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Specify biopython version

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Kevin Wu
2022-08-28 06:35:18 +00:00
parent d90ca90ae8
commit f3083bad39
1 changed files with 3 additions and 3 deletions
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6
scripts/amlt.yaml
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@@ -1,4 +1,4 @@
description: Initial full run of CATH dataset
description: CATH canonical angles only with linear warmup
target:
service: sing # Target service platform
@@ -25,7 +25,7 @@ environment: # https://singularitydocs.azurewebsites.net/docs/container_images/
- pip install transformers==4.11.3 # https://huggingface.co/docs/transformers/installation
- pip install pytorch-lightning==1.6.4 # https://www.pytorchlightning.ai/
- pip install sequence-models # https://github.com/microsoft/protein-sequence-models
- pip install biopython
- pip install biopython==1.79
code:
local_dir: $CONFIG_DIR/.. # elative to config file directory
@@ -37,4 +37,4 @@ jobs:
sla_tier: premium
command:
- tar -xzf data/cath/cath-dataset-nonredundant-S40.pdb.tgz -C data/cath
- python bin/train.py config_jsons/full_run_canonical.json -o $$AMLT_OUTPUT_DIR/results
- python bin/train.py config_jsons/full_run_canonical_angles_only.json -o $$AMLT_OUTPUT_DIR/results