[phenixbb] python issues

Ralf W. Grosse-Kunstleve rwgk at cci.lbl.gov
Wed Mar 10 08:20:13 PST 2010

Hi Pat,

> source /sw*/bin/init.csh       (where /sw* is either /sw64 on the  
> machine running 10.6, or /sw on the machine running 10.5)
> gives the error:
>     *******************************************
>     Fatal Error: Incomplete libtbx environment!
>     *******************************************
>     Please re-run the libtbx/configure.py command.

I wrote the script which produces this error, but I'm not sure I can
help much...

The message comes from an auto-generated "setpaths.csh" file which
contains full path names to the Python used to configure the cctbx-based
build, and a utility script. Apparently, those full path names aren't
valid on your system. If you can find the "setpaths.csh" script maybe
the pathnames will give you a clue what's wrong.
Under 10.6 there are several things that can go wrong in addition,
related to 32-bit vs. 64-bit.

> If I go to ...ccp4.../src/phaser/phaser-2.1.4/libtbx/ and type
> python configure.py

Users shouldn't have to run this command themselves. It is meant to
be part of the package-specific installation scripts.
If you run it manually you have to have the "build" directory as
your current working directory, i.e. the same directory where you
find the "setpaths.csh" script (which will be overwritten). Also,
importantly, you have to get the right python executable, matching
the pre-compiled binaries.

I hope you'll get better help from the people who made the ccp4
installer you're using.


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