Hello, Not sure if this is a mac problem or not, so feel free to suggest a redirect.
I am using GEOquerry to download raw microarray files. If there is a space in the path then curl gives an error. If I remove the space from the path, no error. I am pretty sure that this error did not exist on R 2.12.2 > library(GEOquery) > library(limma) > library(affy) > > vte.supp <- getGEOSuppFiles(GEO="GSE4847") [1] "ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/series/GSE4847/"; 100 53.8M 100 53.8M 0 0 468k 0 0:01:57 0:01:57 --:--:-- 493k 0:00:01 --:--:-- 0 curl: (6) Couldn't resolve host 'Club' 106 1063 106 1063 0 0 47 0 0:00:22 0:00:22 --:--:-- 7433 0:00:22 --:--:-- 0 curl: (6) Couldn't resolve host 'Club' Warning messages: 1: In download.file(file.path(url, i), destfile = file.path(storedir, : download had nonzero exit status 2: In download.file(file.path(url, i), destfile = file.path(storedir, : download had nonzero exit status > sessionInfo() R version 2.13.0 (2011-04-13) Platform: i386-apple-darwin9.8.0/i386 (32-bit) locale: [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] affy_1.30.0 limma_3.8.2 GEOquery_2.18.0 Biobase_2.12.1 loaded via a namespace (and not attached): [1] affyio_1.20.0 preprocessCore_1.14.0 RCurl_1.6-5 tools_2.13.0 XML_3.4-0 > pwd() Error: could not find function "pwd" > getwd() [1] "/Users/jmaloof/Documents/Teaching/R Club" [[alternative HTML version deleted]] _______________________________________________ R-SIG-Mac mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-mac
