[cctbxbb] [EXTERNAL] cctbxbb Digest, Vol 138, Issue 2

[Billy Poon]

Hi Blaine,

Sorry! You're right, the command should be "libtbx.run_tests_parallel" not
"libtbx.run_tests_module". "module" is the keyword for command.

--
Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720
Tel: (510) 486-5709
Fax: (510) 486-5909
Web: https://phenix-online.org


On Wed, Sep 23, 2020 at 12:59 PM Mooers, Blaine H.M. (HSC) <
Blaine-Mooers at ouhsc.edu> wrote:

> Hi Billy,
>
> I installed cctbx in a new conda env called cctbx37:
>
> conda create --name cctbx37 python=3.7
> conda activate cctbx37
> conda install -c conda-forge cctbx jupyterlab
>
> I cannot find libtbx.run_tests_module.
>
> I can only find libtbx.run_tests_parallel.
>
> Best regards,
>
> Blaine
>
> Blaine Mooers, Ph.D.
> Associate Professor
> Department of Biochemistry and Molecular Biology
> College of Medicine
> University of Oklahoma Health Sciences Center
> S.L. Young Biomedical Research Center (BRC) Rm. 466
> 975 NE 10th Street, BRC 466
> Oklahoma City, OK 73104-5419
>
> ________________________________________
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> cctbxbb-request at phenix-online.org]
> Sent: Wednesday, September 23, 2020 2:00 PM
> To: cctbxbb at phenix-online.org
> Subject: [EXTERNAL] cctbxbb Digest, Vol 138, Issue 2
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>    1. cctbx now available on conda-forge (Billy Poon)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Wed, 23 Sep 2020 11:22:03 -0700
> From: Billy Poon <BKPoon at lbl.gov>
> To: cctbx mailing list <cctbxbb at phenix-online.org>,     PHENIX user
>         mailing list <phenixbb at phenix-online.org>
> Subject: [cctbxbb] cctbx now available on conda-forge
> Message-ID:
>         <CAHmYUcZwVDKZ6v1iuA-nP8AJn1cfp3sNWtiqeo=
> fcWPq9VbpqQ at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Hi everyone,
>
> The conda-forge package for cctbx is now available. There are 2 packages,
> "cctbx-base" includes the base code and "cctbx" which includes "cctbx-base"
> and adds "wxPython", "PySide2", and "ipython". The commands for installing
> cctbx into your conda environment are
>
> conda install -c conda-forge cctbx
>
> or
>
> conda install -c conda-forge cctbx-base
>
> If you want to use Jupyter Lab, you can now easily do this with
>
> conda install -c conda-forge cctbx-base jupyterlab
> jupyter lab
>
> The existing documentation will be updated to reflect the easier
> installation procedure with conda.
>
> After installing the conda package, you can also run some of the tests (in
> an empty directory) with
>
> libtbx.run_tests_module module=libtbx module=cctbx nproc=<nproc>
>
> I do know of a few issues that I want to fix in upcoming releases, but
> please submit issues to
> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_cctbx_cctbx-5Fproject&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=Vn7Woa-V4O0G8CERBKscZ3z1ijUwBZ26YEU910l2nwE&e=
> with steps
> to reproduce the error.
>
> Thanks!
>
> --
> Billy K. Poon
> Research Scientist, Molecular Biophysics and Integrated Bioimaging
> Lawrence Berkeley National Laboratory
> 1 Cyclotron Road, M/S 33R0345
> Berkeley, CA 94720
> Tel: (510) 486-5709
> Fax: (510) 486-5909
> Web:
> https://urldefense.proofpoint.com/v2/url?u=https-3A__phenix-2Donline.org&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=0jI2Zk7EtFc6O96Dn_A4UuNMDiOZ1tNdA0jieZF0nCA&e=
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