Re: error compiling gadget

From: Antonio Bibiano <antbbn_at_gmail.com>
Date: Wed, 29 Nov 2017 12:11:38 +0000

Glad it worked,
Seems like you installed gsl in a non-standard directory, you can either
try using your system tools to install the libgsl package or specifying the
library path before running Gadget, something like this: export
LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/crs07/fftw2/lib
And then ./Gadget2

Cheers,
Antonio

On Wed 29. Nov 2017 at 13:06, Cynthia Saad (Student) <crs07_at_mail.aub.edu>
wrote:

> THANK YOU! it didn't occur to me that i should be using the older version
> of fttw.
>
> i successfully compiled the code.
>
> when trying to run one of the examples i am getting
> ./Gadget2: error while loading shared libraries: libgsl.so.23: cannot open
> shared object file: No such file or directory
>
> even though i have libgsl.so.23 in home/crs07/fftw2/lib, and in the
> makefile i put FFTW_LIBS= -L/home/crs07/fftw2/lib.
>
>
> what am i doing wrong?
>
> thank you so much for your help!!
>
> ------------------------------
> *From:* Antonio Bibiano <antbbn_at_gmail.com>
> *Sent:* Tuesday, November 28, 2017 11:56:20 AM
>
> *To:* Gadget General Discussion
> *Subject:* Re: [gadget-list] error compiling gadget
> You should use fftw2 to compile gadget.
>
> You can find it here http://www.fftw.org/download.html
> <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.fftw.org%2Fdownload.html&data=02%7C01%7Ccrs07%40mail.aub.edu%7Cacf303c7a9f54b2ba30408d53646a7c6%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636474599462421928&sdata=v4HqNmj80btRVOtEVpSqfLDrsyMpLnTrd%2F2GNu7AAIA%3D&reserved=0>
> Under "fftw 2.1.5"
>
> Then follow the instructions provided by Jared.
>
> Also the gadget guide (
> http://wwwmpa.mpa-garching.mpg.de/gadget/users-guide.pdf
> <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwwwmpa.mpa-garching.mpg.de%2Fgadget%2Fusers-guide.pdf&data=02%7C01%7Ccrs07%40mail.aub.edu%7Cacf303c7a9f54b2ba30408d53646a7c6%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C1%7C636474599462421928&sdata=UtHTkWnKMLOqU3yedZDHh0FEuF102fSpyhOMKQSwVBM%3D&reserved=0>
> , page 4) explains the options needed to compile it.
>
> Cheers,
> Antonio
>
> On Tue 28. Nov 2017 at 10:11, Cynthia Saad (Student) <crs07_at_mail.aub.edu>
> wrote:
>
> Hello
>
> i'm really sorry, but i am still stuck with this. i was following this
> http://wwwmpa.mpa-garching.mpg.de/gadget/gadget-list/0171.html
> <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwwwmpa.mpa-garching.mpg.de%2Fgadget%2Fgadget-list%2F0171.html&data=02%7C01%7Ccrs07%40mail.aub.edu%7Cacf303c7a9f54b2ba30408d53646a7c6%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636474599462421928&sdata=bvcDWlIJ%2F%2FWQG2axKeeqU6VDgG0PF0RJB3Nf990AKwg%3D&reserved=0>
> Re: Illegal Instruction error ... from Yves Revaz on 2007 ...
> <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwwwmpa.mpa-garching.mpg.de%2Fgadget%2Fgadget-list%2F0171.html&data=02%7C01%7Ccrs07%40mail.aub.edu%7Cacf303c7a9f54b2ba30408d53646a7c6%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636474599462421928&sdata=bvcDWlIJ%2F%2FWQG2axKeeqU6VDgG0PF0RJB3Nf990AKwg%3D&reserved=0>
> wwwmpa.mpa-garching.mpg.de
> <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwwwmpa.mpa-garching.mpg.de&data=02%7C01%7Ccrs07%40mail.aub.edu%7Cacf303c7a9f54b2ba30408d53646a7c6%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636474599462421928&sdata=jV7E2%2Fl6G9uWe1qXIlctliX0nOV7sClb4G1T38CUatg%3D&reserved=0>
> From: Yves Revaz <yves.revaz_at_obspm.fr
> <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fyves.revaz_at_obspm.fr&data=02%7C01%7Ccrs07%40mail.aub.edu%7Cacf303c7a9f54b2ba30408d53646a7c6%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636474599462421928&sdata=RoYqONK2nbHp9ZksEVcdtNOt%2FccOrUl6WMcdipjIW1Q%3D&reserved=0>>
> Date: Sun, 23 Sep 2007 21:46:58 +0200 Here are my notes concerning the
> installation of fftw for Gadget-2 :
>
> i configured fftw3 with --enable-typre-prefix, but it says
> configure: WARNING: unrecognized options: --enable-type-prefix
>
> i uncommented
> OPT += -DNOTYPEPREFIX_FFTW
>
>
> but i am still getting
>
> pm_periodic.c:16:30: fatal error: rfftw_mpi.h: No such file or directory
> #include <rfftw_mpi.h>
> ^
> compilation terminated.
>
> when compiling gadget2.
>
>
> thank you for your time
> ------------------------------
> *From:* Jared Coughlin <Jared.W.Coughlin.29_at_nd.edu>
> *Sent:* Monday, November 20, 2017 10:34:33 PM
> *To:* Gadget General Discussion
