broadinstitute / viral-assemble / 20761831555 / 1

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master: 68%

Pull #65

github

Write header-only output when skani produces no matches

When skani dist finds no matches and produces an empty file (0 bytes),
the downstream code fails because readFlatFileHeader returns [''] for
an empty file, causing issues with csv.DictWriter. This fixes the
SIGPIPE (exit code 141) that occurs in Terra/Cromwell workflows.

The fix ensures that when the input file is empty, we write a proper
header-only TSV file instead of an empty file. This allows downstream
code to properly parse the header and handle the no-matches case.

Also refactors the skani dist header into a module-level constant
(SKANI_DIST_HEADER) to avoid duplication.

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

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