Execution problem in Ubuntu 18.04

[paolopiers]

Hi. I have downloaded the ubuntu-source-master zip file but I cannot run FreeFem++.
I cd into the binaries folder by typing
cd/freefem++-source-master/bin
and then I run
./FreeFem++
However, I am returned a message saying that the library libhdf5_serial.so.10 is missing. Could you please help me out?

[frederichecht]

Yes, I sorry, I do not where is this library. Best Regards, Frédéric Hecht.

…

---------------------------------------------------------------------------------------------- Laboratoire Jacques-Louis Lions, UPMC Sorbonne Universités BC187, 4 Place Jussieu, 75252 PARIS cedex 05, France Campus Jussieu, Barre 15-25, 3 etage Bureau 307 Projet Alpines , Inria de Paris, 2 rue Simone Iff Voie DQ12 75012 Paris tel: +33 1 44274411, mob: +33 6 62198986, fax: +33 1 44277200 mail & web: frederic.hecht@sorbonne-universite.fr https://www.ljll.math.upmc.fr/hecht/ software: FreeFem++ web site: http://www.freefem.org/ff++

Le 26 nov. 2018 à 02:38, paolopiers ***@***.***> a écrit : Hi. I have downloaded the ubuntu-source-master zip file but I cannot run FreeFem++. I cd into the binaries folder by typing cd/freefem++-source-master/bin and then I run ./FreeFem++ However, I am returned a message saying that the library libhdf5_serial.so.10 is missing. Could you please help me out? — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#52>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AFb2jFtgVXQonr39ZXPf4sTTsGvynImoks5uy0YGgaJpZM4YyL-8>.

[sgarnotel]

Hi, Sorry for that. This is an Ubuntu 16.04 release, I don't know if it works with Ubuntu 18.04. You could try to install libhdf5-serial (I do not know the exact package name) or link /usr/lib/libhdf5_serial.so.XX to usr/lib/libhdf5_serial.so.10. If that leads to a bug, you have to compile source. Best, Simon Garnotel

[Trophime]

Hi,
your best move is to check with which hdf5 library freefem++ has been compiled:

ldd ./Freefem++ | grep hdf5

then try to install the package that contains the library, possibly libhd5-dev (with the correspond version) on Ubuntu 18.4:

sudo apt install libhdf5-dev

Best

[paolopiers]

Hi and thanks a lot to everyone for answering.
I tried to link to link the library as Simon suggested and I also tried to install the library that Trophime suggested.
However, I keep up receiving the same error message about that missing library.

Best regards,

Paolo

[sgarnotel]

I try to build a .deb package as soon as possible

[Trophime]

@paolopiers could you send the output of ldd command?
By the way, I'm pretty sure that there is an up to date freefem++ package on Ubuntu 18.04.
Why not using it?

[Trophime]

May be this would do the trick (if your "still" want to use freefem++ latest version):
sudo ln -sf /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so usr/lib/libhdf5_serial.so.10

[frederichecht]

You can try this not very clean but I think it work, May be this would do the trick (if your "still" want to use freefem++ latest version): sudo ln -sf /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so usr/lib/libhdf5_serial.so.10 a name of lib change between two version Best Regards, Frédéric Hecht.

…

---------------------------------------------------------------------------------------------- Laboratoire Jacques-Louis Lions, UPMC Sorbonne Universités BC187, 4 Place Jussieu, 75252 PARIS cedex 05, France Campus Jussieu, Barre 15-25, 3 etage Bureau 307 Projet Alpines , Inria de Paris, 2 rue Simone Iff Voie DQ12 75012 Paris tel: +33 1 44274411, mob: +33 6 62198986, fax: +33 1 44277200 mail & web: frederic.hecht@sorbonne-universite.fr https://www.ljll.math.upmc.fr/hecht/ software: FreeFem++ web site: http://www.freefem.org/ff++

Le 26 nov. 2018 à 14:51, paolopiers ***@***.***> a écrit : Hi and thanks a lot to everyone for answering. I tried to link to link the library as Simon suggested and I also tried to install the library that Trophime suggested. However, I keep up receiving the same error message about that missing library. Best regards, Paolo — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#52 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AFb2jF2vP6YTxQ3nZevxSj76A7SXeG-Uks5uy_HJgaJpZM4YyL-8>.

[sgarnotel]

I just add a deb package

@paolopiers could you try it?

[paolopiers]

I have tried as @Trophime and @frederichecht suggested.
Linking the library DOES the trick and the program is successfully executed.
To recapitulate, this is how the problem related to the .zip bundle was solved:

1. Run sudo ln -sf /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so usr/lib/libhdf5_serial.so.10

2. This is the output of ./FreeFem++

 Error parameter: ./FreeFem++ , version :   3.610000 (date Wed Jun 20 19:07:59 CEST 2018) 64bits 
 Syntaxe = ./FreeFem++   [ -v verbosity ] [ -fglut filepath ] [ -glut command ] [ -nw] [ -f] filename  [SCRIPT-arguments]
        -v      verbosity : 0 -- 1000000 level of freefem output 
        -fglut  filepath  : the file name of save all plots (replot with ffglut command ) 
        -glut    command  : change  command  compatible with ffglut  
        -gff     command  : change  command  compatible with ffglut (with space quoting)
        -nowait           : nowait at the end on window   
        -wait             : wait at the end on window   
        -nw  or -ng       : no ffglut, ffmedit  (=> no graphics windows) 
        -wg               : with graphic   (=>  graphics windows) 
        -ne               : no edp script output
        -cd               : Change dir to script dir
        -jc               : just compile
        -cdtmp            : Change dir to tmp dir (for test)

 without     default ffglut : ffglut

I also tried to compile an example and everything works perfectly.
Thanks a lot everyone for your help.

@sgarnotel I have tried your .deb package (version 3.610002) and it works perfectly.
This is the output of FreeFem++ command

paolo@MADept:~/Downloads$ FreeFem++
 Error parameter: FreeFem++ , version :   3.610002 (date lundi 26 novembre 2018, 22:06:53 (UTC+0100)) 64bits 
 Syntaxe = FreeFem++   [ -v verbosity ] [ -fglut filepath ] [ -glut command ] [ -nw] [ -f] filename  [SCRIPT-arguments]
        -v      verbosity : 0 -- 1000000 level of freefem output 
        -fglut  filepath  : the file name of save all plots (replot with ffglut command ) 
        -glut    command  : change  command  compatible with ffglut  
        -gff     command  : change  command  compatible with ffglut (with space quoting)
        -nowait           : nowait at the end on window   
        -wait             : wait at the end on window   
        -nw  or -ng       : no ffglut, ffmedit  (=> no graphics windows) 
        -wg               : with graphic   (=>  graphics windows) 
        -ne               : no edp script output
        -cd               : Change dir to script dir
        -jc               : just compile
        -cdtmp            : Change dir to tmp dir (for test)

 with        default ffglut : ffglut

I tried to compile a basic example (the same as above) and I got the desired output. Thank you very much for your help!

[sgarnotel]

Thank you for your feedback. I close this issue as it's solved