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Step 2) "Invalid option: ---input_base_uri" #107

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timpal0l opened this issue Mar 5, 2024 · 1 comment
Open

Step 2) "Invalid option: ---input_base_uri" #107

timpal0l opened this issue Mar 5, 2024 · 1 comment

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@timpal0l
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timpal0l commented Mar 5, 2024

bash scripts/apptainer_run_quality_signals.sh \
  --config configs/rp_v2.0.conf \
  --dump_id "2022-49" \
  --input_base_uri "file:///path/to/data/root" \
  --output_base_uri "file:///path/to/outout/data/root" \
  --max_docs -1

Invalid option: ---input_base_uri
Usage: apptainer_run_quality_signals.sh [ -c | --config ] [ -d | --dump_id ]

@mauriceweber
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good catch, thanks for reporting! The three flags --input_base_uri, --output_base_uri and --max_docs are actually set in the config file:

INPUT_BASE_URI="file://${DATA_ROOT}/"
OUTPUT_BASE_URI="file://${DATA_ROOT}/rpv2"
MAX_DOCS=-1

You can just drop them in the call to the apptainer script.

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