[cctbxbb] probe/reduce repositories
Hattne, Johan
hattnej at janelia.hhmi.org
Wed May 3 08:40:36 PDT 2017
Dear all;
I appear to be missing probe in my source build. On running phenix.model_vs_data I get the traceback posted below. The error message appears to be a tad misleading, because having probe in PATH is not enough: the actual test in the code is
if (not libtbx.env.has_module(name="probe")):
which leads me to believe that I’m supposed to have something probe-like in my source tree, but the duke-server I used to get these kinds of things from (quidditch?) seems unresponsive from here. This is the first time in weeks that I’m doing this, so it is very much likely that whatever happened to break my setup happened quite some time ago.
Cluebat, anyone?
// Cheers; Johan
Traceback (most recent call last):
File "/mnt/gonen/home/hattnej/projects/phenix-build/../phenix-src/phenix/phenix/command_line/model_vs_data.py", line 6, in <module>
show_geometry_statistics = True)
File "/mnt/gonen/home/hattnej/projects/phenix-src/cctbx_project/mmtbx/model_vs_data.py", line 710, in run
atom_selections = atom_selections)
File "/mnt/gonen/home/hattnej/projects/phenix-src/cctbx_project/mmtbx/model_vs_data.py", line 346, in show_geometry
restraints_manager = restraints_manager)
File "/mnt/gonen/home/hattnej/projects/phenix-src/cctbx_project/mmtbx/model_statistics.py", line 138, in __init__
molprobity_scores=molprobity_scores)
File "/mnt/gonen/home/hattnej/projects/phenix-src/cctbx_project/mmtbx/model_statistics.py", line 51, in __init__
self.clashscore = clashscore(pdb_hierarchy=pdb_hierarchy).get_clashscore()
File "/mnt/gonen/home/hattnej/projects/phenix-src/cctbx_project/mmtbx/validation/clashscore.py", line 90, in __init__
"http://kinemage.biochem.duke.edu/")
RuntimeError: Probe could not be detected on your system. Please make sure Probe is in your path.
Probe is available at http://kinemage.biochem.duke.edu/
Research Specialist @ Gonen Lab
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