unable to install "ALL",please help me . -- output of sessionInfo(): output: biocLite("ALL") BioC_mirror: http://bioconductor.org Using Bioconductor version 2.13 (BiocInstaller 1.12.0), R version 3.0.2. Installing package(s) 'ALL' trying URL 'http://bioconductor.org/packages/2.13/data/experiment/bin/ windows/contrib/3.0/ALL_1.4.16.zip' Content type 'application/zip' length 11415170 bytes (10.9 Mb) opened URL downloaded 72 Kb Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) : cannot open the connection In addition: Warning messages: 1: In download.file(url, destfile, method, mode = "wb", ...) : downloaded length 73962 != reported length 11415170 2: In unzip(zipname, exdir = dest) : error 1 in extracting from zip file 3: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) : cannot open compressed file 'ALL/DESCRIPTION', probable reason 'No such file or directory' -- Sent via the guest posting facility at bioconductor.org.

----- Original Message ----- > From: "xia yuan [guest]" <guest at="" bioconductor.org=""> > To: bioconductor at r-project.org, summerxl at swu.edu.cn > Sent: Wednesday, November 6, 2013 10:23:03 PM > Subject: [BioC] unable to install \"ALL\" > > > unable to install "ALL",please help me . > > > -- output of sessionInfo(): > > output: > biocLite("ALL") > BioC_mirror: http://bioconductor.org > Using Bioconductor version 2.13 (BiocInstaller 1.12.0), R version > 3.0.2. > Installing package(s) 'ALL' > trying URL > 'http://bioconductor.org/packages/2.13/data/experiment/bin/windows/c ontrib/3.0/ALL_1.4.16.zip' > Content type 'application/zip' length 11415170 bytes (10.9 Mb) > opened URL > downloaded 72 Kb > > Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", > "Type")) : > cannot open the connection > In addition: Warning messages: > 1: In download.file(url, destfile, method, mode = "wb", ...) : > downloaded length 73962 != reported length 11415170 > 2: In unzip(zipname, exdir = dest) : error 1 in extracting from zip > file > 3: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", > "Type")) : > cannot open compressed file 'ALL/DESCRIPTION', probable reason 'No > such file or directory' > Sounds like the download is not working. Are you behind a proxy or firewall? Try starting R like this: R --internet2 and then running: biocLite("ALL") Dan > > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > 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 >

----- Original Message ----- > From: "summerxl" <summerxl at="" swu.edu.cn=""> > To: "Dan Tenenbaum" <dtenenba at="" fhcrc.org=""> > Sent: Wednesday, November 6, 2013 11:53:46 PM > Subject: Re:Re: [BioC] unable to install \"ALL\" > > thank you ,however,i not know the meaning of "R --internet2",how to > do ? Please keep the Bioconductor group in the thread so others can benefit. It might be simpler to do this: setInternet2(TRUE) And then try biocLite() again. Dan > > ---------- Origin message ---------- > >From?"Dan Tenenbaum" <dtenenba at="" fhcrc.org=""> > >To?"xia yuan [guest]" <guest at="" bioconductor.org=""> > >Subject?Re: [BioC] unable to install \"ALL\" > >Date?2013-11-07 14:29:01 > > > > ----- Original Message ----- > > From: "xia yuan [guest]" <guest at="" bioconductor.org=""> > > To: bioconductor at r-project.org, summerxl at swu.edu.cn > > Sent: Wednesday, November 6, 2013 10:23:03 PM > > Subject: [BioC] unable to install \"ALL\" > > > > > > unable to install "ALL",please help me . > > > > > > -- output of sessionInfo(): > > > > output: > > biocLite("ALL") > > BioC_mirror: http://bioconductor.org > > Using Bioconductor version 2.13 (BiocInstaller 1.12.0), R version > > 3.0.2. > > Installing package(s) 'ALL' > > > ---------------- > > > > Dr. Yuan Xia > > Faculty of Computer and Information Science, Southwest University > > Beibei District, Chongqing, P. R. China, 400715 > > > > > >