From d5b107ae4fa0197af4b7dd58e027a594c2f845f6 Mon Sep 17 00:00:00 2001
From: Martin Larralde <martin.larralde@embl.de>
Date: Thu, 4 Aug 2022 00:06:55 +0200
Subject: [PATCH] Fix path to data folder in `benches/mapping/bench.py`
---
benches/mapping/bench.py | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/benches/mapping/bench.py b/benches/mapping/bench.py
index a9995ad..1c239c0 100644
--- a/benches/mapping/bench.py
+++ b/benches/mapping/bench.py
@@ -8,7 +8,7 @@ import sys
import warnings
from itertools import islice
-sys.path.insert(0, os.path.realpath(os.path.join(__file__, "..", "..")))
+sys.path.insert(0, os.path.realpath(os.path.join(__file__, "..", "..", "..")))
import Bio.SeqIO
import numpy
@@ -25,7 +25,7 @@ args = parser.parse_args()
genomes = [
list(Bio.SeqIO.parse(filename, "fasta"))
- for filename in (glob.glob("data/*.fna") + glob.glob("vendor/FastANI/data/*.fna"))
+ for filename in glob.glob(os.path.join(args.data, "*.fna"))
]
with rich.progress.Progress(transient=True) as progress:
--
GitLab