Mercurial > repos > iuc > gemini_fusions

diff gemini_fusions.xml @ 4:b35fd707c586 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gemini commit 283362494058ed64143b1f27afb447b8a1cb4313
author iuc
date Fri, 14 Dec 2018 12:46:37 -0500
parents 37f9901b674d
children 6e3d2bd01a96
line wrap: on
line diff
--- a/gemini_fusions.xml	Wed Oct 17 13:33:28 2018 -0400
+++ b/gemini_fusions.xml	Fri Dec 14 12:46:37 2018 -0500
@@ -1,4 +1,4 @@
-<tool id="gemini_@BINARY@" name="GEMINI @BINARY@" version="@VERSION@.0">
+<tool id="gemini_@BINARY@" name="GEMINI @BINARY@" version="@VERSION@.1">
     <description>Identify somatic fusion genes from a GEMINI database</description>
     <macros>
         <import>gemini_macros.xml</import>
@@ -9,11 +9,9 @@
     <expand macro="version_command" />
     <command>
 <![CDATA[
+        @PROVIDE_ANNO_DATA@
 
         gemini
-        #if $annotation_databases:
-            --annotation-dir "${ annotation_databases.fields.path }"
-        #end if
         @BINARY@
         $in_cosmic_census
         
@@ -53,7 +51,7 @@
         <test>
             <!-- Like in set_somatic this example is nonsensical because otherwise
                 the testdata would be too big. The resulting output should be empty.-->
-            <param name="infile" value="gemini_amend_input.db" ftype="gemini.sqlite" />
+            <param name="infile" value="gemini_load_result1.db" ftype="gemini.sqlite" />
             <output name="outfile" file="gemini_fusions_result.tabular" />
         </test>
     </tests>