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samtools / htslib

C library for high-throughput sequencing data formats
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Index file downloads when using GCS file #1615

Open ggydush opened 1 year ago

ggydush commented 1 year ago

I've noticed that when using a GCS file with htslib, the index file is downloaded to the current working directory. Is it possible to make this download to a temporary location? I'm parallelizing reads across multiple processes, and sometimes the index gets cleaned up when it's still needed.

daviesrob commented 1 year ago

I didn't think we deleted index files (where they're kept at all)? Which sort of index files are you getting, and are they disappearing, or is the problem that they're getting overwritten by a later download with the same name?