# HG changeset patch
# User jackcurragh
# Date 1652862336 0
# Node ID 147706e55621a8bcf0165d276caa17444e34703f
# Parent  4a020e3ddc1bf89e76ed060eb341bfa7e3a5bfef
Uploaded

diff -r 4a020e3ddc1b -r 147706e55621 get_chrom_sizes/get_chrom_sizes.xml
--- a/get_chrom_sizes/get_chrom_sizes.xml	Tue May 17 14:19:13 2022 +0000
+++ b/get_chrom_sizes/get_chrom_sizes.xml	Wed May 18 08:25:36 2022 +0000
@@ -1,12 +1,15 @@
 <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} ${input2} "${output1}"
+        python $__tool_directory__/calculating_chrom.sizes.py ${refGenomeSource.genomeSource} ${input2}
             #if $refGenomeSource.genomeSource == "builtin":
                 ${refGenomeSource.input1_builtin.fields.path} 
             #else:
                 ${refGenomeSource.input1_file}
             #end if
+            #if $output1 == $output1:
+                ${output1}
+            #end if
             
     </command>
     <inputs>