# HG changeset patch
# User jackcurragh
# Date 1652793717 0
# Node ID 8c5c2953c097592308b1829cbed5d451ffee800a
# Parent  84664985411ce605ca070043c3039eff53d23315
Uploaded

diff -r 84664985411c -r 8c5c2953c097 get_chrom_sizes/get_chrom_sizes.xml
--- a/get_chrom_sizes/get_chrom_sizes.xml	Tue May 17 13:16:52 2022 +0000
+++ b/get_chrom_sizes/get_chrom_sizes.xml	Tue May 17 13:21:57 2022 +0000
@@ -1,7 +1,12 @@
 <tool id="get_chrom_sizes" name="Get Chromosome Sizes" version="2.2">
     <description>Chromosome sizes are needed for the creation of ribosome profiles. This tool generates a tab delimited chrom.sizes file from an inputted fasta</description>
     <command>
-        python $__tool_directory__/calculating_chrom.sizes.py ${refGenomeSource.genomeSource} ${refGenomeSource.genomeSource.input1_file} ${refGenomeSource.genomeSource.input1_builtin} ${input2} ${output1}
+        python $__tool_directory__/calculating_chrom.sizes.py ${refGenomeSource.genomeSource} 
+            #if $refGenomeSource.genomeSource == "history":
+                ${refGenomeSource.genomeSource.input1_file}
+            #else:
+                ${refGenomeSource.genomeSource.input1_builtin} 
+            ${input2} ${output1}
     </command>
     <inputs>
         <conditional name="refGenomeSource">