Hi Vince, You need version >=1.13.9 of OrganismDbi. Unfortunately it's failing check because of the biomart problems so you'll have to get it from svn. Let me know if you still have problems after updating.
Val On 05/02/2016 11:53 AM, Vincent Carey wrote: > biocValid() says all is well ... > >> select(Homo.sapiens, keys="1001", keytype="ENTREZID", columns="SYMBOL") > *Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : * > > * object '.testSelectArgs' not found* > >> sessionInfo() > R version 3.3.0 beta (2016-04-01 r70412) > > Platform: x86_64-apple-darwin13.4.0 (64-bit) > > Running under: OS X 10.10.5 (Yosemite) > > > locale: > > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > > attached base packages: > > [1] parallel stats4 stats graphics grDevices utils datasets > > [8] methods base > > > other attached packages: > > [1] Homo.sapiens_1.3.1 > > [2] TxDb.Hsapiens.UCSC.hg19.knownGene_3.2.2 > > [3] org.Hs.eg.db_3.3.0 > > [4] GO.db_3.3.0 > > [5] OrganismDbi_1.13.8 > > [6] GenomicFeatures_1.23.31 > > [7] GenomicRanges_1.23.27 > > [8] GenomeInfoDb_1.7.6 > > [9] AnnotationDbi_1.33.15 > > [10] IRanges_2.5.46 > > > [11] S4Vectors_0.9.52 > > [12] Biobase_2.31.3 > > [13] BiocGenerics_0.17.5 > > [14] BiocInstaller_1.21.6 > > > loaded via a namespace (and not attached): > > [1] graph_1.49.1 Rcpp_0.12.4.5 > > [3] XVector_0.11.8 zlibbioc_1.17.1 > > [5] GenomicAlignments_1.7.21 BiocParallel_1.5.22 > > [7] tools_3.3.0 SummarizedExperiment_1.1.27 > > [9] DBI_0.4 RBGL_1.47.0 > > [11] rtracklayer_1.31.11 bitops_1.0-6 > > [13] RCurl_1.95-4.8 biomaRt_2.27.2 > > [15] RSQLite_1.0.0 Biostrings_2.39.14 > > [17] Rsamtools_1.23.11 XML_3.98-1.4 > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited. If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you. _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
