Hi,
I get an "internal error" when calling seek() twice on a gzfile
connection.
Create a gzip file:
bigraw <- sample(charToRaw("abcdef"), 30000000, replace=TRUE)
save(bigraw, file="bigraw.rda")
Open it:
con <- gzfile("bigraw.rda", "rb")
Then:
> seek(con, where=1)
[1] 0
> seek(con, where=24980000)
[1] 1
Warning message:
In seek.connection(con, where = 24980000) :
seek on a gzfile connection returned an internal error
> seek(con)
[1] 286
I don't get this error if I omit the 1st call to seek(), or if
I use a smaller 'where' value in the 2nd call to seek().
According to the man page, gzfile connections support seek()
but with a number of limitations. It doesn't seem that what I'm
trying to do falls into any of the limitations mentioned in
the man page though.
As a side note, this is maybe the kind of internal error that seems
serious enough to deserve being turned into a real error, not just
a warning.
Thanks,
H.
> sessionInfo()
R version 3.0.0 (2013-04-03)
Platform: x86_64-unknown-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=C LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] tools_3.0.0
--
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: hpa...@fhcrc.org
Phone: (206) 667-5791
Fax: (206) 667-1319
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