I've redone it after a 'git clean -fdx'.
It still compiles.
I'm going to test other gcc and cuda version.
Gerald.
On 03/10/2017 10:37 PM, Daniel Roe wrote:
> And was this from a clean directory? All of the times I have gotten
> the error have been from clean or freshly cloned GIT trees.
>
> On a third machine with gcc 4.8.4, cuda 8.0, ubuntu 14.04, same error.
>
> -Dan
>
> On Fri, Mar 10, 2017 at 4:17 PM, Gerald Monard
> <Gerald.Monard.univ-lorraine.fr> wrote:
>> Oups. I forgot: gcc-4.4.7 on Red Hat 6.3
>>
>> Gerald.
>>
>> On 03/10/2017 09:07 PM, Daniel Roe wrote:
>>> What version gcc out of curiosity?
>>>
>>> On Fri, Mar 10, 2017 at 3:00 PM Gerald Monard <
>>> Gerald.Monard.univ-lorraine.fr> wrote:
>>>
>>>> Hello,
>>>>
>>>> It builds for me now (gcc + cuda 8.0).
>>>>
>>>> Gerald.
>>>>
>>>> On 03/10/2017 07:34 PM, Ray Luo wrote:
>>>>> Gerald,
>>>>>
>>>>> After I "git add" these files by force, looks like they are in. Could
>>>>> you check whether you can see these files?
>>>>>
>>>>> I'm compiling a "git clean -xfd"-ed version.
>>>>>
>>>>> Ray
>>>>> --
>>>>> Ray Luo, Ph.D.
>>>>> Professor of Structural Biology/Biochemistry/Biophysics,
>>>>> Chemical Physics, Biomedical Engineering, and Chemical Engineering
>>>>> Department of Molecular Biology and Biochemistry
>>>>> University of California, Irvine, CA 92697-3900
>>>>>
>>>>>
>>>>> On Fri, Mar 10, 2017 at 8:30 AM, Gerald Monard
>>>>> <Gerald.Monard.univ-lorraine.fr> wrote:
>>>>>> Hello,
>>>>>>
>>>>>> When I compare the "original" (=downloaded) version of
>>>>>> cusplibrary-0.5.1, I can see the following files missing in the amber
>>>>>> git tree:
>>>>>> ./build
>>>>>> ./build/build-env.py
>>>>>> ./build/g++.py
>>>>>> ./build/nvcc.py
>>>>>> ./cusp
>>>>>> ./cusp/detail
>>>>>> ./cusp/detail/config.h
>>>>>>
>>>>>> All the best,
>>>>>>
>>>>>> Gerald.
>>>>>>
>>>>>> On 03/10/2017 02:39 PM, Jason Swails wrote:
>>>>>>> On Fri, Mar 10, 2017 at 8:12 AM, Daniel Roe <daniel.r.roe.gmail.com>
>>>> wrote:
>>>>>>>
>>>>>>>> As of commit 372e01050807ea56cfe36e8164a4f8b4d59b9d1b, still broken.
>>>> Same
>>>>>>>> error.
>>>>>>>>
>>>>>>>> ```
>>>>>>>> /usr/local/cuda-7.5/bin/nvcc -gencode arch=compute_20,code=sm_20
>>>>>>>> -gencode arch=compute_30,code=sm_30 -gencode
>>>>>>>> arch=compute_50,code=sm_50 -gencode arch=compute_52,code=sm_52
>>>>>>>> -gencode arch=compute_53,code=sm_53 -use_fast_math -O3 -ccbin g++
>>>>>>>> -I../cusplibrary-0.5.1 -o cuda_cg_wrapper.o -c cuda_cg_wrapper.cu
>>>>>>>> -DCUSP -DPCG -DJacobi -DDIA
>>>>>>>> In file included from cuda_cg_wrapper.cu:832:0:
>>>>>>>> ../cusplibrary-0.5.1/cusp/csr_matrix.h:23:32: fatal error:
>>>>>>>> cusp/detail/config.h: No such file or directory
>>>>>>>> #include <cusp/detail/config.h>
>>>>>>>> ```
>>>>>>>
>>>>>>>
>>>>>>>> File is indeed missing:
>>>>>>>>
>>>>>>>> ```
>>>>>>>> $ cd $AMBERHOME/AmberTools/src/pbsa
>>>>>>>> $ ls ../cusplibrary-0.5.1/cusp/detail/config.h
>>>>>>>> ls: cannot access ../cusplibrary-0.5.1/cusp/detail/config.h: No such
>>>>>>>> file or directory
>>>>>>>> ```
>>>>>>>
>>>>>>>
>>>>>>>> There is no config.h anywhere in the cusp directory. Have you tested
>>>>>>>> by pulling a fresh copy into a new directory and then attempting to
>>>>>>>> configure/install? Am I the only one seeing this?
