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Tabix crashing in single sample pipeline with long sample ID

Open mwalker174 opened this issue 11 months ago • 0 comments

Tabix will crash if the resulting index filename is longer than 255 characters. This was observed in the ResetFilter task of the single sample pipeline:

tbx_index_build failed: sample_id.filter_by_ref_panel.reset_HIGH_SR_BACKGROUND_filter.reset_BOTHSIDES_SUPPORT_filter.reset_PESR_GT_OVERDISPERSION_filter.sample_qc.vcf.gz

where sample_id was too long. We should document this limitation (which would also apply to batch/cohort names, which are also used in filenames) and modify the single sample pipeline to avoid verbose filenames.

mwalker174 avatar Jul 20 '23 18:07 mwalker174