Hi all, sorry for this silly problem. I'm trying to install biomaRt on a new PC and there seems to be a problem with the required RCurl, please see below. Can someone give me a hint? Thanks, Ina * installing *source* package ?RCurl? ... ** package ?RCurl? successfully unpacked and MD5 sums checked checking for curl-config... no Cannot find curl-config ERROR: configuration failed for package ?RCurl? * removing ?/home/inah/R/x86_64-pc-linux-gnu-library/2.15/RCurl? The downloaded source packages are in ?/tmp/RtmpWLdm34/downloaded_packages? Warning message: In install.packages("RCurl") : installation of package ?RCurl? had non-zero exit status > sessionInfo() R version 2.15.0 (2012-03-30) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] grid stats graphics grDevices utils datasets methods [8] base other attached packages: [1] canine2.db_2.7.1 org.Cf.eg.db_2.7.1 RSQLite_0.11.1 [4] DBI_0.2-5 annotate_1.34.0 AnnotationDbi_1.18.0 [7] made4_1.30.0 scatterplot3d_0.3-33 gplots_2.10.1 [10] KernSmooth_2.23-7 caTools_1.12 bitops_1.0-4.1 [13] gdata_2.8.2 gtools_2.6.2 RColorBrewer_1.0-5 [16] ade4_1.5-0 affy_1.34.0 Biobase_2.16.0 [19] BiocGenerics_0.2.0 BiocInstaller_1.4.3 limma_3.12.0 loaded via a namespace (and not attached): [1] affyio_1.24.0 IRanges_1.14.2 preprocessCore_1.18.0 [4] stats4_2.15.0 tcltk_2.15.0 tools_2.15.0 [7] xtable_1.7-0 zlibbioc_1.2.0

Hi Ina, On 4/24/2012 3:19 PM, Ina Hoeschele wrote: > Hi all, > sorry for this silly problem. I'm trying to install biomaRt on a new PC and there seems to be a problem with the required RCurl, please see below. Can someone give me a hint? You are probably missing libcurl. See http://www.omegahat.org/RCurl/FAQ.html Best, Jim > Thanks, Ina > > * installing *source* package ?RCurl? ... > ** package ?RCurl? successfully unpacked and MD5 sums checked > checking for curl-config... no > Cannot find curl-config > ERROR: configuration failed for package ?RCurl? > * removing ?/home/inah/R/x86_64-pc-linux-gnu-library/2.15/RCurl? > > The downloaded source packages are in > ?/tmp/RtmpWLdm34/downloaded_packages? > Warning message: > In install.packages("RCurl") : > installation of package ?RCurl? had non-zero exit status > >> sessionInfo() > R version 2.15.0 (2012-03-30) > Platform: x86_64-pc-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 > [7] LC_PAPER=C LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] grid stats graphics grDevices utils datasets methods > [8] base > > other attached packages: > [1] canine2.db_2.7.1 org.Cf.eg.db_2.7.1 RSQLite_0.11.1 > [4] DBI_0.2-5 annotate_1.34.0 AnnotationDbi_1.18.0 > [7] made4_1.30.0 scatterplot3d_0.3-33 gplots_2.10.1 > [10] KernSmooth_2.23-7 caTools_1.12 bitops_1.0-4.1 > [13] gdata_2.8.2 gtools_2.6.2 RColorBrewer_1.0-5 > [16] ade4_1.5-0 affy_1.34.0 Biobase_2.16.0 > [19] BiocGenerics_0.2.0 BiocInstaller_1.4.3 limma_3.12.0 > > loaded via a namespace (and not attached): > [1] affyio_1.24.0 IRanges_1.14.2 preprocessCore_1.18.0 > [4] stats4_2.15.0 tcltk_2.15.0 tools_2.15.0 > [7] xtable_1.7-0 zlibbioc_1.2.0 > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician University of Washington Environmental and Occupational Health Sciences 4225 Roosevelt Way NE, # 100 Seattle WA 98105-6099