Hello,
This issue was raised some weeks/months ago (see thread
[AMBER-Developers] Sander parallel build broken by PBSA updates). If
it's still the same problem, it's a dependency problem in PBSA
(makedepend not making its work correctly). You can't see it with make
-j1 and it's a random problem with make -jX (X>1).
I (partially) solved it last time. I'll check into it asap.
Gerald.
On 05/26/2016 07:23 PM, Ray Luo wrote:
> First thing first, I always "git clean -xfd" before rebuilding. I'll try
> different thead values to see whether I can reproduce the problem.
>
> Also all object files for sander are separately defined and built so this
> could be something higher up.
>
> Ray
> On May 26, 2016 10:04 AM, "Daniel Roe" <daniel.r.roe.gmail.com> wrote:
>
> On Thu, May 26, 2016, Ray Luo wrote:
>> Okay, I've just confirmed again that I can
>> make -j 32 install
>> if I turned off python building. I don't know too much how the python
>> part is built ... Please take a look of the dependence relations
>> related to python building.
>
> Nope - still fails for me with '--skip-python'. It's almost certainly
> an issue with pbsa/libpbsa dependencies since that is where the build
> always fails for me ('make -j4'):
>
> ```
> mpif90 -DBINTRAJ -DMPI -c -O3 -mtune=native -fPIC -ffree-form
> -I/home/droe/Amber/GIT/amber/include
> -I/home/droe/Amber/GIT/amber/include -o pb_force.o pb_force.F90
> pb_force.F90:292:77:
>
> sa_init, sa_driver, sa_free,
> sa_free_mb, &
>
> 1
> Error: Symbol ‘saslave_init’ referenced at (1) not found in module
> ‘solvent_accessibility’
> Makefile:226: recipe for target 'pb_force.o' failed
> make[3]: *** [pb_force.o] Error 1
> ```
>
> -Dan
>
> --
> -------------------------
> Daniel R. Roe, PhD
> Department of Medicinal Chemistry
> University of Utah
> 30 South 2000 East, Room 307
> Salt Lake City, UT 84112-5820
> http://home.chpc.utah.edu/~cheatham/
> (801) 587-9652
> (801) 585-6208 (Fax)
>
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--
____________________________________________________________________________
Prof. Gerald MONARD
SRSMC, Université de Lorraine, CNRS
Boulevard des Aiguillettes B.P. 70239
F-54506 Vandoeuvre-les-Nancy, FRANCE
e-mail : Gerald.Monard.univ-lorraine.fr
tel. : +33 (0)383.684.381
fax : +33 (0)383.684.371
web : http://www.monard.info
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Received on Thu May 26 2016 - 11:00:02 PDT
