AMBER Archive (2008)

Subject: RE: AMBER: Source FIles of SANDER

From: Ross Walker (ross_at_rosswalker.co.uk)
Date: Tue Aug 26 2008 - 18:57:55 CDT

Just to add, if you want to remove them 'safely' you can do:

cd $AMBERHOME/src/
make clean

and this will return the src tree to just containing all the original source
files without the preprocessed intermediates and object files.

All the best
Ross

> -----Original Message-----
> From: owner-amber_at_scripps.edu [mailto:owner-amber_at_scripps.edu] On Behalf
> Of Carlos Simmerling
> Sent: Tuesday, August 26, 2008 4:22 PM
> To: amber_at_scripps.edu
> Subject: Re: AMBER: Source FIles of SANDER
>
> they are intermediate files used for compilation, after you get the
> executable you don't need them anymore. be careful, though- there are
> some source files with an underscore that are needed. it doesn't hurt
> to leave them.
>
> On Tue, Aug 26, 2008 at 7:18 PM, Maicon Sartin <mapsartin_at_gmail.com>
> wrote:
> > Thanks for answers,
> >
> > But then, these files don't make part of the AMBER code, they are make
> for
> > only compilation?
> >
> >
> > 2008/8/26 Bill Ross <ross_at_cgl.ucsf.edu>
> >>
> >> > Which the difference in source files of SANDER with underline (_) and
> >> > without underline?
> >>
> >> Assuming there's a non-underline version of the same file name, the
> >> underline versions have been run through cpp (C Pre Processor) to
> >> handle preprocessing directives like "#ifdef MPI". Fortran did not
> >> do such preprocessing when I wrote the portable compilation system
> >> for Amber, so I coded it explicitly, using these intermediate files.
> >> The underlined files are then compiled by the fortran compiler.
> >>
> >> Bill
> >> -----------------------------------------------------------------------
> >> The AMBER Mail Reflector
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> >
> >
> >
> > --
> > Maicon A. Sartin
> > mapsartin_at_gmail.com
> >
>
>
>
> --
> ===================================================================
> Carlos L. Simmerling, Ph.D.
> Associate Professor Phone: (631) 632-1336
> Center for Structural Biology Fax: (631) 632-1555
> CMM Bldg, Room G80
> Stony Brook University E-mail: carlos.simmerling_at_gmail.com
> Stony Brook, NY 11794-5115 Web: http://comp.chem.sunysb.edu
> ===================================================================
> -----------------------------------------------------------------------
> The AMBER Mail Reflector
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