[R-sig-hpc] Installing R-3.3 on a HPC cluster

Ali Siavosh-Haghighi siavoa01 at nyumc.org
Mon May 9 15:44:07 CEST 2016

Hi Bjorn,
Installing the bzip2 itself is not the problem. R>3.2.5 requires one of the headers in bzip2-devel. There is no source for bzip2-devel-1.0.6 (could not find it and I contacted the developer and no response yet). The RPM installation complains about lack of newer version of glibc (a version that is the default for CentOS 7). So, unless R be wrapped with the necessary headers of bzip2-devel I dont see an easy installation for new  versions of R on CentOS 6. And we have very heavy R users.
I appreciate any helpful comment 
Ali  Siavosh-Haghighi, Ph.D.
HPC System Administrator
High Performance Computing Facility
Center for Health Informatics and Bioinformatics
NYU Langone Medical Center
Phone: (646) 501-2907

> On May 9, 2016, at 4:42 AM, Bjørn-Helge Mevik <b.h.mevik at usit.uio.no> wrote:
> Ali Siavosh-Haghighi <siavoa01 at nyumc.org> writes:
>> I did install zlib as a module and bypassed that error but bzip2-devel-1.0.6
>> asks for some new version of glibc that is a bit more fundamental. That glibc
>> and that bzip2 It is default for CentOS 7. So I was thinking if there is a way
>> to install bzip2-devel as module as well but could not find the
>> source.
> I guess there should be no problem in downloading the latest bzip2
> source code, build it and install it and create a module file for it.
> We recently had to do this for libcurl because the OS provided version
> was too old (didn't support https).
> If you google "bzip source" you will find that the source code can be
> found here: https://urldefense.proofpoint.com/v2/url?u=http-3A__www.bzip.org_&d=CwIGaQ&c=j5oPpO0eBH1iio48DtsedbOBGmuw5jHLjgvtN2r4ehE&r=XaOCmLUnAz9o9ru8VyC-GVRS6cJNKKW6WtTDkj1afBA&m=Im1-S_Gpzb4vbMNNYwsYReogsNXaH_YHZYF1e0OB0Gc&s=bWQk-f2kOA-fgOmk0fluNBVwcjM2j7pU7EUz2gk4mTk&e= 
> -- 
> Regards,
> Bjørn-Helge Mevik, dr. scient,
> Department for Research Computing, University of Oslo
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