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Strict mode to fail on truncated bgzip input

Open bioinformed opened this issue 8 years ago • 1 comments

Currently, bcftools issues a warning on truncated bgzip input. However, we've found that this "feature" allows upstream failures to pass silently in our pipeline. It would be valuable to have a 'strict' mode that causes bcftools to fail loudly on truncated bgzip input (likewise for samtools).

bioinformed avatar Jan 30 '17 21:01 bioinformed

This "feature" still exists. It seemly very unlikely that a data processor would want to continue in the case of a truncated input so it would be great if it this was changed to result in a hard fail.

colin-nolan avatar Nov 18 '20 12:11 colin-nolan