# HG changeset patch
# User jowong
# Date 1541784477 18000
# Node ID 98f9da980bf5ad2f1c044b96c5a3fa73ec198e04
# Parent  74a9f37e2bc91e8f318701ca052d24470e0be75e
planemo upload for repository https://github.com/jowong4/add_sample_name_as_first_line_of_file commit f3fe76f6cbf17b0ec4162065206483652a6519b7-dirty

diff -r 74a9f37e2bc9 -r 98f9da980bf5 add_sample_name_as_first_line.py
--- a/add_sample_name_as_first_line.py	Fri Oct 26 17:52:33 2018 -0400
+++ b/add_sample_name_as_first_line.py	Fri Nov 09 12:27:57 2018 -0500
@@ -17,7 +17,7 @@
 #print >> output, args.label
 #print >> output, input
 
-sample_name = re.sub('(_1.fastq(.gz)*|_2.fastq(.gz)*|.fastq(.gz)*)', '', args.label.rstrip().lstrip())
+sample_name = re.sub('(_1.fastq(.gz)*|_2.fastq(.gz)*|.fastq(.gz)*)', '', args.sample.rstrip().lstrip())
 
 with open(args.input) as input:
 	with open(args.output, 'w') as output:
diff -r 74a9f37e2bc9 -r 98f9da980bf5 add_sample_name_as_first_line.xml
--- a/add_sample_name_as_first_line.xml	Fri Oct 26 17:52:33 2018 -0400
+++ b/add_sample_name_as_first_line.xml	Fri Nov 09 12:27:57 2018 -0500
@@ -1,4 +1,4 @@
-<tool id="my_addName" name="Add sample name as first line" version="0.1.1">
+<tool id="my_addName" name="Add sample name as first line" version="0.1.2">
   <description>to an existing tabular file</description>
   <command interpreter="python">add_sample_name_as_first_line.py 
     --input "$input" 
@@ -23,7 +23,7 @@
   <help>
 **What it does**
 
-Adds a new line with the name of the sample file and removing [_12].fastq.gz from the name if there is match to the pattern.
+Adds a new line with the name of the sample file and removing [(_1|_2)]*.fastq(.gz)* from the name if there is match to the pattern.
 Written by Johnathan Kwan Long Wong, johnathanwong4@gmail.com
   </help>
   <citations>