[phenixbb] nightly builds nit (and a question)

Nathaniel Echols NEchols at lbl.gov
Tue Apr 21 12:25:56 PDT 2009

On Apr 21, 2009, at 11:55 AM, Ben Eisenbraun wrote:
> I'm not sure you are soliciting bugs on the nightly builds, but I  
> thought
> I'd mention these.  Please let me know if you don't need/want them.

Please send them, unless you're using an outdated version (for the  
nightly builds, anything more than a week old can be considered  
outdated).  However, you should normally use the address bugs at phenix-online.org 
  for this - it's just an alias, you don't need to subscribe to  

> I downloaded and installed the 1.4-37 nightly builds.  The  
> installations
> went fine for linux and OS X PPC/x86.  There are some absolute  
> symlinks in
> the installation that don't work:
> . . .

The symlink in PyMOL is Warren's fault - the others are ours, but they  
won't cause problems while running PHENIX, since none of those  
commands are used once building from source is finished (we use  
'python', not 'python2.6').  I will see if I can figure out an easy  
way to clean them up all at once (does anyone know how to determine  
the path of a file based on a symlink to it, in a Bash script?).

> Since the nightly builds don't build the ext_ref_files, should I  
> just symlink
> them to the ones in the 1.4-3 release?

The ext_ref_files directory has been replaced by chem_data - as long  
as that's there, you're okay.


Nathaniel Echols
Lawrence Berkeley Lab
NEchols at lbl.gov

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