Commit 621b3645 authored by Gustaf Ahdritz's avatar Gustaf Ahdritz
Browse files

Reformat README

parent bd0c4d48
...@@ -17,7 +17,7 @@ Try it out with our [Colab notebook](https://colab.research.google.com/github/aq ...@@ -17,7 +17,7 @@ Try it out with our [Colab notebook](https://colab.research.google.com/github/aq
Unlike DeepMind's public code, OpenFold is also trainable. It can be trained Unlike DeepMind's public code, OpenFold is also trainable. It can be trained
with or without [DeepSpeed](https://github.com/microsoft/deepspeed) and with with or without [DeepSpeed](https://github.com/microsoft/deepspeed) and with
mixed precision. bfloat16 training is not currently supported, but will be mixed precision. `bfloat16` training is not currently supported, but will be
in the future. in the future.
## Installation (Linux) ## Installation (Linux)
...@@ -96,10 +96,13 @@ python3 scripts/precompute_alignments.py mmcif_dir/ alignment_dir/ \ ...@@ -96,10 +96,13 @@ python3 scripts/precompute_alignments.py mmcif_dir/ alignment_dir/ \
Expect this step to take a very long time, even for small numbers of proteins. Expect this step to take a very long time, even for small numbers of proteins.
Next, generate a cache of certain datapoints in the mmCIF files as follows: Next, generate a cache of certain datapoints in the mmCIF files:
```bash ```bash
python3 scripts/generate_mmcif_cache.py mmcif_dir/ mmcif_cache.json --no_workers 16 python3 scripts/generate_mmcif_cache.py \
mmcif_dir/ \
mmcif_cache.json \
--no_workers 16
``` ```
This cache is used to minimize the number of mmCIF parses performed during This cache is used to minimize the number of mmCIF parses performed during
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