>>>>>>>>
>>>>>>>
>>>>>>> config.h is in .gitignore (since we don't want to track *our*
>>>> config.h).
>>>>>>> This is preventing Ray from adding it and "git status" from finding it.
>>>>>>>
>>>>>>> I've fixed this so it should ignore *only* the config.h files that our
>>>>>>> configure script generates..
>>>>>>>
>>>>>>> .Ray, try adding it again. And after you do, please try a fresh clone
>>>> and
>>>>>>> build (which would have caught this missing file) and make sure that
>>>> works
>>>>>>> first.
>>>>>>>
>>>>>>> All the best,
>>>>>>> Jason
>>>>>>>
>>>>>>
>>>>>> --
>>>>>>
>>>> ____________________________________________________________________________
>>>>>>
>>>>>> Prof. Gerald MONARD
>>>>>> Directeur du mésocentre EXPLOR
>>>>>> Université de Lorraine
>>>>>> Boulevard des Aiguillettes B.P. 70239
>>>>>> F-54506 Vandoeuvre-les-Nancy, FRANCE
>>>>>>
>>>>>> e-mail : Gerald.Monard.univ-lorraine.fr
>>>>>> phone : +33 (0)372.745.279
>>>>>> web : http://www.monard.info
>>>>>>
>>>>>>
>>>> ____________________________________________________________________________
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> AMBER-Developers mailing list
>>>>>> AMBER-Developers.ambermd.org
>>>>>> http://lists.ambermd.org/mailman/listinfo/amber-developers
>>>>>
>>>>> _______________________________________________
>>>>> AMBER-Developers mailing list
>>>>> AMBER-Developers.ambermd.org
>>>>> http://lists.ambermd.org/mailman/listinfo/amber-developers
>>>>>
>>>>
>>>> --
>>>>
>>>> ____________________________________________________________________________
>>>>
>>>> Prof. Gerald MONARD
>>>> Directeur du mésocentre EXPLOR
>>>> Université de Lorraine
>>>> Boulevard des Aiguillettes B.P. 70239
>>>> F-54506 Vandoeuvre-les-Nancy, FRANCE
>>>>
>>>> e-mail : Gerald.Monard.univ-lorraine.fr
>>>> phone : +33 (0)372.745.279
>>>> web : http://www.monard.info
>>>>
>>>>
>>>> ____________________________________________________________________________
>>>>
>>>>
>>>> _______________________________________________
>>>> AMBER-Developers mailing list
>>>> AMBER-Developers.ambermd.org
>>>> http://lists.ambermd.org/mailman/listinfo/amber-developers
>>>>
>>
>> --
>> ____________________________________________________________________________
>>
>> Prof. Gerald MONARD
>> Directeur du mésocentre EXPLOR
>> Université de Lorraine
>> Boulevard des Aiguillettes B.P. 70239
>> F-54506 Vandoeuvre-les-Nancy, FRANCE
>>
>> e-mail : Gerald.Monard.univ-lorraine.fr
>> phone : +33 (0)372.745.279
>> web : http://www.monard.info
>>
>> ____________________________________________________________________________
>>
>>
>> _______________________________________________
>> AMBER-Developers mailing list
>> AMBER-Developers.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber-developers
>
>
>
>
>
> _______________________________________________
> AMBER-Developers mailing list
> AMBER-Developers.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber-developers
>
--
____________________________________________________________________________
Prof. Gerald MONARD
Directeur du mésocentre EXPLOR
Université de Lorraine
Boulevard des Aiguillettes B.P. 70239
F-54506 Vandoeuvre-les-Nancy, FRANCE
e-mail : Gerald.Monard.univ-lorraine.fr
phone : +33 (0)372.745.279
web : http://www.monard.info
____________________________________________________________________________
_______________________________________________
AMBER-Developers mailing list
AMBER-Developers.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber-developers
Received on Fri Mar 10 2017 - 14:30:02 PST
