Arnaud,
There have been some changes in how Biostrings, rtracklayer, (and maybe
ShortRead?) are working with connections. If you grab the latest update
for these three packages, this problem should be solved.
Patrick
On 2/17/10 7:45 AM, Droit Arnaud wrote:
Dear all,
I have read about Rsamtools being in dev repositories and I would like to try
it.
My working environment is Snow Leopard 64 bit and R version 2.11 (see the
SessionInfo at the end). When I try to install it, I have the following error
message :
Attaching package: 'IRanges'
The following object(s) are masked from package:base :
Map,
cbind,
mapply,
order,
pmax,
pmax.int,
pmin,
pmin.int,
rbind,
rep.int,
table
Error in importIntoEnv(impenv, impnames, ns, impvars) :
objects ''.__C__file', '.__C__connection'' are not exported by
'namespace:Biostrings'
ERROR: lazy loading failed for package 'Rsamtools'
* removing '/Library/Frameworks/R.framework/Resources/library/Rsamtools'
Does anyone have some idea about this problem ?
Thanks
Arnaud.
sessionInfo()
R version 2.11.0 Under development (unstable) (2009-10-20 r50178)
i386-apple-darwin10.0.0
locale:
[1] en_CA.UTF-8/en_CA.UTF-8/C/C/en_CA.UTF-8/en_CA.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] ShortRead_1.3.41 lattice_0.17-26 BSgenome_1.15.4 Biostrings_2.15.21
[5] IRanges_1.5.46
loaded via a namespace (and not attached):
[1] Biobase_2.5.8 grid_2.11.0 hwriter_1.1
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