Unverified Commit 4a6c9bf1 authored by Gustaf Ahdritz's avatar Gustaf Ahdritz Committed by GitHub
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Update README

parent 0463665b
......@@ -153,14 +153,13 @@ If you've already computed alignments for the query, you have the option to
skip the expensive alignment computation here with
`--use_precomputed_alignments`.
Exactly one of `--openfold_checkpoint_path` or `--jax_param_path` must be specified
to run the inference script. These accept .pt/DeepSpeed OpenFold checkpoints
and AlphaFold's .npz JAX parameter files, respectively. For a breakdown of the
differences between the different parameter files, see the README downloaded to
`openfold/resources/openfold_params/`. Since OpenFold was trained under a
newer training schedule than the one from which the `model_n` config
presets are derived, there is no clean correspondence between `config_preset`
settings and OpenFold checkpoints; the only restraint is that `*_ptm`
`--openfold_checkpoint_path` or `--jax_param_path` accept comma-delineated lists
of .pt/DeepSpeed OpenFold checkpoints and AlphaFold's .npz JAX parameter files,
respectively. For a breakdown of the differences between the different parameter
files, see the README downloaded to `openfold/resources/openfold_params/`. Since
OpenFold was trained under a newer training schedule than the one from which the
`model_n` config presets are derived, there is no clean correspondence between
`config_preset` settings and OpenFold checkpoints; the only restraint is that `*_ptm`
checkpoints must be run with `*_ptm` config presets.
Note that chunking (as defined in section 1.11.8 of the AlphaFold 2 supplement)
......
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