Exactly, I'm using my python (python 2.7.6). And there is no
$AMBERHOME/lib/python2.7/site-packages/pytraj folder, and there is no
''build'' in pytraj to remove. I went ahead and did the make pytraj anyhow,
and it tells me that I don't have cython (which I do).
I will install miniconda, and let you know what happens.
Thanks
2016-06-08 14:40 GMT-03:00 Hai Nguyen <nhai.qn.gmail.com>:
> Looking at the log, I think Claudia used system python:
>
> > /usr/bin/python test.py
>
> I agree that we should always suggest users to install miniconda (with Y/N)
> I will go ahead make that change. If anyone has strong objection, please
> reply here. thanks.
>
> Hai
>
> On Wed, Jun 8, 2016 at 1:33 PM, David A Case <david.case.rutgers.edu>
> wrote:
>
> > On Wed, Jun 08, 2016, Claudia Ramírez wrote:
> > >
> > > I did a git pull on Monday (June 6), with gnu 4.8 compilers and doing
> > just
> > > ./configure gnu (serial for now) in Ubuntu 14.04 LTS. And it has 4
> tests
> > on
> > > AmberTools that aren't working (this is without my modifications), and
> I
> > > don't know why. I'm attaching the log file to see if anyone could help
> me
> > > make it work.
> >
> > All the problems are python-related problems, related either to pytraj or
> > to the sander api interface.
> >
> > What is the PYTHON variable in your config.h? If you are not already
> > using a miniconda python, try going to $AMBERHOME/AmberTools/src and
> > running
> > configure_python. Then go back to AMBERHOME and re-run configure.
> >
> > [I still am pushing the (so-far, minority) viewpoint that all users
> should
> > be offered the choice to install the miniconda python. Users that have
> > both
> > experience with python, and the desire/need to use a different
> interpreter,
> > are welcome to decline the offer. But configure2 is still prone to
> > deciding
> > that the python in a user's path is OK when it is in fact not OK. So,
> > letting
> > us know which python your Amber installation is using would be a help
> > here.]
> >
> > ....dac
> >
> >
> > _______________________________________________
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> > AMBER-Developers.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber-developers
> >
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Received on Wed Jun 08 2016 - 11:00:03 PDT
