From bbbfde85efe507d0348f24326337ce5672726b70 Mon Sep 17 00:00:00 2001 From: Dave B Date: Tue, 18 May 2021 15:42:22 -0400 Subject: [PATCH] Open input file in read mode --- tools/extract/liftOver_wrapper.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/tools/extract/liftOver_wrapper.py b/tools/extract/liftOver_wrapper.py index 6a59ddc6822..3ceb1c7a0d2 100644 --- a/tools/extract/liftOver_wrapper.py +++ b/tools/extract/liftOver_wrapper.py @@ -25,7 +25,7 @@ def safe_bed_file(infile): https://lists.soe.ucsc.edu/pipermail/genome/2007-May/013561.html """ fix_pat = re.compile("^(track|browser)") - with tempfile.NamedTemporaryFile(mode='w', delete=False) as out_handle, open(infile, 'w') as in_handle: + with tempfile.NamedTemporaryFile(mode='w', delete=False) as out_handle, open(infile, 'r') as in_handle: for line in in_handle: if fix_pat.match(line): line = "#" + line