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June 2015

2 participants
2 discussions

dependency on phenix
by Roger Martin 26 Jan '16

26 Jan '16

Hi, looking through http://sourceforge.net/p/cctbx/code/HEAD/tree/trunk/mmtbx/refinement/minimi… shows at line 61 from phenix.refinement import weight_xray_chem and http://sourceforge.net/p/cctbx/code/HEAD/tree/trunk/mmtbx/refinement/occupa… line 134 Is weight_xray_chem.py code that could move to cctbx? (cctbx_project/mmtbx/refinement/weight_xray_chem.py) Are there other cross dependencies?

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bootstrap external dependencies
by markus.gerstel＠diamond.ac.uk 16 Jun '15

16 Jun '15

Good morning, last night we ran into a problem with some of the remaining external dependencies in the bootstrap script base install step. The sphinx package will currently download 11 files during its installation (list below). As with all other downloads I would like to be able to download these files beforehand and then pass them to our build systems directly, so that the subsequent builds are no longer dependant on network connectivity or pypi server reliability. I would like to propose a python-extra package for the bootstrap script, that checks the existence of a base_tmp/python_extra directory, and, if found, would install all python packages in that folder. This would be an easy facility to automatically build extra python packages (at DLS we already add a few extra packages, such as junit-xml, so this would actually simplify our build process), and would not affect any other bootstrap users. Alternatively, since the dependencies are fixed as they come from the Sphinx archive on the cci servers, we could package them up as well and put static build instructions into build_sphinx() in install_base_packages.py. Thoughts? -Markus The packages are: https://pypi.python.org/packages/source/J/Jinja2/Jinja2-2.7.3.tar.gz#md5=b9… https://pypi.python.org/packages/source/d/docutils/docutils-0.12.tar.gz#md5… https://pypi.python.org/packages/source/P/Pygments/Pygments-2.0.2.tar.gz#md… https://pypi.python.org/packages/source/M/MarkupSafe/MarkupSafe-0.23.tar.gz… https://pypi.python.org/packages/source/n/nose/nose-1.3.7.tar.gz#md5=4d3ad0… https://pypi.python.org/packages/source/p/pyparsing/pyparsing-2.0.3.tar.gz#… https://pypi.python.org/packages/source/t/tornado/tornado-4.2.tar.gz#md5=c5… https://pypi.python.org/packages/source/p/python-dateutil/python-dateutil-2… https://pypi.python.org/packages/source/c/certifi/certifi-2015.04.28.tar.gz… https://pypi.python.org/packages/source/b/backports.ssl_match_hostname/back… https://pypi.python.org/packages/source/s/six/six-1.9.0.tar.gz#md5=476881ef… -- This e-mail and any attachments may contain confidential, copyright and or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorised recipient of the addressee please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to the e-mail. Any opinions expressed within this e-mail are those of the individual and not necessarily of Diamond Light Source Ltd. Diamond Light Source Ltd. cannot guarantee that this e-mail or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message. Diamond Light Source Limited (company no. 4375679). Registered in England and Wales with its registered office at Diamond House, Harwell Science and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom

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