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curate: Add test for metadata output with internal quotes
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tests/functional/curate/cram/metadata-output-with-internal-quotes.t
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Setup | ||
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$ source "$TESTDIR"/_setup.sh | ||
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Testing metadata outputs with internal quotes for the curate command. | ||
Running the `passthru` subcommand since it does not do any data transformations. | ||
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Create NDJSON with internal quotes | ||
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$ cat >records.ndjson <<~~ | ||
> {"strain": "sequence_A", "submitting_lab": "SRC VB \"Vector\", Molecular Biology of Genomes"} | ||
> ~~ | ||
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Test passthru with output to TSV. | ||
This should not add any quotes around the field with internal quotes. | ||
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$ cat records.ndjson \ | ||
> | ${AUGUR} curate passthru \ | ||
> --output-metadata output-metadata.tsv | ||
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$ cat output-metadata.tsv | ||
strain\tsubmitting_lab (esc) | ||
sequence_A\tSRC VB "Vector", Molecular Biology of Genomes (esc) | ||
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Run the output TSV through augur curate passthru again. | ||
The new output should still be identical to the first output. | ||
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$ ${AUGUR} curate passthru \ | ||
> --metadata output-metadata.tsv \ | ||
> --output-metadata output-metadata-2.tsv | ||
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$ diff -u output-metadata.tsv output-metadata-2.tsv |