu Mar 19 14:46:40 2015 -0400
+++ b/macros.xml	Thu Sep 15 16:53:50 2016 -0400
@@ -1,7 +1,7 @@
 <macros>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="8a5602bf07">vcflib</requirement>
+            <requirement type="package" version="1.0.0_rc1">vcflib</requirement>
             <yield/>
         </requirements>
     </xml>
@@ -10,6 +10,7 @@
             <exit_code range="1:" level="fatal" />
         </stdio>
     </xml>
+   <token name="@WRAPPER_VERSION@">1.0.0_rc1</token>
    	<xml name="citations">
    	     <citations>
              <citation type="bibtex">
--- a/vcfsort.xml	Thu Mar 19 14:46:40 2015 -0400
+++ b/vcfsort.xml	Thu Sep 15 16:53:50 2016 -0400
@@ -1,27 +1,27 @@
-<tool id="vcfsort" name="VCFsort:" version="0.0.2">
-  <description>Sort VCF dataset by coordinate</description>
-  <command>(grep ^"#" "${input1}"; grep -v ^"#" "${input1}" | LC_ALL=C sort -k1,1 -k2,2n -V) > "${out_file1}"</command>
-  <inputs>
-    <param format="vcf" name="input1" type="data" label="Select VCF dataset"/>
-  </inputs>
-  <outputs>
-    <data format="vcf" name="out_file1" />
-  </outputs>
-  <tests>
-    <test>
-      <param name="input1" value="vcfsort-test1-input.vcf"/>
-      <output name="out_file1" file="vcfsort-test1.vcf"/>
-    </test>
-    </tests>
-  <help>
-
-This tool uses native UNIX sort command to order VCF dataset in coordinate order. For technically inclined the command is::
-
- (grep ^"#" INPUT_file ; grep -v ^"#" INPUT_file | LC_ALL=C sort -k1,1 -k2,2n -V) > OUTPUT_file
-
-.. class:: infomark
-
-The same result can be achieved with the Galaxy's general purpose sort tool (in this case sort on the first and the second column in ascending order).
-
-</help>
-</tool>
+<tool id="vcfsort" name="VCFsort:" version="@WRAPPER_VERSION@.0">
+  <description>Sort VCF dataset by coordinate</description>
+  <command>(grep ^"#" "${input1}"; grep -v ^"#" "${input1}" | LC_ALL=C sort -k1,1 -k2,2n -V) > "${out_file1}"</command>
+  <inputs>
+    <param format="vcf" name="input1" type="data" label="Select VCF dataset"/>
+  </inputs>
+  <outputs>
+    <data format="vcf" name="out_file1" />
+  </outputs>
+  <tests>
+    <test>
+      <param name="input1" value="vcfsort-test1-input.vcf"/>
+      <output name="out_file1" file="vcfsort-test1.vcf"/>
+    </test>
+    </tests>
+  <help>
+
+This tool uses native UNIX sort command to order VCF dataset in coordinate order. For technically inclined the command is::
+
+ (grep ^"#" INPUT_file ; grep -v ^"#" INPUT_file | LC_ALL=C sort -k1,1 -k2,2n -V) > OUTPUT_file
+
+.. class:: infomark
+
+The same result can be achieved with the Galaxy's general purpose sort tool (in this case sort on the first and the second column in ascending order).
+
+</help>
+</tool>