I created a virtual machine and did a brand new Scientific Linux 6.3 (64) installation. After updating its packages, I installed phenix-installer-1.8.1-1168-intel-linux-2.6-x86_64-fc3 almost without a glitch.*

Following Kay's email I did a clean install of fcphenix-installer-1.8.1-1168-intel-linux-2.6-x86_64-fc12 and it also worked beautifully.*

Thank you a lot Nat, Engin and Kay.

Cheers,
Davi


* - There was the following error message:
running mkfontdir
Couldn't determine weight for Vera.pfa
Couldn't determine weight for VeraMono.pfa
rebuilding font cache
Fontconfig error: Cannot load default config file
fc-cache: "/usr/local/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/base/share/fonts": skipping, no such directory
fc-cache: succeeded

On 27/01/2013 13:54, Engin Ozkan wrote:
I just installed yesterday the latest nightly build on our Scientific Linux 6 (6.3, I believe) machine using the 64-bit FC3 installer. No problems. 

Engin

Engin Özkan
Garcia Lab,  Stanford



-------- Original message --------
From: Nathaniel Echols <[email protected]>
Date:
To: PHENIX user mailing list <[email protected]>
Subject: Re: [phenixbb] Unable to install phenix 1.8.1-1168 on Scientific Linux 6.3 64 bits


On Fri, Jan 25, 2013 at 4:15 PM, Davi de Miranda Fonseca
<[email protected]> wrote:
> I installed Scientific Linux 6.3 64 bits, updated everything and installed a
> couple of things that I think would be necessary. Then I uncompressed
> phenix-installer-1.8.1-1168-intel-linux-2.6-x86_64-fc3.tar to /tmp and tried
> to install, however I got some errors. Hence, I installed a couple more
> things and tried installing again.

The first thing to try when something like this happens is to download
one of the other 64-bit installers.  In most cases the fc3 build is
preferred, but there are some newer distributions where an installer
built on a more recent version of Fedora is preferable.  I would start
with fc8 and work your way up.

The second thing to try, if all of the binary installers fail, is to
install from source.

> ***** And here are the last lines of
> /tmp/phenix-installer-1.8.1-1168/build-binary/intel-linux-2.6-x86_64/scientifix/log/binary.log:
>...
> /usr/local/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/base/bin/python:
> /lib64/libc.so.6: version `GLIBC_2.14' not found (required by
> /usr/local/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/base/bin/python)
>
> By the way, Scientific linux 6.3 comes with glibc 2.12.

To be honest I simply don't understand library versioning issues - the
Fedora 3 machine we build that installer on currently has glibc 2.3,
so I don't know where the GLIBC_2.14 is coming from.  I think it will
be significantly more work to figure out a workaround than trying the
other installers, though.  Unfortunately we do not actually have a
Scientific Linux system here - the closest I could find was CentOS
6.2, and that works okay.

-Nat
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