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Fix typo
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jennydaman authored Oct 27, 2023
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4 changes: 2 additions & 2 deletions README.md
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Expand Up @@ -13,13 +13,13 @@ writing outputs to an output directory.
Run `pl-abs` with a directory containing containing .txt and .csv file inputs, and a separate directory for outputs:

```shell
apptainer exec docker://fnndsc/pl-abs:latest abs --input-file .txt,.csv incoming/ outgoing/
apptainer exec docker://fnndsc/pl-abs:latest abs --input-files .txt,.csv incoming/ outgoing/
```

To write outputs in-place to the same directory, use `--output-suffix` to avoid clobbering files.

```shell
apptainer exec docker://fnndsc/pl-abs:latest abs --input-file .txt --output-suffix abs.txt data/ data/
apptainer exec docker://fnndsc/pl-abs:latest abs --input-files .txt --output-suffix abs.txt data/ data/
```

On _ChRIS_, it cn be useful to copy unmodified files to the output directory as well:
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