<div dir="ltr">Hi Blaine,<div><br></div><div>Sorry! You're right, the command should be "libtbx.run_tests_parallel" not "libtbx.run_tests_module". "module" is the keyword for command.</div><div><br clear="all"><div><div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div dir="ltr"><div dir="ltr"><div><div>--</div><div><span style="font-size:12.8000001907349px">Billy K. Poon</span><br></div></div><div>Research Scientist, Molecular Biophysics and Integrated Bioimaging</div><div>Lawrence Berkeley National Laboratory</div><div>1 Cyclotron Road, M/S 33R0345</div><div>Berkeley, CA 94720</div><div>Tel: (510) 486-5709</div><div>Fax: (510) 486-5909</div><div>Web: <a href="https://phenix-online.org" target="_blank">https://phenix-online.org</a></div></div></div></div></div></div></div></div></div></div></div></div></div></div><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Wed, Sep 23, 2020 at 12:59 PM Mooers, Blaine H.M. (HSC) <<a href="mailto:Blaine-Mooers@ouhsc.edu">Blaine-Mooers@ouhsc.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex">Hi Billy,<br>
<br>
I installed cctbx in a new conda env called cctbx37:<br>
<br>
conda create --name cctbx37 python=3.7<br>
conda activate cctbx37<br>
conda install -c conda-forge cctbx jupyterlab<br>
<br>
I cannot find libtbx.run_tests_module.<br>
<br>
I can only find libtbx.run_tests_parallel.<br>
<br>
Best regards,<br>
<br>
Blaine<br>
<br>
Blaine Mooers, Ph.D.<br>
Associate Professor<br>
Department of Biochemistry and Molecular Biology<br>
College of Medicine<br>
University of Oklahoma Health Sciences Center<br>
S.L. Young Biomedical Research Center (BRC) Rm. 466<br>
975 NE 10th Street, BRC 466<br>
Oklahoma City, OK 73104-5419<br>
<br>
________________________________________<br>
From: <a href="mailto:cctbxbb-bounces@phenix-online.org" target="_blank">cctbxbb-bounces@phenix-online.org</a> [<a href="mailto:cctbxbb-bounces@phenix-online.org" target="_blank">cctbxbb-bounces@phenix-online.org</a>] on behalf of <a href="mailto:cctbxbb-request@phenix-online.org" target="_blank">cctbxbb-request@phenix-online.org</a> [<a href="mailto:cctbxbb-request@phenix-online.org" target="_blank">cctbxbb-request@phenix-online.org</a>]<br>
Sent: Wednesday, September 23, 2020 2:00 PM<br>
To: <a href="mailto:cctbxbb@phenix-online.org" target="_blank">cctbxbb@phenix-online.org</a><br>
Subject: [EXTERNAL] cctbxbb Digest, Vol 138, Issue 2<br>
<br>
Send cctbxbb mailing list submissions to<br>
<a href="mailto:cctbxbb@phenix-online.org" target="_blank">cctbxbb@phenix-online.org</a><br>
<br>
To subscribe or unsubscribe via the World Wide Web, visit<br>
<a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__phenix-2Donline.org_mailman_listinfo_cctbxbb&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=-mxAPV_pB7onIHWelFdxVyG1VVC18BFdic8q9fgIP-o&e=" rel="noreferrer" target="_blank">https://urldefense.proofpoint.com/v2/url?u=http-3A__phenix-2Donline.org_mailman_listinfo_cctbxbb&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=-mxAPV_pB7onIHWelFdxVyG1VVC18BFdic8q9fgIP-o&e=</a><br>
or, via email, send a message with subject or body 'help' to<br>
<a href="mailto:cctbxbb-request@phenix-online.org" target="_blank">cctbxbb-request@phenix-online.org</a><br>
<br>
You can reach the person managing the list at<br>
<a href="mailto:cctbxbb-owner@phenix-online.org" target="_blank">cctbxbb-owner@phenix-online.org</a><br>
<br>
When replying, please edit your Subject line so it is more specific<br>
than "Re: Contents of cctbxbb digest..."<br>
<br>
<br>
Today's Topics:<br>
<br>
1. cctbx now available on conda-forge (Billy Poon)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Wed, 23 Sep 2020 11:22:03 -0700<br>
From: Billy Poon <<a href="mailto:BKPoon@lbl.gov" target="_blank">BKPoon@lbl.gov</a>><br>
