similar to: AnnotationDBI and RSQLite installation problem

Hi All, I tried to install AnnotationDBI like so: source("http://bioconductor.org/biocLite.R") biocLite("AnnotationDbi") and got this error: .... Loading required package: RSQLite Error in dyn.load(file, ...) : unable to load shared library '/RHEL3/local/lib64/R/library/ RSQLite/libs/RSQLite.so': /RHEL3/local/lib64/R/library/RSQLite/libs/RSQLite.so: undefined

Hello, I see the following issue in R-devel since 'both' has become the default pkgType for binary platforms. update.packages() fails when you set options(repos). Looks like it is trying to download a tgz file from the src/contrib section of a repository (on a mac). To reproduce this you need to have an older version of AnnotationDbi installed, which I accomplished by faking it,

Dear all, We have developed our own Affymetrix chip (Custom Express Array, PM-only with two species). I want to analyse the data with the limma package, but for that I need to built my own CDF package, probe package and built the filters to analyse one specie or another. I'm using the makeProbePackage available in the AnnotationDbi (for a R-2.13.0) but I got the following error message:

Dear R experts, I'm trying to install rgdal in my R 2.11.1 (Ubuntu 10.10). I have as an ouput the following messages. It seems that there are problems with libgdal1.7.0 or sqlite3... Could someboby help me? Thanks a lot! Ale > install.packages() Warning in install.packages() : argument 'lib' is missing: using '/home/ale/R/i686-pc-linux-gnu-library/2. 11' trying URL

Dear All I posted a similar question quite some time ago, but that was on an old OS and an old version of R. This time I have RHEL 4, which is still supported as an OS, and R 2.5.1 which is not *that* old. My sessionInfo() gives: > sessionInfo() R version 2.5.1 (2007-06-27) i686-redhat-linux-gnu locale: LC_CTYPE=en_GB.UTF-8;LC_NUMERIC=C;LC_TIME=en_GB.UTF-8;LC_COLLATE=en_GB.U

Dear Sirs, How can I revert to an older limma version? Typing "install.packages("limma")" in R gives a list of mirrors. How can I install the version I want after I obtain and untar the file (e.g, limma_2.9.1.tar.gz)? I am running R 2.5.0 on a Linux machine (CentOS 5). When using limma it will not go past the read.maimages command. I get this error: Error in

RSQLite.extfuns provides SQLite extension functions for use with RSQLite. The package is a wrapper of extension functions written by Liam Healy and made available through the SQLite website (http://www.sqlite.org/contrib). You can make the extension functions available on a per db connection basis like this: library("RSQLite.extfuns") db <- dbConnect(SQLite(), dbname =

RSQLite.extfuns provides SQLite extension functions for use with RSQLite. The package is a wrapper of extension functions written by Liam Healy and made available through the SQLite website (http://www.sqlite.org/contrib). You can make the extension functions available on a per db connection basis like this: library("RSQLite.extfuns") db <- dbConnect(SQLite(), dbname =

Dear all, I am trying to install RSQLite package since I want to install "sqldf", and I used >> install.packages("RSQLite") first, which gave Error message as below: make: *** [RS-DBI.o] Error 1 chmod: cannot access `/usr/lib/R/library/RSQLite/libs/*': No such file or directory ERROR: compilation failed for package 'RSQLite' ** Removing

Please let me know where i have to type below thing to RSQLite database get installed.Please let me know the solution.Thanks in advance RSQLite -- Embedding the SQLite engine in R (The RSQLite package includes a recent copy of the SQLite distribution from http://www.sqlite.org.) Installation ------------ There are 3 alternatives for installation: 1. Simple installation: R CMD

Hi, On a fresh install of R on mac os x 10.6.4 (snow leopard) RSQLite did not install while running biocLite() $ R R version 2.11.1 (2010-05-31) Copyright (C) 2010 The R Foundation for Statistical Computing ISBN 3-900051-07-0 [...] Loading required package: utils BioC_mirror = http://www.bioconductor.org Change using chooseBioCmirror(). [Previously saved workspace restored] >

Hi Folks, I'm new to the linux world and am having some trouble installing the RSQLite package. SQLite is installed, but some dependencies(?) seem to be missing. Can anyone help? > sessionInfo() R version 2.13.0 (2011-04-13) Platform: i686-pc-linux-gnu (32-bit) > install.packages() Installing package(s) into ‘/home/abraham/R/i686-pc-linux-gnu-library/2.13’ (as ‘lib’ is unspecified)

Dear All Another one I have touched on before with a much older OS and version. My sessionInfo() is: > sessionInfo() R version 2.5.1 (2007-06-27) i686-redhat-linux-gnu locale: LC_CTYPE=en_GB.UTF-8;LC_NUMERIC=C;LC_TIME=en_GB.UTF-8;LC_COLLATE=en_GB.U TF-8;LC_MONETARY=en_GB.UTF-8;LC_MESSAGES=en_GB.UTF-8;LC_PAPER=en_GB.UTF-

RSQLite is an R package conforming to the R DBI interface that allows for interaction with SQLite. Version 0.9-0 highlights: * Support for SQLite BLOBs using raw vectors in R * New memory model for db connections allows for more familiar R semantics and no predefined limit to the number of connections you can have in an R session. * Upgrade to SQLite 3.6.23.1 * Removed an unnecessary

RSQLite is an R package conforming to the R DBI interface that allows for interaction with SQLite. Version 0.9-0 highlights: * Support for SQLite BLOBs using raw vectors in R * New memory model for db connections allows for more familiar R semantics and no predefined limit to the number of connections you can have in an R session. * Upgrade to SQLite 3.6.23.1 * Removed an unnecessary

Hi, I'm trying to install RSQLite on R 2.14 Ubuntu 12.04 i686. The installation always gets stalled and ends up not working. I installed libsqlite3-dev but still no luck. Anyone know how to solve this? $ R CMD INSTALL RSQLite_0.11.1.tar.gz * installing to library ‘/home/ubuntu/R/i686-pc-linux-gnu-library/2.14’ * installing *source* package ‘RSQLite’ ... ** package ‘RSQLite’ successfully

The GeneSetCollection class in the Bioconductor package GSEABase extends 'list' > library(GSEABase) > showClass("GeneSetCollection") Slots: Name: .Data Class: list Extends: Class "list", from data part Class "vector", by class "list", distance 2 Class "AssayData", by class "list", distance 2 If I create

hello, if i load the RSQLite package in addition to the RPostgreSQL package, i get various errors when trying to use RPostgreSQL functions. here is an example transcript showing one such error: ========================================================== R version 2.15.0 (2012-03-30) [...] > packageVersion('RPostgreSQL') [1] 0.3.2 > packageVersion('RSQLite') [1] 0.11.1

Hi folks, Ubuntu 10.04 64 bit Where can I find 64 bit RSQLite? It seems not there; RSQLite: SQLite interface for R http://cran.r-project.org/web/packages/RSQLite/index.html TIA B.R. Stephen L

Seth, I encountered problems installing RSQLite, R-2.7.0, on RHEL4 using Intel 10.1 icc, My sysadmin helped me track down the problem and kindly forwarded me the fix, which corrected the problem. What follows is from the sysadmin. Mark I looked at the error, looks like there is a bug in the source code. I've attached a new tarball, hopefully fixed. I added #include <sys/types.h>