Re: [AMBER-Developers] Parallel make failing

From: Ray Luo <rluo.uci.edu>
Date: Thu, 26 May 2016 09:31:32 -0700

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.

All the best,
Ray

--
Ray Luo, Ph.D.
Professor
Biochemistry, Molecular Biophysics, Chemical Physics,
Chemical and Biomedical Engineering
University of California, Irvine, CA 92697-3900
On Thu, May 26, 2016 at 8:13 AM, Ray Luo <rluo.uci.edu> wrote:
> Okay ... will take a look ... It worked with -j 32 on when I merged my
> branch with master ...
>
> Ray
> --
> Ray Luo, Ph.D.
> Professor
> Biochemistry, Molecular Biophysics, Chemical Physics,
> Chemical and Biomedical Engineering
> University of California, Irvine, CA 92697-3900
>
>
> On Thu, May 26, 2016 at 7:44 AM, Hai Nguyen <nhai.qn.gmail.com> wrote:
>> a bit more: seems happen randomly in my case.
>>
>> Hai
>>
>> On Thu, May 26, 2016 at 10:42 AM, Hai Nguyen <nhai.qn.gmail.com> wrote:
>>
>>> Yes, I can confirm that. After failing with `make install -j8`, I need to
>>> `make install` to continue the compiling.
>>>
>>> Hai
>>>
>>>
>>> On Thu, May 26, 2016 at 10:40 AM, Daniel Roe <daniel.r.roe.gmail.com>
>>> wrote:
>>>
>>>> Using the current GIT tree, 'make -jX' is failing around pbsa again:
>>>>
>>>> ```
>>>> 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
>>>> make[3]: *** Waiting for unfinished jobs....
>>>> make[3]: Leaving directory
>>>> '/home/droe/Amber/GIT/amber/AmberTools/src/pbsa'
>>>> Makefile:479: recipe for target 'libpbsa' failed
>>>> make[2]: *** [libpbsa] Error 2
>>>> make[2]: Leaving directory
>>>> '/home/droe/Amber/GIT/amber/AmberTools/src/sander'
>>>> Makefile:232: recipe for target 'parallel' failed
>>>> make[1]: *** [parallel] Error 2
>>>> make[1]: Leaving directory '/home/droe/Amber/GIT/amber/AmberTools/src'
>>>> Makefile:7: recipe for target 'install' failed
>>>> make: *** [install] Error 2
>>>> ```
>>>>
>>>> Single-threaded 'make' succeeds but takes a long, long time. Anyone
>>>> else seeing this?
>>>>
>>>> -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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>>>>
>>>
>>>
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Received on Thu May 26 2016 - 10:00:02 PDT