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Support gzipped barcode files#108

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Mirochill wants to merge 1 commit into
caleblareau:masterfrom
Mirochill:fix-106-gzip-barcodes
Draft

Support gzipped barcode files#108
Mirochill wants to merge 1 commit into
caleblareau:masterfrom
Mirochill:fix-106-gzip-barcodes

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Summary

  • Read barcode lists with gzip.open(..., rt) when the file path ends in .gz.
  • Normalize gzipped barcode lists into the existing temporary .txt barcode chunks so downstream scripts can keep using normal text files.
  • Add regression coverage for counting and splitting gzipped barcode files.

Fixes #106.

Validation

  • git diff --check
  • git diff --cached --check
  • Not run locally: test suite

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mgatk tenx fails for gzipped barcode file

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