[cctbxbb] rstbx test is failing without indication in test_all_parallel

[Graeme.Winter at diamond.ac.uk]

Hi Oleg

I've been getting a similar error for a while now:


libtbx.python "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py" [FAIL]

  Time: 17.13

  Return code: 1

  OKs: 0

  Standard error:

    Traceback (most recent call last):

      File "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 273, in <module>

        run(args=sys.argv[1:])

      File "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 269, in run

        exercise_solver()

      File "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 255, in exercise_solver

        "index_and_integrate=True", "multiprocessing=True"])

      File "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/tst.py", line 213, in run

        command=cmd, stdout_splitlines=False).raise_if_errors().stdout_buffer

      File "/dls/science/users/gw56/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 "/dls/science/users/gw56/svn/cctbx/build/../modules/cctbx_project/rstbx/command_line/simage.solver.py", line 5, in <module>

          run(args=sys.argv[1:])

        File "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 1161, in run

          return run_fresh(args)

        File "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 1145, in run_fresh

          process(work_params, i_calc)

        File "/dls/science/users/gw56/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 "/dls/science/users/gw56/svn/cctbx/modules/cctbx_project/rstbx/simage/solver.py", line 985, in process_core

          work_params, reindexing_assistant, image_mdls, usables)

        File "/dls/science/users/gw56/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.

I mentioned it a few times but no one bit...

However it has always (in my experience) actually been reported as an error - few months now, only this error

Cheers Graeme

________________________________
From: cctbxbb-bounces at phenix-online.org [cctbxbb-bounces at phenix-online.org] on behalf of Oleg Sobolev [osobolev at lbl.gov]
Sent: 20 September 2017 19:33
To: cctbx mailing list
Subject: [cctbxbb] rstbx test is failing without indication in test_all_parallel

Dear colleagues,

Accidentally I found out that this command:

rstbx.simage.solver d_min=5 lattice_symmetry=P422 intensity_symmetry=P4 index_and_integrate=True multiprocessing=True
finishes with traceback.

It is run as part of
phenix_regression/misc/tst_rstbx.csh

The second problem is that test_all_parallel script fails to detect an actual failure.

It would be great if somebody who is in charge of rstbx and testing could look at this.

Best regards,
Oleg Sobolev.

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