Mercurial > repos > kkonganti > cfsan_centriflaken

changeset 67:04c9f550eb08

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"planemo upload"
author kkonganti
date Wed, 13 Jul 2022 13:55:47 -0400
parents ccc58509834c
children 44d4e4078aaa
files cfsan_centriflaken.xml
diffstat 1 files changed, 5 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/cfsan_centriflaken.xml	Wed Jul 13 13:47:12 2022 -0400
+++ b/cfsan_centriflaken.xml	Wed Jul 13 13:55:47 2022 -0400
@@ -15,10 +15,10 @@
 	    #end for
     #elif (str($input_read_type_cond.input_read_type) == "paired"):
         #for $key in $input_read_type_cond.input_pair.keys()
-            #set $read_R1 = os.path.basename($input_read_type_cond.input_pair[$key]['forward'])
-            #set $read_R2 = os.path.basename($input_read_type_cond.input_pair[$key]['reverse'])
-	        ln -sf '$input_read_type_cond.input_pair[$key]['forward']' './cpipes-input/$read_R1';
-            ln -sf '$input_read_type_cond.input_pair[$key]['reverse']' './cpipes-input/$read_R2';
+            #set $read_R1 = os.path.basename(str($input_read_type_cond.input_pair[$key]['forward']))
+            #set $read_R2 = os.path.basename(str($input_read_type_cond.input_pair[$key]['reverse']))
+	        ln -sf "$input_read_type_cond.input_pair[$key]['forward']" './cpipes-input/$read_R1';
+            ln -sf "$input_read_type_cond.input_pair[$key]['reverse']" './cpipes-input/$read_R2';
 	    #end for
     #end if
 	$__tool_directory__/0.2.1/cpipes
@@ -96,7 +96,7 @@
                     label="List of Dataset pairs" />
                 <conditional name="pipeline_cond">
                     <param name="pipeline" type="select" label="CPIPES Workflow name"
-                        help="centriflaken_hy selected for paired-end short reads.">
+                        help="Auto selected centriflaken_hy for paired-end short reads.">
                         <option value="centriflaken_hy" selected="true">centriflaken_hy</option>
                     </param>
                     <when value="centriflaken_hy">