From 63f21fd9b739874c93d9feae1eeb041b43225997 Mon Sep 17 00:00:00 2001 From: Cameron Hyde Date: Tue, 29 Oct 2024 10:22:13 +1000 Subject: [PATCH] Update patch_mmcif README --- tools/alphafold/scripts/db/patch_mmcif/README.md | 8 +++++--- 1 file changed, 5 insertions(+), 3 deletions(-) diff --git a/tools/alphafold/scripts/db/patch_mmcif/README.md b/tools/alphafold/scripts/db/patch_mmcif/README.md index 42762c1c..ebccb4af 100644 --- a/tools/alphafold/scripts/db/patch_mmcif/README.md +++ b/tools/alphafold/scripts/db/patch_mmcif/README.md @@ -11,10 +11,10 @@ FileNotFoundError: [Errno 2] No such file or directory: '/alphafold_dbs/pdb_mmci ## Usage -- Copy this script to your server +- Copy the script to your server - Ensure that `python >= 3.8` is available - `pip install requests` -- Run patch_mmcif.py from any directory +- Run `patch_mmcif.py` from any directory You must specify the path to your databases when you run the script. @@ -22,7 +22,9 @@ You must specify the path to your databases when you run the script. $ python patch_mmcif.py --help usage: patch_mmcif.py [-h] [-i ID] [--write-db] [--log] db_path -Patch missing MMCIF files in your AlphaFold DB. This script will sniff your databases for missing .cif files and download them from the RCSB PDB. If the --write-db flag is set, the files will be copied directly to the AlphaFold database mmcif_files directory. +Patch missing MMCIF files in your AlphaFold DB. This script will sniff your databases for +missing .cif files and download them from the RCSB PDB. If the --write-db flag is set, +the files will be copied directly to the AlphaFold database mmcif_files directory. Example usage: