[cctbxbb] New error appeared recently, do not know who it belongs to...

[Graeme.Winter at diamond.ac.uk]

Nick,

I share your confusion. If I could have tracked it down to a revision I would have done…

Cheers Graeme


On 17 Jul 2017, at 07:07, Nicholas Sauter <nksauter at lbl.gov<mailto:nksauter at lbl.gov>> wrote:

that code hasn't changed in 5 years, so how can an error suddenly appear?
Nick

Nicholas K. Sauter, Ph. D.
Senior Scientist, Molecular Biophysics & Integrated Bioimaging Division
Lawrence Berkeley National Laboratory
1 Cyclotron Rd., Bldg. 33R0345
Berkeley, CA 94720
(510) 486-5713

On Sun, Jul 16, 2017 at 10:57 PM, <Graeme.Winter at diamond.ac.uk<mailto:Graeme.Winter at diamond.ac.uk>> wrote:
Exhibit A:

libtbx.python "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py"
rstbx.simage.explore_completeness d_min=10
rstbx.simage.explore_completeness d_min=10 intensity_symmetry=P4 use_symmetry=True multiprocessing=True
rstbx.simage.solver d_min=5
rstbx.simage.solver d_min=5 lattice_symmetry=R32:R intensity_symmetry=R3:R
rstbx.simage.solver d_min=5 lattice_symmetry=R32:R intensity_symmetry=P1
rstbx.simage.solver d_min=5 lattice_symmetry=P422 intensity_symmetry=P4 index_and_integrate=True multiprocessing=True
Traceback (most recent call last):
  File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 273, in <module>
    run(args=sys.argv[1:])
  File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 269, in run
    exercise_solver()
  File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 255, in exercise_solver
    "index_and_integrate=True", "multiprocessing=True"])
  File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 213, in run
    command=cmd, stdout_splitlines=False).raise_if_errors().stdout_buffer
  File "/Users/graeme/svn/cctbx/modules/cctbx_project/libtbx/easy_run.py", line 39, in raise_if_errors
    raise Error(msg)
RuntimeError: child process stderr output:
  command: 'rstbx.simage.solver d_min=5 lattice_symmetry=P422 intensity_symmetry=P4 index_and_integrate=True multiprocessing=True'
  Traceback (most recent call last):
    File "/Users/graeme/svn/cctbx/build/../modules/cctbx_project/rstbx/command_line/simage.solver.py<http://simage.solver.py/>", line 5, in <module>
      run(args=sys.argv[1:])
    File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 1161, in run
      return run_fresh(args)
    File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 1145, in run_fresh
      process(work_params, i_calc)
    File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 1088, in process
      process_core(work_params, i_calc.p1_anom, reindexing_assistant, image_mdls)
    File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 985, in process_core
      work_params, reindexing_assistant, image_mdls, usables)
    File "/Users/graeme/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 883, in build_image_cluster
      raise RuntimeError("Insufficient connectivity between images.")
  RuntimeError: Insufficient connectivity between images.
usr+sys time: 0.78 seconds, ticks: 777467, micro-seconds/tick: 1.003
wall clock time: 6.99 seconds

OS X & RHEL6

Any volunteers?

Cheers Graeme

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