From: Vlad Cojocaru (Vlad.Cojocaru_at_eml-r.villa-bosch.de)
Date: Mon Apr 14 2008 - 05:43:00 CDT

Thanks Alex,

Sorry ... of course ... its logical since the binaries are already
compiled .... This means that the 1.8.7a21 version was actually compiled
without python ...

vlad

Axel Kohlmeyer wrote:
> On Mon, 14 Apr 2008, Vlad Cojocaru wrote:
>
> VC> Hi John, vmd users,
> VC>
> VC> Its clear now .. vmd-1.8.7a21 for LINUX (posted by you on the BIOCORE on the
> VC> 3rd of April is compiled with python 2.5)
> VC>
> VC> When I installed this version on my working place (Debian, 32 bits machine),
> VC> and I tried gopython it tells me "invalid command name gopython".. I did add
> VC> PYTHON and NUMPY to the configure.options before running configure ...
>
> if you download and install a binary version, changing configure.options
> hast _no_ effect. this only applies to compilations.
>
> axel.
>
> VC>
> VC> Is this happening because I do not have python 2.5 installed on my system (I
> VC> only have 2.4)?
> VC>
> VC> Best
> VC> vlad
> VC>
> VC>
> VC> Vlad Cojocaru wrote:
> VC> > Hi John,
> VC> >
> VC> > I believe you are right .. It should not matter whether those files are
> VC> > executables. I've just thought that the permissions might have changed
> VC> > while I checked out the files and that's why I asked. But if they were
> VC> > checked in like this and if this is more convenient from your side, it
> VC> > should be fine ... There is no reason to affect the compilation itself.
> VC> >
> VC> > Are the latest test version (1.8.7a19) already compiled with python 2.5
> VC> > and tcl 8.5? What Numeric version do you use for compiling ?
> VC> >
> VC> > Best wishes
> VC> > vlad
> VC> >
> VC> >
> VC> >
> VC> > John Stone wrote:
> VC> > > Hi guys,
> VC> > > I believe the source files in public CVS may be marked as executable
> VC> > > because we have scripts that copy our internal CVS repository to the
> VC> > > externally
> VC> > > accessible server. The scripts may do chmod -R ... type operations
> VC> > > to make it impossible for CVS permissions to prevent access to the files
> VC> > > by the unprivileged CVS server process. I haven't looked at the scripts
> VC> > > in years, but that's my vague recollection. It shouldn't harm anything,
> VC> > > though it may offend your sense of cleanliness to see all those source
> VC> > > files set to be executable. :) I can look into this more closely if
> VC> > > people actually care, but thus far it has never mattered to my
> VC> > > knowledge,
> VC> > > and it has prevented bad permissions in our internal tree from creating
> VC> > > problems for external developers working from the public CVS.
> VC> > >
> VC> > > Cheers,
> VC> > > John
> VC> > >
> VC> > > On Sun, Apr 13, 2008 at 04:00:12PM -0400, Axel Kohlmeyer wrote:
> VC> > >
> VC> > > > On Sun, 13 Apr 2008, Cojocaru,Vlad wrote:
> VC> > > >
> VC> > > > VC> Hi Alex,
> VC> > > > VC>
> VC> > > > VC> Thanks for replying !!
> VC> > > > VC>
> VC> > > >
> VC> > > > VC> I had openSuse 10.0 and upgraded to the new 10.3 (on Athlon 64,
> VC> > > > VC> 3500+)... I have just seen that all the checkout files were
> VC> > > > VC> executables on my machine after checkout with cvs following
> VC> > > > VC> exactly the recipe on the VMD web site ... I cannot explain why
> VC> > > > VC> all files were executables if by default the permissions are
> VC> > > > VC> preserved ...
> VC> > > >
> VC> > > > probably because they were checked in like this...
> VC> > > > i checked my checkout and most, but not all files are executable.