To: cctbx mailing list <<a href="mailto:cctbxbb@phenix-online.org" target="_blank">cctbxbb@phenix-online.org</a>>, PHENIX user<br>
mailing list <<a href="mailto:phenixbb@phenix-online.org" target="_blank">phenixbb@phenix-online.org</a>><br>
Subject: [cctbxbb] cctbx now available on conda-forge<br>
Message-ID:<br>
<CAHmYUcZwVDKZ6v1iuA-nP8AJn1cfp3sNWtiqeo=<a href="mailto:fcWPq9VbpqQ@mail.gmail.com" target="_blank">fcWPq9VbpqQ@mail.gmail.com</a>><br>
Content-Type: text/plain; charset="utf-8"<br>
<br>
Hi everyone,<br>
<br>
The conda-forge package for cctbx is now available. There are 2 packages,<br>
"cctbx-base" includes the base code and "cctbx" which includes "cctbx-base"<br>
and adds "wxPython", "PySide2", and "ipython". The commands for installing<br>
cctbx into your conda environment are<br>
<br>
conda install -c conda-forge cctbx<br>
<br>
or<br>
<br>
conda install -c conda-forge cctbx-base<br>
<br>
If you want to use Jupyter Lab, you can now easily do this with<br>
<br>
conda install -c conda-forge cctbx-base jupyterlab<br>
jupyter lab<br>
<br>
The existing documentation will be updated to reflect the easier<br>
installation procedure with conda.<br>
<br>
After installing the conda package, you can also run some of the tests (in<br>
an empty directory) with<br>
<br>
libtbx.run_tests_module module=libtbx module=cctbx nproc=<nproc><br>
<br>
I do know of a few issues that I want to fix in upcoming releases, but<br>
please submit issues to <a href="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=" rel="noreferrer" target="_blank">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=</a> with steps<br>
to reproduce the error.<br>
<br>
Thanks!<br>
<br>
--<br>
Billy K. Poon<br>
Research Scientist, Molecular Biophysics and Integrated Bioimaging<br>
Lawrence Berkeley National Laboratory<br>
1 Cyclotron Road, M/S 33R0345<br>
Berkeley, CA 94720<br>
Tel: (510) 486-5709<br>
Fax: (510) 486-5909<br>
Web: <a href="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=" rel="noreferrer" target="_blank">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=</a><br>
-------------- next part --------------<br>
An HTML attachment was scrubbed...<br>
URL: <<a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__phenix-2Donline.org_pipermail_cctbxbb_attachments_20200923_2541111c_attachment.html&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=VoJ5yAuv9UgYqY4ILaPHm63CwaUc1YHJ5-m_-qrAVc4&e=" rel="noreferrer" target="_blank">https://urldefense.proofpoint.com/v2/url?u=http-3A__phenix-2Donline.org_pipermail_cctbxbb_attachments_20200923_2541111c_attachment.html&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=VoJ5yAuv9UgYqY4ILaPHm63CwaUc1YHJ5-m_-qrAVc4&e=</a> ><br>
<br>
------------------------------<br>
<br>
_______________________________________________<br>
cctbxbb mailing list<br>
<a href="mailto:cctbxbb@phenix-online.org" target="_blank">cctbxbb@phenix-online.org</a><br>
<a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__phenix-2Donline.org_mailman_listinfo_cctbxbb&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=-mxAPV_pB7onIHWelFdxVyG1VVC18BFdic8q9fgIP-o&e=" rel="noreferrer" target="_blank">https://urldefense.proofpoint.com/v2/url?u=http-3A__phenix-2Donline.org_mailman_listinfo_cctbxbb&d=DwICAg&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=6ECfX7MkBmhyld0TuhCVkFnEEf3aeFHIxM4znr2jCnY&s=-mxAPV_pB7onIHWelFdxVyG1VVC18BFdic8q9fgIP-o&e=</a><br>
<br>
<br>
End of cctbxbb Digest, Vol 138, Issue 2<br>
***************************************<br>
<br>
_______________________________________________<br>
cctbxbb mailing list<br>
<a href="mailto:cctbxbb@phenix-online.org" target="_blank">cctbxbb@phenix-online.org</a><br>
<a href="http://phenix-online.org/mailman/listinfo/cctbxbb" rel="noreferrer" target="_blank">http://phenix-online.org/mailman/listinfo/cctbxbb</a><br>
</blockquote></div>