# HG changeset patch
# User mvdbeek
# Date 1430229541 14400
# Node ID d79153e6895734a4f597c44f27065450f1ced640
# Parent  3e37447e0b266dbf5bac02decb09a085d1234a39
Uploaded

diff -r 3e37447e0b26 -r d79153e68957 all_fasta.loc.sample
--- a/all_fasta.loc.sample	Tue Apr 28 09:44:23 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,18 +0,0 @@
-#This file lists the locations and dbkeys of all the fasta files
-#under the "genome" directory (a directory that contains a directory
-#for each build). The script extract_fasta.py will generate the file
-#all_fasta.loc. This file has the format (white space characters are
-#TAB characters):
-#
-#<unique_build_id>	<dbkey>		<display_name>	<file_path>
-#
-#So, all_fasta.loc could look something like this:
-#
-#apiMel3	apiMel3	Honeybee (Apis mellifera): apiMel3		/path/to/genome/apiMel3/apiMel3.fa
-#hg19canon	hg19		Human (Homo sapiens): hg19 Canonical		/path/to/genome/hg19/hg19canon.fa
-#hg19full	hg19		Human (Homo sapiens): hg19 Full			/path/to/genome/hg19/hg19full.fa
-#
-#Your all_fasta.loc file should contain an entry for each individual
-#fasta file. So there will be multiple fasta files for each build,
-#such as with hg19 above.
-#
diff -r 3e37447e0b26 -r d79153e68957 get_reference_fasta.xml
--- a/get_reference_fasta.xml	Tue Apr 28 09:44:23 2015 -0400
+++ b/get_reference_fasta.xml	Tue Apr 28 09:59:01 2015 -0400
@@ -1,4 +1,4 @@
-<tool id="get_fasta_reference" name="get fasta reference"  version="0.1.0">
+<tool id="get_fasta_reference" name="get fasta reference"  version="0.1.1">
 <description>Obtain reference genome sequence</description>
     <stdio>
         <exit_code range="1:" />
@@ -12,11 +12,11 @@
           </param>
     </inputs>
     <outputs>
-        <data name="output" format="fasta" />
+        <data name="output" label="${pre_installed_fasta.value_label}" format="fasta" />
     </outputs>
     <tests>
         <test>
-            <param name="input" value="EcR_USP_224.fa"/>
+            <param name="pre_installed_fasta" value="EcR_USP_224.fa"/>
             <output name="output" file="EcR_USP_224.fa"/>
         </test>
     </tests>