Following up, updating the depend script did the trick for me. I've checked
it into the tree.
All the best,
Jason
On Sat, Dec 4, 2010 at 2:59 PM, Jason Swails <jason.swails.gmail.com> wrote:
> Hello,
>
> My comments are below:
>
> On Sat, Dec 4, 2010 at 2:21 PM, B. Lachele Foley <lfoley.uga.edu> wrote:
>
>> If the installation instructions have changed, just say and sorry I missed
>> it. I'll run again. I pulled just now (4 Dec., 13:30h EST). It looks like
>> it might be an environment settings error. Or not...
>>
>> On that note, can there be a file for the developers that contains the
>> most recent installation instructions? Even to have a file that says "no
>> changes from last release" would be great. I always worry I missed
>> something on the list.
>>
>> I did:
>>
>> export AMBERHOME=/path/to/amber
>> export PATH=$AMBERHOME/bin:$PATH
>> cd AmberTools/src
>> ./configure gnu
>> make install
>> cd ../../src
>> make serial
>>
>>
>> AmberTools (serial) compiled fine, but Amber serial fails with:
>>
>> gfortran -O0 -ffree-form -c -o rmsgrd.o rmsgrd.f
>>
>
> The above is wrong. cpp should first preprocess the file, and _rmsgrd.f
> should actually be compiled. That is the cause of the warnings below (the
> fortran preprocessor doesn't recognize the #include directive, just
> include).
>
>
>> Warning: rmsgrd.f:2: Illegal preprocessor directive
>> Warning: rmsgrd.f:3: Illegal preprocessor directive
>> Warning: rmsgrd.f:4: Illegal preprocessor directive
>> Warning: rmsgrd.f:19: Illegal preprocessor directive
>> Warning: rmsgrd.f:20: Illegal preprocessor directive
>> Warning: rmsgrd.f:21: Illegal preprocessor directive
>>
>
> This is indicative of an outdated depend file. Run "make depend" in the
> sander directory to update it. I'm in the process of testing now, and I'll
> check in the updated depend file if that is all that is required to fix the
> error below as well. Once the depend script is updated, there is no change
> to the installation procedure.
>
> All the best,
> Jason
>
> rmsgrd.f:15.47:
>>
>> use poisson_boltzmann, only : outwat, oution
>> 1
>> Fatal Error: Can't open module file 'poisson_boltzmann.mod' for reading at
>> (1): No such file or directory
>> make[1]: *** [rmsgrd.o] Error 1
>> make[1]: Leaving directory `/e14/programs/amber.git_20101203/src/sander'
>> make: *** [serial] Error 2
>>
>>
>> The file is present in: ./AmberTools/src/pbsa/poisson_boltzmann.mod
>> I suspect the complaints about the include lines are the more important
>> error, but I don't have enough experience using fortran in a C world to
>> diagnose.
>>
>> I only two systems with a pull last night, both Intel-based. One RHEL
>> using gcc 4.4.0 and the other Slackware using gcc 4.2.4. They did the same.
>>
>> :-) Lachele
>>
>> Dr. B. Lachele Foley
>> Complex Carbohydrate Research Center
>> The University of Georgia
>> Athens, GA USA
>> lfoley.uga.edu
>> http://glycam.ccrc.uga.edu
>> _______________________________________________
>> AMBER-Developers mailing list
>> AMBER-Developers.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber-developers
>>
>
>
>
> --
> Jason M. Swails
> Quantum Theory Project,
> University of Florida
> Ph.D. Graduate Student
> 352-392-4032
>
--
Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Graduate Student
352-392-4032
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Received on Sat Dec 04 2010 - 12:30:02 PST
