[Bioc-devel] forgeBSgenomeDataPkg and gzipped files

Hervé Pagès hpages at fhcrc.org
Wed Dec 11 19:48:55 CET 2013

Hi Florian,

On 12/11/2013 07:26 AM, Hahne, Florian wrote:
> Hi Herve,
> is there really a hard requirement on the input files to forgeBSgenomeDataPkg to be unzipped? Even though one would usually only build a particular BSGenome package once, this seems to be such an arcane requirement nowadays with gzip connections and the like.

Agreed. This needs to be modernized. forgeBSgenomeDataPkg() uses
readDNAStringSet() internally to load the FASTA files.
readDNAStringSet() doesn't support gzip'ed connections at the
moment but it's on my list to add it.


> Florian
> 	[[alternative HTML version deleted]]
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Hervé Pagès

Program in Computational Biology
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