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changeset 3:e34b0740d53d draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/idpassemble commit 2a4b1c0e842f356239c141ea7cad867d91607c6a
author galaxyp
date Tue, 13 Dec 2016 11:05:41 -0500
parents 98f4f743b38f
children 30dca7b46daa
files idpassemble.xml macros.xml
diffstat 2 files changed, 18 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/idpassemble.xml	Mon Dec 12 16:56:56 2016 -0500
+++ b/idpassemble.xml	Tue Dec 13 11:05:41 2016 -0500
@@ -1,9 +1,10 @@
 <?xml version="1.0"?>
-<tool id="idpassemble" name="idpAssemble" version="0.1.0">
+<tool id="idpassemble" name="idpAssemble" version="@VERSION@.0">
     <description>Merge IDPicker databases from single files into a merged database, and filters the result at PSM/spectrum/peptide/protein/gene levels.</description>
-    <requirements>
-        <requirement type="package" version="3.0.10185">bumbershoot</requirement>
-    </requirements>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
     <stdio>
         <exit_code range="1:" level="fatal" description="Job Failed" />
         <regex match="^Error:.*$" source="both" level="fatal" />
@@ -63,7 +64,7 @@
         <test>
             <param name="input" value="201208-378803-mm.idpDB" />
             <param name="MaxFDRScore" value="0.05" />
-            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />>
+            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />
             <param name="filter_at_gene_level_condition.MinSpectra" value="2" />
             <param name="filter_at_gene_level_condition.MinAdditionalPeptides" value="1" />
             <param name="MinSpectraPerDistinctMatch" value="1" />
@@ -74,7 +75,7 @@
         <test>
             <param name="input" value="201208-378803-msgf.idpDB" />
             <param name="MaxFDRScore" value="0.05" />
-            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />>
+            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />
             <param name="filter_at_gene_level_condition.MinSpectra" value="2" />
             <param name="filter_at_gene_level_condition.MinAdditionalPeptides" value="1" />
             <param name="MinSpectraPerDistinctMatch" value="1" />
@@ -85,7 +86,7 @@
         <test>
             <param name="input" value="201208-378803-cm.idpDB" />
             <param name="MaxFDRScore" value="0.05" />
-            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />>
+            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />
             <param name="filter_at_gene_level_condition.MinSpectra" value="2" />
             <param name="filter_at_gene_level_condition.MinAdditionalPeptides" value="1" />
             <param name="MinSpectraPerDistinctMatch" value="1" />
@@ -96,7 +97,7 @@
         <test>
             <param name="input" value="201208-378803-mm.idpDB,201208-378803-msgf.idpDB,201208-378803-cm.idpDB" />
             <param name="MaxFDRScore" value="0.05" />
-            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />>
+            <param name="filter_at_gene_level_condition.MinDistinctPeptides" value="2" />
             <param name="filter_at_gene_level_condition.MinSpectra" value="2" />
             <param name="filter_at_gene_level_condition.MinAdditionalPeptides" value="1" />
             <param name="MinSpectraPerDistinctMatch" value="1" />
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml	Tue Dec 13 11:05:41 2016 -0500
@@ -0,0 +1,9 @@
+<macros>
+    <token name="@VERSION@">3.0.10185</token>
+    <xml name="requirements">
+        <requirements>
+            <requirement type="package" version="3_0_10185">bumbershoot</requirement>
+            <yield/>
+        </requirements>
+    </xml>
+</macros>