[Bioc-devel] No such file or directory: BSgenome.Hsapiens.UCSC.hg38/extdata/single_sequences.2bit

[Paul Shannon]

Many thanks, Herve!

 - Paul

> On Jun 24, 2019, at 7:17 PM, Pages, Herve <hpages using fredhutch.org> wrote:
> 
> Hi Paul,
> 
> After a long hunt, the software package causing these daily
> reinstallations of BSgenome.Hsapiens.UCSC.hg38 has been
> identified and his maintainer contacted.
> 
> Sorry for the inconvenience this has caused so far.
> 
> H.
> 
> On 6/24/19 12:31, Paul Shannon wrote:
>> Warning in .seqlengths_TwoBitFile(x) : mustOpen:
>>    Can't open /home/biocbuild/bbs-3.9-bioc/R/library/BSgenome.Hsapiens.UCSC.hg38/extdata/single_sequences.2bit
>>    to read: No such file or directory
>>    Timing stopped at: 0.176 0 0.175 Error in .seqlengths_TwoBitFile(x) : UCSC library operation failed
>> 
>> I get these errors almost every day - today on malbec2 (ubuntu) and tokay2 (windows).
>> 
>> Any advice?
>> 
>>  - Paul
>> 
> 
> -- 
> Hervé Pagès
> 
> Program in Computational Biology
> Division of Public Health Sciences
> Fred Hutchinson Cancer Research Center
> 1100 Fairview Ave. N, M1-B514
> P.O. Box 19024
> Seattle, WA 98109-1024
> 
> E-mail: hpages using fredhutch.org
> Phone:  (206) 667-5791
> Fax:    (206) 667-1319