Hello,
I follow the Bioconductor instruction (http://www.bioconductor.org/download
<http://www.bioconductor.org/download> ) to install Biocoductor, there
have
some errors:
/usr/lib/R/bin/SHLIB: line 115: make: command not found
chmod: cannot access `/usr/local/lib/R/site-library/affyio/libs/*': No such
file or directory
ERROR: compilation failed for package 'affyio'
** Removing '/usr/local/lib/R/site-library/affyio'
* Installing *source* package 'survival' ...
** libs
/usr/lib/R/bin/SHLIB: line 115: make: command not found
ERROR: compilation failed for package 'survival'
** Removing '/usr/local/lib/R/site-library/survival'
* Installing *source* package 'KernSmooth' ...
** libs
/usr/lib/R/bin/SHLIB: line 115: make: command not found
ERROR: compilation failed for package 'KernSmooth'
** Removing '/usr/local/lib/R/site-library/KernSmooth'
* Installing *source* package 'RColorBrewer' ...
** R
** inst
** preparing package for lazy loading
** help
>>> Building/Updating help pages for package 'RColorBrewer'
Formats: text html latex example
ColorBrewer text html latex example
** building package indices ...
* DONE (RColorBrewer)
* Installing *source* package 'Biobase' ...
** libs
/usr/lib/R/bin/SHLIB: line 115: make: command not found
ERROR: compilation failed for package 'Biobase'
** Removing '/usr/local/lib/R/site-library/Biobase'
* Installing *source* package 'Biostrings' ...
** libs
/usr/lib/R/bin/SHLIB: line 115: make: command not found
ERROR: compilation failed for package 'Biostrings'
** Removing '/usr/local/lib/R/site-library/Biostrings'
......
......
Could you give me some advice about how to fix the errors?
Thanks.
Weigong Ge
[[alternative HTML version deleted]]
"Ge, Weigong*" <weigong.ge at fda.hhs.gov> writes:> Hello, > > I follow the Bioconductor instruction (http://www.bioconductor.org/download > <http://www.bioconductor.org/download> ) to install Biocoductor, there have > some errors:Please post questions about Bioconductor to the bioconductor mailing list: http://www.bioconductor.org/docs/mailList.html> /usr/lib/R/bin/SHLIB: line 115: make: command not foundYour system (Linux?) is missing very basic development tools. It seems you have no make program installed. Such a program, among many others, is required to build R packages from source. Try to install system packages for software development (C complier, etc). + seth
Hi, You don't say, but the errors make me think you are using Linux. (Please specify your OS when you have problems). It sounds like you are missing some of the "Essential programs under Unix" - they really are essential. I think you need to reread the R admin manual, as instructed on the bioconductor download page http://cran.r-project.org/doc/manuals/R-admin.html and in particular this part: http://cran.r-project.org/doc/manuals/R-admin.html#Essential-and-useful-other-programs-under-Unix Sarah On 8/29/06, Ge, Weigong* <weigong.ge at fda.hhs.gov> wrote:> Hello, > > I follow the Bioconductor instruction (http://www.bioconductor.org/download > <http://www.bioconductor.org/download> ) to install Biocoductor, there have > some errors: > > /usr/lib/R/bin/SHLIB: line 115: make: command not found-- Sarah Goslee http://www.stringpage.com