Hi all, I'm having some issues trying to install the GOstats package. Does anyone have any idea what I could be doing wrong? Thanks a lot! Artur Veloso > source("http://bioconductor.org/biocLite.R") > biocLite("GOstats") Running biocinstall version 2.2.9 with R version 2.7.0 Your version of R requires version 2.2 of BioConductor. also installing the dependencies 'RBGL', 'Category' trying URL ' http://bioconductor.org/packages/2.2/bioc/bin/windows/contrib/2.7/RBGL _1.16.0.zip ' Content type 'application/zip' length 1105523 bytes (1.1 Mb) opened URL downloaded 13 Kb trying URL ' http://bioconductor.org/packages/2.2/bioc/bin/windows/contrib/2.7/Cate gory_2.6.0.zip ' Content type 'application/zip' length 678484 bytes (662 Kb) opened URL downloaded 662 Kb trying URL ' http://bioconductor.org/packages/2.2/bioc/bin/windows/contrib/2.7/GOst ats_2.6.0.zip ' Content type 'application/zip' length 2824122 bytes (2.7 Mb) opened URL downloaded 899 Kb Error in gzfile(file, "r") : cannot open the connection In addition: Warning messages: 1: In download.file(url, destfile, method, mode = "wb", ...) : downloaded length 13480 != reported length 1105523 2: In download.file(url, destfile, method, mode = "wb", ...) : downloaded length 921295 != reported length 2824122 3: In zip.unpack(pkg, tmpDir) : error 1 in extracting from zip file 4: In gzfile(file, "r") : cannot open compressed file 'RBGL/DESCRIPTION', probable reason 'No such file or directory' > sessionInfo() R version 2.7.0 (2008-04-22) i386-pc-mingw32 locale: LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=English_United States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_2.7.0 > [[alternative HTML version deleted]]

Hi Artur, I've seen weirdness like this before. Try restarting R and see if that helps. Best, Jim Artur Veloso wrote: > Hi all, > > I'm having some issues trying to install the GOstats package. Does anyone > have any idea what I could be doing wrong? > > Thanks a lot! > Artur Veloso > >> source("http://bioconductor.org/biocLite.R") >> biocLite("GOstats") > Running biocinstall version 2.2.9 with R version 2.7.0 > Your version of R requires version 2.2 of BioConductor. > also installing the dependencies 'RBGL', 'Category' > > trying URL ' > http://bioconductor.org/packages/2.2/bioc/bin/windows/contrib/2.7/RB GL_1.16.0.zip > ' > Content type 'application/zip' length 1105523 bytes (1.1 Mb) > opened URL > downloaded 13 Kb > > trying URL ' > http://bioconductor.org/packages/2.2/bioc/bin/windows/contrib/2.7/Ca tegory_2.6.0.zip > ' > Content type 'application/zip' length 678484 bytes (662 Kb) > opened URL > downloaded 662 Kb > > trying URL ' > http://bioconductor.org/packages/2.2/bioc/bin/windows/contrib/2.7/GO stats_2.6.0.zip > ' > Content type 'application/zip' length 2824122 bytes (2.7 Mb) > opened URL > downloaded 899 Kb > > Error in gzfile(file, "r") : cannot open the connection > In addition: Warning messages: > 1: In download.file(url, destfile, method, mode = "wb", ...) : > downloaded length 13480 != reported length 1105523 > 2: In download.file(url, destfile, method, mode = "wb", ...) : > downloaded length 921295 != reported length 2824122 > 3: In zip.unpack(pkg, tmpDir) : error 1 in extracting from zip file > 4: In gzfile(file, "r") : > cannot open compressed file 'RBGL/DESCRIPTION', probable reason 'No such > file or directory' >> sessionInfo() > R version 2.7.0 (2008-04-22) > i386-pc-mingw32 > > locale: > LC_COLLATE=English_United States.1252;LC_CTYPE=English_United > States.1252;LC_MONETARY=English_United > States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > loaded via a namespace (and not attached): > [1] tools_2.7.0 > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > 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 Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623