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

Mooers, Blaine H.M. (HSC) Blaine-Mooers at ouhsc.edu
Wed Sep 23 12:58:15 PDT 2020

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 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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Today's Topics:

   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
        <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


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.


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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