OpenSuse 11.4, cannot install Bioconductor due to missing C compiler
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Tom Bartlett ▴ 60
@tom-bartlett-5059
Last seen 10.2 years ago
Hi, I'm trying to install the Bioconductor core packages (version 2.9) when using R version 2.14.1, in OpenSuse 11.4. However, the install does not complete, due to the following error message: configure: error: no acceptable C compiler found in $PATH Has anyone had the same problem, and did you find a straightforward way to fix it? Thanks in advance for your help Tom Bartlett
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Dan Tenenbaum ★ 8.2k
@dan-tenenbaum-4256
Last seen 4 months ago
United States
On Thu, Jan 19, 2012 at 5:31 AM, Tom Bartlett <thomas.bartlett.10 at="" ucl.ac.uk=""> wrote: > Hi, > > I'm trying to install the Bioconductor core packages (version 2.9) when using R version 2.14.1, in OpenSuse 11.4. However, the install does not complete, due to the following error message: configure: error: no acceptable C compiler found in $PATH > > Has anyone had the same problem, and did you find a straightforward way to fix it? > > Thanks in advance for your help A comprehensive list of ubuntu packages required for building R, courtesy of Hervé Pagès; use "apt-get install pkg1 pkg2 ... pkgN": Required stuff: make libc6-dev gfortran gfortran-4.2 g++ g++-4.2 libreadline5-dev libx11-dev libxt-dev Other highly recommended stuff (TeX/LaTeX, tcltk, PNG, JPEG, cairo, Java): texlive-full tcl8.5-dev tk8.5-dev libxss-dev libpng12-dev libjpeg62-dev libcairo2-dev gcj gcj-4.2 Required by some CRAN or Bioconductor packages: libcurl4-openssl-dev (for RCurl) libxml2-dev (for XML) libgtk2.0-dev, libglade2.0-dev (for RGtk2) libgraphviz-dev (for Rgraphviz) ggobi (for rggobi) Really nice to have: manpages-dev colorgcc (to activate this: cd /usr/local/bin/ && sudo ln -s /usr/bin/colorgcc gcc) Dan > > Tom Bartlett > _______________________________________________ > 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
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@david-lapointe-225
Last seen 10.2 years ago
Well, it sounds like you don't have the compilers and/or devel packages loaded. Go into your package manager for openSUSE and make sure the compilers are checked ( C/Fortran) as well as the basic devel libraries. If not then install them. David -----Original Message----- From: bioconductor-bounces@r-project.org [mailto:bioconductor- bounces@r-project.org] On Behalf Of Tom Bartlett Sent: Thursday, January 19, 2012 8:31 AM To: bioconductor at r-project.org Subject: [BioC] OpenSuse 11.4, cannot install Bioconductor due to missing C compiler Hi, I'm trying to install the Bioconductor core packages (version 2.9) when using R version 2.14.1, in OpenSuse 11.4. However, the install does not complete, due to the following error message: configure: error: no acceptable C compiler found in $PATH Has anyone had the same problem, and did you find a straightforward way to fix it? Thanks in advance for your help Tom Bartlett _______________________________________________ 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
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Hi Tom You may also need a package named curl-devel. In Fedora, curl-devel is not installed by default; I do not know about OpenSuse. Ivan Ivan Gregoretti, PhD On Thu, Jan 19, 2012 at 8:39 AM, Lapointe, David <david.lapointe at="" umassmed.edu=""> wrote: > Well, it sounds like you don't have the compilers and/or devel packages loaded. Go into your package manager for openSUSE and make sure the compilers are checked ( C/Fortran) as well as the basic devel libraries. If not then install them. > > David > > -----Original Message----- > From: bioconductor-bounces at r-project.org [mailto:bioconductor- bounces at r-project.org] On Behalf Of Tom Bartlett > Sent: Thursday, January 19, 2012 8:31 AM > To: bioconductor at r-project.org > Subject: [BioC] OpenSuse 11.4, cannot install Bioconductor due to missing C compiler > > Hi, > > I'm trying to install the Bioconductor core packages (version 2.9) when using R version 2.14.1, in OpenSuse 11.4. However, the install does not complete, due to the following error message: configure: error: no acceptable C compiler found in $PATH > > Has anyone had the same problem, and did you find a straightforward way to fix it? > > Thanks in advance for your help > > Tom Bartlett > _______________________________________________ > 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 > > _______________________________________________ > 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
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