hi list, i want to make an annotation package for Medicago. i searched the mailing list and found AnnBuilder maybe help me solve this i found in the ABPrimer.pdf from bioconductor.org mentions AnnotationDbi as a attached package.i am wondering AnnotationDbi will as a requriement for AnnBuilder. so i use biocLite to install AnnBuilder,RSQLite,DBI,AnnotationDbi one by one the first 3 without problem but AnnotationDbi failed this is the wrong message and sessioninfo: > biocLite("AnnotationDbi") Running biocinstall version 2.0.8 with R version 2.5.0 Your version of R requires version 2.0 of Bioconductor. Warning message: package 'AnnotationDbi' is not available in: install.packages(pkgs = pkgs, repos = repos, dependencies = dependencies, > sessionInfo() R version 2.5.0 (2007-04-23) i686-pc-linux-gnu locale: LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US .UTF-8;LC_MONETARY=en_US.UTF-8;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US. UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8 ;LC_IDENTIFICATION=C attached base packages: [1] "tools" "stats" "graphics" "grDevices" "utils" "datasets" [7] "methods" "base" other attached packages: AnnBuilder annotate XML Biobase "1.14.0" "1.14.1" "1.9-0" "1.14.0" > library(RSQLite) Loading required package: DBI > sessionInfo() R version 2.5.0 (2007-04-23) i686-pc-linux-gnu locale: LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US .UTF-8;LC_MONETARY=en_US.UTF-8;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US. UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8 ;LC_IDENTIFICATION=C attached base packages: [1] "tools" "stats" "graphics" "grDevices" "utils" "datasets" [7] "methods" "base" other attached packages: RSQLite DBI AnnBuilder annotate XML Biobase "0.5-4" "0.2-3" "1.14.0" "1.14.1" "1.9-0" "1.14.0" Thanks for any response! Best! -- Daofeng Li,PhD Candidate China Agricultural University

Daofeng Li wrote: > hi list, > > i want to make an annotation package for Medicago. > i searched the mailing list and found AnnBuilder maybe help me solve this > i found in the ABPrimer.pdf from bioconductor.org mentions > AnnotationDbi as a attached package.i am wondering AnnotationDbi will > as a requriement for AnnBuilder. > so i use biocLite to install AnnBuilder,RSQLite,DBI,AnnotationDbi one by one > the first 3 without problem > but AnnotationDbi failed AnnotationDbi is in development and is not needed for AnnBuilder 1.14.0, which is the version that is to be used for R-2.5.0. All one needs to do to install a particular package for bioconductor is to use biocLite('packagename'). In this case, biocLite('AnnBuilder') would have been all that was needed. As for ABPrimer.pdf, make sure that you are using the correct version of that document. In particular, you need that document to match the AnnBuilder version that you are using. The correct version for AnnBuilder 1.14.0 does not mention AnnotationDbi. Hope that helps. Sean