> VC> > > > it never made a difference in compiling, so...
> VC> > > >
> VC> > > > VC> Regarding my second question, I think you misunderstood ... I
> VC> > > > VC> first downloaded the binaries for vmd-1.8.7a19 ... And with these
> VC> > > > VC> binaries I had the python problem ... After seeing the problem
> VC> > > > VC> (and having
> VC> > > >
> VC> > > > well, since you have suse and john is compiling on red hat, i'm not
> VC> > > > surprised that there may be (small) differences. you'd have to install
> VC> >>> _his_ compile of the python parts. if i remember correctly, he is not
> VC> > > > building with tcl 8.5 (not 8.4), on top of that...
> VC> > > >
> VC> > > > with the diversity of distributions and the ways how people install
> VC> > > > (or mutilate) them, the only way to have a binary consistent with your
> VC> > > > distribution is to compile yourself. :-(
> VC> > > >
> VC> > > > VC> the problem so many times before with vmd versions earlier than
> VC> > > > VC> 1.8.6) I thought that the simple solution is just to compile vmd
> VC> > > > VC> and as I did it before I should be able to do it again ... And
> VC> > > > VC> that's when I downloaded the code from CVS
> VC> > > > VC>
> VC> > > > VC> I did not do the compilation yet ...
> VC> > > >
> VC> > > > good luck,
> VC> > > > axel.
> VC> > > >
> VC> > > >
> VC> > > > VC> bets wishes
> VC> > > > VC> vlad
> VC> > > > VC>
> VC> > > > VC>
> VC> > > >
> VC> > > > --
> VC> > > > =======================================================================
> VC> > > > Axel Kohlmeyer akohlmey_at_cmm.chem.upenn.edu
> VC> > > > http://www.cmm.upenn.edu
> VC> > > > Center for Molecular Modeling -- University of Pennsylvania
> VC> > > > Department of Chemistry, 231 S.34th Street, Philadelphia, PA
> VC> > > > 19104-6323
> VC> > > > tel: 1-215-898-1582, fax: 1-215-573-6233, office-tel: 1-215-898-5425
> VC> > > > =======================================================================
> VC> > > > If you make something idiot-proof, the universe creates a better
> VC> > > > idiot.
> VC> > > >
> VC> > >
> VC> > >
> VC> >
> VC> > --
> VC> > ----------------------------------------------------------------------------
> VC> > Dr. Vlad Cojocaru
> VC> >
> VC> > EML Research gGmbH
> VC> > Schloss-Wolfsbrunnenweg 33
> VC> > 69118 Heidelberg
> VC> >
> VC> > Tel: ++49-6221-533266
> VC> > Fax: ++49-6221-533298
> VC> >
> VC> > e-mail:Vlad.Cojocaru[at]eml-r.villa-bosch.de
> VC> >
> VC> > http://projects.villa-bosch.de/mcm/people/cojocaru/
> VC> >
> VC> > ----------------------------------------------------------------------------
> VC> > EML Research gGmbH
> VC> > Amtgericht Mannheim / HRB 337446
> VC> > Managing Partner: Dr. h.c. Klaus Tschira
> VC> > Scientific and Managing Director: Prof. Dr.-Ing. Andreas Reuter
> VC> > http://www.eml-r.org
> VC> > ----------------------------------------------------------------------------
> VC> >
> VC> >
> VC>
> VC>
>
>

-- 
----------------------------------------------------------------------------
Dr. Vlad Cojocaru
EML Research gGmbH
Schloss-Wolfsbrunnenweg 33
69118 Heidelberg
Tel: ++49-6221-533266
Fax: ++49-6221-533298
e-mail:Vlad.Cojocaru[at]eml-r.villa-bosch.de
http://projects.villa-bosch.de/mcm/people/cojocaru/
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EML Research gGmbH
Amtgericht Mannheim / HRB 337446
Managing Partner: Dr. h.c. Klaus Tschira
Scientific and Managing Director: Prof. Dr.-Ing. Andreas Reuter
http://www.eml-r.org
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