From 5eefe9afa8fd0d2d688ca6d1d8625a18b269b589 Mon Sep 17 00:00:00 2001
From: Stefan Bienert <stefan.bienert@unibas.ch>
Date: Thu, 17 Aug 2023 09:36:24 +0200
Subject: [PATCH] Remove old pre-defined paths
---
run_af2/src/run_af2/run_singularity.py | 13 -------------
1 file changed, 13 deletions(-)
diff --git a/run_af2/src/run_af2/run_singularity.py b/run_af2/src/run_af2/run_singularity.py
index 7d1f963..1c90ef6 100644
--- a/run_af2/src/run_af2/run_singularity.py
+++ b/run_af2/src/run_af2/run_singularity.py
@@ -243,19 +243,6 @@ def run_af2_singularity_image( # pylint: disable=too-many-arguments
+ "mmcif_files/",
obsolete_pdbs_path="/scicore/data/managed/PDB/latest/data/status/"
+ "obsolete.dat",
- # data_dir="/scicore/home/schwede/GROUP/alphafold_data/",
- #mgnify_database_path="/scicore/data/managed/MGnify/frozen_210805T103002/"
- #+ "mgy_clusters_2018_12.fa",
- # uniref30_database_path="/scicore/home/schwede/GROUP/alphafold_data/"
- # + "uniref30/UniRef30_2021_03",
- # pdb_seqres_database_path="/scicore/home/schwede/GROUP/alphafold_data/"
- # + "pdb_seqres/pdb_seqres.txt",
- # uniprot_database_path="/scicore/home/schwede/GROUP/alphafold_data/uniprot/"
- # + "uniprot.fasta",
- # template_mmcif_dir="/scicore/home/schwede/GROUP/alphafold_data/pdb_mmcif/"
- # + "mmcif_files/",
- # obsolete_pdbs_path="/scicore/home/schwede/GROUP/alphafold_data/pdb_mmcif/"
- # + "obsolete.dat",
):
"""Run the AlphaFold 2 Singularity image on host.
--
GitLab