Dear BioCs, I recently moved to a MacBook, and tried to run my usual microarray analysis scritps (which works perfectly at my old PC), but without success. 1) RG <- read.maimages(targets$FileName, columns = list(Rf = "F2 Mean", Gf = "F1 Mean", Rb = "B2 Median", Gb = "B1 Median"), source="genepix",sep="\t", annotation = c("Block", "Row", "Column", "ID", "Name"), wt.fun=f) Error in grep(protectMetachar(allcnames[i]), text.to.search) : invalid regular expression in this local 2) RG$genes <- readGAL ("name_of_the_file.gal") object of the type 'closure' not possible to divide in substes Any ideas? What am I missing? Here is my session info: > sessionInfo() R version 2.13.0 (2011-04-13) Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) locale: [1] pt_BR.UTF-8/pt_BR.UTF-8/C/C/pt_BR.UTF-8/pt_BR.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] DAAG_1.06 randomForest_4.6-2 rpart_3.1-49 MASS_7.3-12 convert_1.28.0 [6] Biobase_2.12.1 marray_1.30.0 limma_3.8.1 Thanks, Priscila -- Priscila Grynberg, D.Sc.- Bioinformatics Laboratório de Genética Bioquímica Universidade Federal de Minas Gerais Tel: +55 31 3409-2628 CV: http://lattes.cnpq.br/8808643075395963 -- Priscila Grynberg, D.Sc.- Bioinformatics Laboratório de Genética Bioquímica Universidade Federal de Minas Gerais Tel: +55 31 3409-2628 CV: http://lattes.cnpq.br/8808643075395963 [[alternative HTML version deleted]]

Dear Priscila, I am not on a Mac but since your first error message complains about your locale setting this post from Martin may help: https://stat.ethz.ch/pipermail/bioconductor/2009-September/029450.html Cheers, - axel Axel Klenk Research Informatician Actelion Pharmaceuticals Ltd / Gewerbestrasse 16 / CH-4123 Allschwil / Switzerland From: Priscila Grynberg <priscilag at="" gmail.com=""> To: <bioconductor at="" stat.math.ethz.ch=""> Date: 20.04.2011 01:51 Subject: [BioC] Read.maimages with Mac OS X v.10.6 Snow Leopard - SessionInfo update Sent by: bioconductor-bounces at r-project.org Dear BioCs, I recently moved to a MacBook, and tried to run my usual microarray analysis scritps (which works perfectly at my old PC), but without success. 1) RG <- read.maimages(targets$FileName, columns = list(Rf = "F2 Mean", Gf = "F1 Mean", Rb = "B2 Median", Gb = "B1 Median"), source="genepix",sep="\t", annotation = c("Block", "Row", "Column", "ID", "Name"), wt.fun=f) Error in grep(protectMetachar(allcnames[i]), text.to.search) : invalid regular expression in this local 2) RG$genes <- readGAL ("name_of_the_file.gal") object of the type 'closure' not possible to divide in substes Any ideas? What am I missing? Here is my session info: > sessionInfo() R version 2.13.0 (2011-04-13) Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) locale: [1] pt_BR.UTF-8/pt_BR.UTF-8/C/C/pt_BR.UTF-8/pt_BR.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] DAAG_1.06 randomForest_4.6-2 rpart_3.1-49 MASS_7.3-12 convert_1.28.0 [6] Biobase_2.12.1 marray_1.30.0 limma_3.8.1 Thanks, Priscila -- Priscila Grynberg, D.Sc.- Bioinformatics Laborat?rio de Gen?tica Bioqu?mica Universidade Federal de Minas Gerais Tel: +55 31 3409-2628 CV: http://lattes.cnpq.br/8808643075395963 -- Priscila Grynberg, D.Sc.- Bioinformatics Laborat?rio de Gen?tica Bioqu?mica Universidade Federal de Minas Gerais Tel: +55 31 3409-2628 CV: http://lattes.cnpq.br/8808643075395963 [[alternative HTML version deleted]] _______________________________________________ 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 The information of this email and in any file transmitted with it is strictly confidential and may be legally privileged. It is intended solely for the addressee. If you are not the intended recipient, any copying, distribution or any other use of this email is prohibited and may be unlawful. In such case, you should please notify the sender immediately and destroy this email. The content of this email is not legally binding unless confirmed by letter. Any views expressed in this message are those of the individual sender, except where the message states otherwise and the sender is authorised to state them to be the views of the sender's company. For further information about Actelion please see our website at http://www.actelion.com