From 544a328bab1ddf1d262da8ea0177ad13924f4461 Mon Sep 17 00:00:00 2001
From: remy <remy.dernat@umontpellier.fr>
Date: Mon, 11 Nov 2019 22:24:25 +0100
Subject: [PATCH] tempfile was nt created at the right place
---
orthofinder/scripts/blast_file_processor.py | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/orthofinder/scripts/blast_file_processor.py b/orthofinder/scripts/blast_file_processor.py
index 90ab849..6e77c47 100644
--- a/orthofinder/scripts/blast_file_processor.py
+++ b/orthofinder/scripts/blast_file_processor.py
@@ -119,7 +119,6 @@ def WriteNormalizedBlastFile(blastDir_list, B, iSpecies, jSpecies, sep = "_", qD
iH = 1
iSpeciesOpen = iSpecies
jSpeciesOpen = jSpecies
- tempfile = NamedTemporaryFile(mode='w', delete=False)
#xSeqID, ySeqID, NormVal = ParseMatrix(B)
row = ""
for d in blastDir_list:
@@ -129,6 +128,7 @@ def WriteNormalizedBlastFile(blastDir_list, B, iSpecies, jSpecies, sep = "_", qD
try:
with (gzip.open(fn + ".gz", file_read_mode) if os.path.exists(fn + ".gz") else open(fn, file_read_mode)) as blastfile:
blastreader = csv.reader(blastfile, delimiter='\t')
+ tempfile = NamedTemporaryFile(mode='w', delete=False)
blastwriter = csv.writer(tempfile, delimiter='\t')
for row in blastreader:
# Get hit and query IDs
--
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