[BioC] rtracklayer fails to load in the new Bioconductor devel branch

Ivan Gregoretti ivangreg at gmail.com
Wed Nov 2 21:47:42 CET 2011

Hello Bioconductorians,

I just downloaded and installed the new R-devel (without problems) but
rtracklayer fails to load.

It started by asking me to recompile bitops, which I did.
Unfortunately, the problem persists. Please see below.

Can anybody think of a solution?

Thank you,


$ R --vanilla

R Under development (unstable) (2011-11-01 r57541)
Copyright (C) 2011 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: x86_64-unknown-linux-gnu (64-bit)

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> library(rtracklayer)
Loading required package: RCurl
Loading required package: bitops
Error : classes "file", "connection" are not exported by 'namespace:Biostrings'
Error: package/namespace load failed for ‘rtracklayer’
> sessionInfo()
R Under development (unstable) (2011-11-01 r57541)
Platform: x86_64-unknown-linux-gnu (64-bit)

 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [7] LC_PAPER=C                 LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] RCurl_1.6-10   bitops_1.0-4.1

loaded via a namespace (and not attached):
[1] Biostrings_2.23.0   BSgenome_1.23.0     GenomicRanges_1.7.0
[4] IRanges_1.13.0      tools_2.15.0        XML_3.4-3
[7] zlibbioc_1.1.0

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