From 082ea9a66dbc5be7a3da6bd6543157a9d4db9c24 Mon Sep 17 00:00:00 2001
From: asetGem <amandine.perrin@pasteur.fr>
Date: Fri, 5 Mar 2021 13:33:29 +0100
Subject: [PATCH] change str format
---
PanACoTA/align_module/get_seqs.py | 3 +--
1 file changed, 1 insertion(+), 2 deletions(-)
diff --git a/PanACoTA/align_module/get_seqs.py b/PanACoTA/align_module/get_seqs.py
index f9c79de4..d6d347da 100755
--- a/PanACoTA/align_module/get_seqs.py
+++ b/PanACoTA/align_module/get_seqs.py
@@ -90,7 +90,7 @@ def get_all_seqs(all_genomes, dname, dbpath, listdir, aldir, all_fams, quiet):
for genome in all_genomes:
ge_gen = os.path.join(listdir, dname + "-getEntry_gen_" + genome + ".txt")
ge_prt = os.path.join(listdir, dname + "-getEntry_prt_" + genome + ".txt")
- logger.details("Extracting proteins and genes from {}".format(genome))
+ logger.details(f"Extracting proteins and genes from {genome}")
prtdb = os.path.join(dbpath, "Proteins", genome + ".prt")
gendb = os.path.join(dbpath, "Genes", genome + ".gen")
get_genome_seqs(prtdb, ge_prt, files_todo)
@@ -254,7 +254,6 @@ def extract_sequences(to_extract, fasf, files_todo=None, outf=None):
files_todo = frozenset(files_todo)
if type(to_extract) == list:
to_extract = frozenset(to_extract)
-
# State machine variables
previous_fp = None
--
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