# HG changeset patch
# User alenail
# Date 1459795934 14400
# Node ID 0eaa8225a09a718dea10a8c530e16e303213167d
# Parent 7a910b2c72ff92f5604d859dc7382a66390a7d35
Uploaded
diff -r 7a910b2c72ff -r 0eaa8225a09a chipsequtil/._map_to_known_genes.py
Binary file chipsequtil/._map_to_known_genes.py has changed
diff -r 7a910b2c72ff -r 0eaa8225a09a chipsequtil/._map_to_known_genes.xml
Binary file chipsequtil/._map_to_known_genes.xml has changed
diff -r 7a910b2c72ff -r 0eaa8225a09a chipsequtil/map_to_known_genes.py
--- a/chipsequtil/map_to_known_genes.py Wed Mar 30 15:22:19 2016 -0400
+++ b/chipsequtil/map_to_known_genes.py Mon Apr 04 14:52:14 2016 -0400
@@ -60,16 +60,6 @@
gene_ref = parse_gene_ref(args[0])
xref_fn = args[1]
peaks_fn = args[2]
- if opts.peaks_fmt == 'auto' :
- path,ext = os.path.splitext(peaks_fn)
- if ext.lower() == '.xls' :
- opts.peaks_fmt = 'MACS'
- elif ext.lower() == '.bed' :
- opts.peaks_fmt = 'BED'
- elif ext.lower() == '.narrowpeak' :
- opts.peaks_fmt = 'BED'
- else :
- parser.error('Could not guess peaks file format by extension (%s), aborting'%ext)
if opts.peaks_fmt == 'MACS' :
peaks_reader_cls = MACSFile
diff -r 7a910b2c72ff -r 0eaa8225a09a chipsequtil/map_to_known_genes.xml
--- a/chipsequtil/map_to_known_genes.xml Wed Mar 30 15:22:19 2016 -0400
+++ b/chipsequtil/map_to_known_genes.xml Mon Apr 04 14:52:14 2016 -0400
@@ -31,12 +31,11 @@
-
-
+