Mercurial > repos > peterjc > seq_filter_by_mapping

changeset 14:1ccb3fea40ba draft

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planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/tools/seq_filter_by_mapping commit 79bbb921cb5aa953f0323accd6c8c293c6e486cf-dirty
author peterjc
date Tue, 06 Jun 2017 10:25:13 -0400
parents 37de286fc844
children bb58a278b1d8
files tools/seq_filter_by_mapping/seq_filter_by_mapping.py
diffstat 1 files changed, 1 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/tools/seq_filter_by_mapping/seq_filter_by_mapping.py	Wed May 17 14:03:07 2017 -0400
+++ b/tools/seq_filter_by_mapping/seq_filter_by_mapping.py	Tue Jun 06 10:25:13 2017 -0400
@@ -156,6 +156,7 @@
         # Presumably a BAM file then...
         # Call samtools view, don't need header so no -h added:
         child = subprocess.Popen(["samtools", "view", filename],
+                                 universal_newlines=True,
                                  stdin=None,
                                  stdout=subprocess.PIPE,
                                  stderr=subprocess.PIPE)