# HG changeset patch
# User greg
# Date 1511357819 18000
# Node ID 1c49e78e4ee74b3fd2e6e7ff1326499f87530ed6
# Parent  dcc642e255ec435b9e3de30527a7ac6a0a5187a2
Deleted selected files

diff -r dcc642e255ec -r 1c49e78e4ee7 create_window_positions_by_chrom.py
--- a/create_window_positions_by_chrom.py	Tue Nov 21 14:46:55 2017 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,36 +0,0 @@
-#!/usr/bin/env python
-import argparse
-import collections
-
-parser = argparse.ArgumentParser()
-parser.add_argument('--input', dest='input', help='Input bed dataset')
-parser.add_argument('--output', dest='output', help='Output window positions by chromosome dataset')
-
-args = parser.parse_args()
-
-chroms = collections.OrderedDict()
-
-with open(args.input, 'r') as fh:
-    for count, line in enumerate(fh):
-        line = line.strip()
-        if not line or line.startswith('#'):
-            # Skip blank lines and comments.
-            continue
-        items = line.split('\t')
-        chrom = items[0]
-        if count == 0:
-            # First window.
-            chroms[chrom] = [0, count+1]
-        elif chrom in chroms:
-            # Get the start / end tuple.
-            tup = chroms[chrom]
-            # Increment end by 1.
-            tup[1] += 1
-            chroms[chrom] = tup
-        else:
-            # chrom not in chroms.
-            chroms[chrom] = [count, count+1]
-
-with open(args.output, 'w') as fh:
-    for k, v in chroms.items():
-        fh.write('%s %d %d\n' % (k, v[0], v[1]))