From c67201e4221c47124a9c7e8b91c2562fb2c06cd0 Mon Sep 17 00:00:00 2001
From: Amandine PERRIN <amandine.perrin@pasteur.fr>
Date: Thu, 14 Sep 2023 13:40:28 +0200
Subject: [PATCH] change pangenome filename
---
test/test_functional/test_pangenome.py | 3 +--
1 file changed, 1 insertion(+), 2 deletions(-)
diff --git a/test/test_functional/test_pangenome.py b/test/test_functional/test_pangenome.py
index e588b01..79c4b71 100755
--- a/test/test_functional/test_pangenome.py
+++ b/test/test_functional/test_pangenome.py
@@ -378,10 +378,9 @@ def test_pangenome_all():
used_dbpath = os.path.join(GENEPATH, "database")
# copy db_path folder to output folder, as it will modify it
shutil.copytree(DBPATH, used_dbpath)
- outfile = "pangenome.txt"
cmd = f"PanACoTA pangenome -l {lstinfo} -n {name} -d {used_dbpath} -o {GENEPATH} -vv"
assert pan.main(cmd, lstinfo, name, used_dbpath, min_id, GENEPATH, clust_mode, spe_dir,
- threads) == os.path.join(GENEPATH, outfile)
+ threads) == os.path.join(GENEPATH, "PanGenome-testAllPAN4.All.prt-clust-0.8-mode1.lst")
# ret = subprocess.call(cmd.split())
# assert ret == 0
--
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