[phenixbb] phenix.autobuild error

Andreas Förster docandreas at gmail.com
Wed Apr 15 08:57:37 PDT 2009


Hey all,

I'm calling phenix.autobuild with the following command:

phenix.autobuild data=second_try_33.1.mtz model=second_try_33.1.pdb   \
 > seq_file=name_139_414.seq ps_in_rebuild=True

On my MacBook Pro (OSX 5.6, phenix Version: 1.4, Release tag: 3, cctbx 
tag: 2008_12_07_1353, Platform: mac-intel-osx osx-10.5.6), I get the 
following error:

Exception RuntimeError: 'maximum recursion depth exceeded while calling 
a Python object' in <type 'exceptions.KeyError'> ignored
108409888

On a linux box (RHEL 5.2, phenix Version: 1.4, Release tag: 3, cctbx 
tag: 2008_12_07_1353, Platform: intel-linux-2.6 redhat-e5.2) I get this 
error:

********************************************************************************
Failed to carry out AutoBuild_build_cycle:

child process stderr output:
   command: 'csh 
/csb/home/andreas/name/P6big/second_try/autobuild/AutoBuild_run_2_/TEMP0/RUN_FILE_1'
   tset: standard error: Invalid argument

********************************************************************************

Each time, the script was run on the same set of files residing on the 
linux box.  I either ssh into the machine and run phenix.autobuild in an 
ssh shell or mount my linux home directory via MacFusion and run 
phenix.autobuild on the Mac.

I haven't tried copying the files to the Mac, but other phenix commands 
work with the remote data (e.g. phenix.autobuild data=data.mtz 
solvent_fraction=.6 ps_in_rebuild=True model=coords.pdb maps_only=True)


What's the problem?


Andreas



-- 
         Andreas Förster, Research Associate
         Paul Freemont & Xiaodong Zhang Labs
Department of Biochemistry, Imperial College London
             http://www.msf.bio.ic.ac.uk



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