From 02650a5ded37c12d5be2a18e52d6569a9f6ddf67 Mon Sep 17 00:00:00 2001 From: Augustin Zidek Date: Fri, 20 Mar 2026 02:19:01 -0700 Subject: [PATCH] Use `--run_*=false` instead of `--norun_*` in docs. PiperOrigin-RevId: 886655698 Change-Id: If37e31d659c5b31856ce9bb6cb215b49bb7a96f8 --- docs/performance.md | 18 +++++++++--------- 1 file changed, 9 insertions(+), 9 deletions(-) diff --git a/docs/performance.md b/docs/performance.md index 55caf7d..d8ac9f4 100644 --- a/docs/performance.md +++ b/docs/performance.md @@ -18,11 +18,11 @@ utilisation. This can be useful for: ### Data Pipeline Only -Launch `run_alphafold.py` with `--norun_inference` to generate Multiple Sequence -Alignments (MSAs) and templates, without running featurisation and model -inference. This stage can be quite costly in terms of runtime, CPU, and RAM use. -The output will be JSON files augmented with MSAs and templates that can then be -directly used as input for running inference. +Launch `run_alphafold.py` with `--run_inference=false` to generate Multiple +Sequence Alignments (MSAs) and templates, without running featurisation and +model inference. This stage can be quite costly in terms of runtime, CPU, and +RAM use. The output will be JSON files augmented with MSAs and templates that +can then be directly used as input for running inference. ### Pre-computing and reusing MSA and templates @@ -62,10 +62,10 @@ similar issues). ### Featurisation and Model Inference Only -Launch `run_alphafold.py` with `--norun_data_pipeline` to skip the data pipeline -and run only featurisation and model inference. This stage requires the input -JSON file to contain pre-computed MSAs and templates (or they must be explicitly -set to empty if you want to run MSA and template free). +Launch `run_alphafold.py` with `--run_data_pipeline=false` to skip the data +pipeline and run only featurisation and model inference. This stage requires the +input JSON file to contain pre-computed MSAs and templates (or they must be +explicitly set to empty if you want to run MSA and template free). ## Data Pipeline