# HG changeset patch
# User galaxyp
# Date 1586273802 14400
# Node ID 9a4cfc9106742d9905e91fcf40869e2b5c08b683
# Parent  0f62097d7c1a6c523b6a58483cea2c8d1cdc16b6
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/gffcompare_to_bed commit 2a470e2c775a7427aa530e058510e4dc7b6d8e80"

diff -r 0f62097d7c1a -r 9a4cfc910674 gffcompare_to_bed.py
--- a/gffcompare_to_bed.py	Fri Apr 26 14:42:31 2019 -0400
+++ b/gffcompare_to_bed.py	Tue Apr 07 11:36:42 2020 -0400
@@ -31,13 +31,13 @@
         self.thickEnd = int(thickEnd) if thickEnd else self.chromEnd
         self.itemRgb = str(itemRgb) if itemRgb is not None else r'100,100,100'
         self.blockCount = int(blockCount)
-        if isinstance(blockSizes, str) or isinstance(blockSizes, unicode):
+        if isinstance(blockSizes, str):
             self.blockSizes = [int(x) for x in blockSizes.split(',')]
         elif isinstance(blockSizes, list):
             self.blockSizes = [int(x) for x in blockSizes]
         else:
             self.blockSizes = blockSizes
-        if isinstance(blockStarts, str) or isinstance(blockSizes, unicode):
+        if isinstance(blockStarts, str):
             self.blockStarts = [int(x) for x in blockStarts.split(',')]
         elif isinstance(blockStarts, list):
             self.blockStarts = [int(x) for x in blockStarts]
@@ -93,10 +93,9 @@
                      for j in attributes.rstrip(';').split(';')]}
         if feature == 'transcript':
             if args.debug:
-                print >> sys.stderr, "%s\t%s"\
-                    % ('\t'.join([seqname, source, feature,
-                                  start, end, score, strand, frame]),
-                        attribute)
+                sys.stderr.write("%s\t%s\n" % ('\t'.join([seqname, source,
+                                 feature, start, end, score, strand, frame]),
+                                 attribute))
             if bed is not None:
                 write_bed_entry(bed)
                 bed = None
diff -r 0f62097d7c1a -r 9a4cfc910674 gffcompare_to_bed.xml
--- a/gffcompare_to_bed.xml	Fri Apr 26 14:42:31 2019 -0400
+++ b/gffcompare_to_bed.xml	Tue Apr 07 11:36:42 2020 -0400
@@ -1,5 +1,8 @@
-<tool id="gffcompare_to_bed" name="Convert gffCompare annotated GTF to BED" version="0.2.0">
+<tool id="gffcompare_to_bed" name="Convert gffCompare annotated GTF to BED" version="0.2.1">
     <description>for StringTie results</description>
+    <requirements>
+        <requirement type="package" version="3.7">python</requirement>
+    </requirements>
     <command detect_errors="exit_code"><![CDATA[
         python '$__tool_directory__/gffcompare_to_bed.py'  
         #if $class_codes: