[cctbxbb] bz2 support on Ubuntu

[David Waterman]

Thanks, I did this, currently churning through the base build. Checking the
latest Python_install_log I see hopeful-looking things like "building 'bz2'
extension". I can only assume I've installed a few more packages since I
did the original build. Will report back if there are any new problems,
otherwise I think this might be fixed :)

Cheers

-- David

On 8 June 2017 at 13:08, <markus.gerstel at diamond.ac.uk> wrote:

> Hi David,
>
>
>
> You’ll have to look into the python setup.py script to figure that one out.
>
> https://github.com/python/cpython/blob/2.7/setup.py#L1463
>
> Python expects the library to be in some fixed place, and If it’s not
> there support is disabled.
>
>
>
> Regarding your rebuild question. I would keep the base_tmp directory, you
> then don’t have to redownload and recompile everything. Stuff should still
> recompile if anything changed, and if versions are updated etc.
>
> If you definitely want to recompile everything you can still save time by
> running  this **in the base_tmp directory**:
>
>     find . -maxdepth 1 -mindepth 1 -type d -print0 | xargs -0 -n 1 -- rm
> –rf
>
> This removes all subdirectories, leaving the files intact, so you don’t
> have to redownload everything.
>
>
>
> I would expect the steps *export, rm -rf base, python bootstrap.py base,
> cd build, setpaths, libtbx.configure, make* to suffice.
>
>
>
> -Markus
>
>
>
> *From:* cctbxbb-bounces at phenix-online.org [mailto:cctbxbb-bounces@
> phenix-online.org] *On Behalf Of *David Waterman
> *Sent:* 08 June 2017 12:58
> *To:* cctbx mailing list <cctbxbb at phenix-online.org>
> *Subject:* [cctbxbb] bz2 support on Ubuntu
>
>
>
> Hi folks,
>
>
>
> My bootstrap build of cctbx/DIALS on Ubuntu 16.04.2 LTS produces a base
> Python that does not have bz2 support. This is despite the fact that the
> package "libbz2-dev is already the newest version (1.0.6-8)." Looking in
> Python_install_log I see
>
>
>
> Python build finished, but the necessary bits to build these modules were
> not found:
>
> _bsddb             _curses            _curses_panel
>
> _sqlite3           _tkinter           bsddb185
>
> bz2                dbm                dl
>
> gdbm               imageop            readline
>
> sunaudiodev
>
>
>
> Has anyone got any ideas? Anyone done a boostrap build on Ubuntu where bz2
> can be imported in Python?
>
>
>
> Also, what's the procedure to rebuild from base, recovering all the
> currently configured modules? My guess is that something like this would do
> it, but is there a better way?
>
>
>
> export MYMODULES=$(libtbx.list_modules | tr '\n' ' ')
>
> rm -rf base_tmp/ base/ build/
>
> python bootstrap.py --builder=dials base
>
> python bootstrap.py --builder=dials build
>
> cd build
>
> source setpaths.sh
>
> libtbx.configure $MYMODULES
>
> make
>
>
>
> Cheers
>
>
> -- David
>
>
>
> --
>
> 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
>
>
> _______________________________________________
> cctbxbb mailing list
> cctbxbb at phenix-online.org
> http://phenix-online.org/mailman/listinfo/cctbxbb
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://phenix-online.org/pipermail/cctbxbb/attachments/20170608/0abc6019/attachment.htm>