>
> *Subject:* Re: [gadget-list] error compiling gadget
> Hello! That error means that you have to compile fftw with the type
> prefixes on and choose the correct type (floating point or double) in the
> Makefile.
> http://www.fftw.org/fftw2_doc/fftw_6.html
> <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.fftw.org%2Ffftw2_doc%2Ffftw_6.html&data=02%7C01%7Ccrs07%40mail.aub.edu%7C9754aba657074cefbbb408d530567fe3%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636468070480979364&sdata=imPuBJNTwG8oKvPSB3NnO4ip07IHK%2BTw%2BydOxJTLb8o%3D&reserved=0>
>
> Hope that helps!
> -Jared
>
> On Mon, Nov 20, 2017 at 3:26 PM, Yves Revaz <yves.revaz_at_epfl.ch> wrote:
>
> On 20/11/17 21:18, Cynthia Saad (Student) wrote:
>
> right, i was just reading this. i added
> OPT += -DH5_USE_16_API
> to the makefile.
>
> then make gives me this
>
>
>
> pm_periodic.c:21:28: fatal error: srfftw_mpi.h: No such file or directory
>
>
> srfftw_mpi.h missing from the fftw lib.
>
> They are some detailed instructions on how to compile gadget-2 (and fftw)
> on mac os or linux here:
> https://obswww.unige.ch/lastro/conferences/sf2013/handson.cgi
> <https://emea01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fobswww.unige.ch%2Flastro%2Fconferences%2Fsf2013%2Fhandson.cgi&data=02%7C01%7Ccrs07%40mail.aub.edu%7C9754aba657074cefbbb408d530567fe3%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636468070480979364&sdata=xnGhHLUNv8Mt7wsCtXnFlF7CMDGzVGkwi%2Bh5YrU7s%2F8%3D&reserved=0>
>
> Cheers,
>
> yves
>
>
>
> #include <srfftw_mpi.h>
> ^
> compilation terminated.
> <builtin>: recipe for target 'pm_periodic.o' failed
> make: *** [pm_periodic.o] Error 1
>
>
> excuse my ignorance
> ------------------------------
> *From:* Yves Revaz <yves.revaz_at_epfl.ch> <yves.revaz_at_epfl.ch>
> *Sent:* Monday, November 20, 2017 10:14:01 PM
> *To:* gadget-list_at_MPA-Garching.MPG.DE
> *Subject:* Re: [gadget-list] error compiling gadget
>
>
> Dear Cynthia,
>
> It seems that you are linking with the wrong version of HDF5.
> See
>
> https://wwwmpa.mpa-garching.mpg.de/gadget/gadget-list/0432.html
> <https://emea01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwwwmpa.mpa-garching.mpg.de%2Fgadget%2Fgadget-list%2F0432.html&data=02%7C01%7Ccrs07%40mail.aub.edu%7C853708b765564ae8bc4108d530539995%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636468057989353575&sdata=9CKxsQq3YqQ7eOomN5XmhiIUFGCsuFSRCZLz4UmU%2BP0%3D&reserved=0>
>
> for more informations.
>
>
> Cheers,
>
> yves
>
> On 20/11/17 21:09, Cynthia Saad (Student) wrote:
>
> Dear all,
>
> I am new with GADGET and having trouble compiling it. make gives me this
> error and i can't figure out what to do. https://justpaste.it/1dqg0
> <https://emea01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fjustpaste.it%2F1dqg0&data=02%7C01%7Ccrs07%40mail.aub.edu%7C853708b765564ae8bc4108d530539995%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636468057989353575&sdata=VKWpZNkFf8VeoQkaIQzsKcx9ozL645ApM82wDVrCJgY%3D&reserved=0>
>
> what am i doing wrong?
>
> thank you for your much appreciated help,
>
> cynthia
>
>
> --
>
> ---------------------------------------------------------------------
> Dr. Yves Revaz
> Laboratory of Astrophysics
> Ecole Polytechnique Fédérale de Lausanne (EPFL)
> Observatoire de Sauverny Tel : +41 22 379 24 28 <+41%2022%20379%2024%2028>
> 51. Ch. des Maillettes Fax : +41 22 379 22 05 <+41%2022%20379%2022%2005>
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> ---------------------------------------------------------------------
>
>
> --
>
> ---------------------------------------------------------------------
> Dr. Yves Revaz
> Laboratory of Astrophysics
> Ecole Polytechnique Fédérale de Lausanne (EPFL)
> Observatoire de Sauverny Tel : +41 22 379 24 28 <+41%2022%20379%2024%2028>
> 51. Ch. des Maillettes Fax : +41 22 379 22 05 <+41%2022%20379%2022%2005>
> 1290 Sauverny e-mail : Yves.Revaz_at_epfl.ch
> SWITZERLAND Web : http://people.epfl.ch/yves.revaz <https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fpeople.epfl.ch%2Fyves.revaz&data=02%7C01%7Ccrs07%40mail.aub.edu%7C9754aba657074cefbbb408d530567fe3%7Cc7ba5b1a41b643e9a1206ff654ada137%7C1%7C0%7C636468070480979364&sdata=YmBtr2k4vNg9nIChxiLtRJDddeyUD73qJ%2Bqp2BgyYP0%3D&reserved=0>
> ---------------------------------------------------------------------
>
>
>
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Received on 2017-11-29 13:11:52

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