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@@ -56,21 +56,22 @@ It requires the following authorization tokens to be set in the local environmen
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`SYNAPSE_AUTH_TOKEN`: Required for beataml and mpnst datasets. Follow the directions above to use gain access.
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Available arguments:
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- `--dataset`: Required. Name of the dataset to build.
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- `--dataset`: Required. Name of the dataset to build. At a minimum, this will build the docker images.
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- `--use_prev_dataset`: Optional. Prefix of the previous dataset for sample and drug ID continuation. The previous dataset files must be in the "local" directory.
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- `--validate`: Optional. Runs the schema checker on the built files.
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- `--build`: Optional. Build the desired Dataset.
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- `--validate`: Optional. Run the schema checker on the built files.
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- `--continue`: Optional. Continues from where the build left off by skipping existing files in "local" directory.
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Example usage:
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Build the broad_sanger dataset:
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```bash
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python build/build_dataset.py --dataset broad_sanger
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python build/build_dataset.py --build --dataset broad_sanger
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```
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Build the mpnst dataset continuing from broad_sanger sample and drug IDs:
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```bash
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python build/build_dataset.py --dataset mpnst --use_prev_dataset broad_sanger
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python build/build_dataset.py --build --dataset mpnst --use_prev_dataset broad_sanger
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```
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Build the hcmi dataset and run validation:
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Build run schema validation on hcmi dataset:
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```bash
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python build/build_dataset.py --dataset hcmi --validate
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```

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