# HG changeset patch
# User bgruening
# Date 1459884365 14400
# Node ID 99f356eeba15adc3a329413724dd84241fcbb720
# Parent  53c20f28562edc2896112e3604a4ea0e9dd9d848
planemo upload commit 7ff6d582464c6b7183e1acd421272167f8a2433f

diff -r 53c20f28562e -r 99f356eeba15 .shed.yml
--- a/.shed.yml	Fri Apr 10 06:47:42 2015 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,3 +0,0 @@
-# repository published to https://toolshed.g2.bx.psu.edu/repos/bgruening/find_subsequences
-owner: bgruening
-name: find_subsequences
diff -r 53c20f28562e -r 99f356eeba15 find_subsequences.py
--- a/find_subsequences.py	Fri Apr 10 06:47:42 2015 -0400
+++ b/find_subsequences.py	Tue Apr 05 15:26:05 2016 -0400
@@ -34,7 +34,7 @@
     Simple regular expression search. This is way faster than the complex search.
     """
     bed_template = '%s\t%s\t%s\t%s\t%s\t%s\n'
-    for match in re.finditer( str(pattern), str(sequence.seq) ):
+    for match in re.finditer( str(pattern), str(sequence.seq), re.IGNORECASE ):
         outfile.write(bed_template % (sequence.id,  match.start(), match.end(), sequence.description, '', strand))
 
 
diff -r 53c20f28562e -r 99f356eeba15 find_subsequences.xml
--- a/find_subsequences.xml	Fri Apr 10 06:47:42 2015 -0400
+++ b/find_subsequences.xml	Tue Apr 05 15:26:05 2016 -0400
@@ -1,6 +1,7 @@
-<tool id="bg_find_subsequences" name="Nucleotide subsequence search" version="0.1">
+<tool id="bg_find_subsequences" name="Nucleotide subsequence search" version="0.2">
     <description>providing regions in BED format</description>
     <requirements>
+        <!-- Contains also the Conda dependency, see https://anaconda.org/anaconda/biopython -->
         <requirement type="package" version="1.65">biopython</requirement>
     </requirements>
     <command interpreter="python">
diff -r 53c20f28562e -r 99f356eeba15 tool_dependencies.xml
--- a/tool_dependencies.xml	Fri Apr 10 06:47:42 2015 -0400
+++ b/tool_dependencies.xml	Tue Apr 05 15:26:05 2016 -0400
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="biopython" version="1.65">
-        <repository changeset_revision="f8d72690eeae" name="package_biopython_1_65" owner="biopython" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="b3a791f6e3ba" name="package_biopython_1_65" owner="biopython" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>