On Thu, Feb 08, 2018 at 09:32:00AM -0700, Brent Pedersen wrote: > I've been working more with crams lately and in some cases, it seems > the default behavior of htslib is to automatically start downloading > reference files locally even though I have not set REF_CACHE or > REF_PATH. This is deep in a complex pipeline behind several layers of > abstraction, but I think this is the default.
If you don't set them it'll automatically default to using the EBI for REF_PATH and ~/.cache/hts-seqs (IIRC) for REF_CACHE. If you really wish to totally disable them, keep REF_CACHE clear and set REF_PATH to somewhere with no files, eg /foo, and it'll fail the search. It should then fail. James -- James Bonfield (j...@sanger.ac.uk) The Sanger Institute, Hinxton, Cambs, CB10 1SA -- The Wellcome Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE. ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot _______________________________________________ Samtools-help mailing list Samtools-help@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/samtools-help
