Re: [phenixbb] Install Problem Linux CentOs 5

Hi Matthew, Sorry for the issue! With the latest Phenix release, the minimum required Python version is 2.5 because there were some changes in the syntax. This affects the installation step. The default version of Python on CentOS 5 is 2.4. A workaround would be to use the Python shipped with an older version of Phenix (e.g. 1.12) to run the installation. To do so, 1) Type "cd " 2) Type "source /phenix_env.sh" or the csh version if you're using csh. This sets up the newer Python 3) Type "libtbx.python ./bin/install.py". This uses the newer Python for running the installation script. If you look at ./install, it just calls ./bin/install.py with the system provided Python. You can add the "--prefix" flag as well to the command if you want to install Phenix somewhere else. Let me know if that does not work. Thanks! -- Billy K. Poon Research Scientist, Molecular Biophysics and Integrated Bioimaging Lawrence Berkeley National Laboratory 1 Cyclotron Road, M/S 33R0345 Berkeley, CA 94720 Tel: (510) 486-5709 Fax: (510) 486-5909 Web: https://phenix-online.org On Wed, Jan 3, 2018 at 11:00 AM, Whitley, Matthew J wrote:

Hello all,

We are trying to install the new 1.13-2998 release of Phenix on 64 bit Linux CentOs 5 and have run into some problems. We are logged in as root, and we were able to unzip and untar the archive with no problem. However, when we run the install script, we immediately get the following errors:

root@linux7 phenix-installer-1.13-2998-intel-linux-2.6-x86_64-centos5]# ./install

Traceback (most recent call last):

File "./bin/install.py", line 20, in ?

from libtbx.auto_build import install_distribution

File "/usr/local/phenix-installer-1.13-2998-intel-linux-2.6-x86_ 64-centos5/lib/libtbx/auto_build/install_distribution.py", line 75, in ?

from libtbx.auto_build import install_base_packages

File "/usr/local/phenix-installer-1.13-2998-intel-linux-2.6-x86_ 64-centos5/lib/libtbx/auto_build/install_base_packages.py", line 864

os.chmod(filename, 0o755) # set permissions to -rwxr-xr-x

^

SyntaxError: invalid syntax

[root@linux7 phenix-installer-1.13-2998-intel-linux-2.6-x86_64-centos5]#

Any idea as to what the source of the problem is and how to get around it?

Thanks for your help.

Matthew Whitley

--- Matthew J. Whitley, Ph.D. Research Instructor Department of Pharmacology & Chemical Biology University of Pittsburgh School of Medicine

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