MTEX 6.1.0 installation on Linux

[JQFonseca]

I am having trouble running MTEX on Linux. I have tried 3 different boxes (Fedora and UBUNTU) with slightly different, but similar results. In cases this seems to be due to the mex files not running properly. I have tried the commands in mtex to recompile them (mex_install) but this fails for jcvvoronoi and doesn't seem to recompile nfftmex, which is what actually is causing the crashes at the moment. Browsing through the forum, I see several references to "mex tricks" and workarounds, but couldn't find them. Can anyone point me to the location of some of these tricks so I can try them out? Thanks

[lfgmorales]

Hi João Yesterday I installed mtex on Linux Ubuntu (Gnome) with matlab 2025b and worked fine, can you share the errors? The tricks that are you talking about are more related to Mac OS, but even those problems are mostly solved now in the new releases, but if you want you can have a look here https://mtex-toolbox.github.io/installation cheers Luiz

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On 18 Dec 2025, at 14:56, João Quinta da Fonseca ***@***.***> wrote: I am having trouble running MTEX on Linux. I have tried 3 different boxes (Fedora and UBUNTU) with slightly different, but similar results. In cases this seems to be due to the mex files not running properly. I have tried the commands in mtex to recompile them (mex_install) but this fails for jcvvoronoi and doesn't seem to recompile nfftmex, which is what actually is causing the crashes at the moment. Browsing through the forum, I see several references to "mex tricks" and workarounds, but couldn't find them. Can anyone point me to the location of some of these tricks so I can try them out? Thanks — Reply to this email directly, view it on GitHub <#2484>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ALE5IN36NQZ222XPRIHIBD34CKW7XAVCNFSM6AAAAACPN24VQOVHI2DSMVQWIX3LMV43ERDJONRXK43TNFXW4OZZGI3DANBYG4>. You are receiving this because you are subscribed to this thread.

[JQFonseca]

Thanks, Luiz. I get the furthest with Ubuntu, it installs OK without errors, but when I to use calcDensity for example I get: Invalid MEX-file '/home/mclsvjq2/mtex-6.1.0/mex/wignerTrafoAdjointmex.mexa64':/lib/x86_64-linux-gnu/libgomp.so.1: cannot allocate memory in static TLS block

[lfgmorales]

does the mtex installation goes through fine or do you have errors? you could try to compile the mex files again, navigate to the mtex folder inside matlab and do mex -setup mex -setup C++ for example then to startup_mtex again and see if that works cheers Luiz

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On 18 Dec 2025, at 17:04, João Quinta da Fonseca ***@***.***> wrote: Thanks, Luiz. I get the furthest with Ubuntu, it installs OK without errors, but when I to use calcDensity for example I get: Invalid MEX-file '/home/mclsvjq2/mtex-6.1.0/mex/wignerTrafoAdjointmex.mexa64':/lib/x86_64-linux-gnu/libgomp.so.1: cannot allocate memory in static TLS block — Reply to this email directly, view it on GitHub <#2484 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ALE5IN3SDKR4X4MNSDMQ2QL4CLF7VAVCNFSM6AAAAACPN24VQOVHI2DSMVQWIX3LMV43URDJONRXK43TNFXW4Q3PNVWWK3TUHMYTKMRZGEYDEMY>. You are receiving this because you commented.

[JQFonseca]

No installation seems to happen OK, but if I run check_mex I get the following:

Mex files are compiled binaries that are used within MTEX to speed up time critical computations. As mex files are specific to different operating 
systems it is not so easy for us to provide working binaries for different types of systems.
 checking: insidepoly_dblengine.mexa64 ok
 checking: insidepoly_sglengine.mexa64 ok
 checking: jcvoronoi_mex.mexa64 ok
 checking: EulerCyclesC.mexa64 ok
 checking: S1Grid_find.mexa64 ok
 checking: S1Grid_find_region.mexa64 ok
 checking: S2Grid_find.mexa64 ok
 checking: S2Grid_find_region.mexa64 ok
 checking: SO3Grid_dist_region.mexa64 ok
 checking: SO3Grid_find.mexa64 ok
 checking: SO3Grid_find_region.mexa64 ok
 checking: nfftmex.mexa64 ok
 checking: fptmex.mexa64 ok
 checking: nfsftmex.mexa64 failed

  --> [Invalid MEX-file '/home/mclsvjq2/mtex-6.1.0/mex/nfsftmex.mexa64': /home/mclsvjq2/mtex-6.1.0/mex/nfsftmex.mexa64: cannot allocate memory in static TLS block](matlab: rethrow(pullTemp(5)))
 checking: nfsoftmex.mexa64 failed

  --> [Invalid MEX-file '/home/mclsvjq2/mtex-6.1.0/mex/nfsoftmex.mexa64': /home/mclsvjq2/mtex-6.1.0/mex/nfsoftmex.mexa64: cannot allocate memory in static TLS block](matlab: rethrow(pullTemp(6)))
 checking: wignerTrafoAdjointmex.mexa64 failed

  --> [Invalid MEX-file '/home/mclsvjq2/mtex-6.1.0/mex/wignerTrafoAdjointmex.mexa64': /lib/x86_64-linux-gnu/libgomp.so.1: cannot allocate memory in static TLS block](matlab: rethrow(pullTemp(7)))
 checking: wignerTrafomex.mexa64 failed

  --> [Invalid MEX-file '/home/mclsvjq2/mtex-6.1.0/mex/wignerTrafoAdjointmex.mexa64': /lib/x86_64-linux-gnu/libgomp.so.1: cannot allocate memory in static TLS block](matlab: rethrow(pullTemp(8)))
 checking: numericalSaddlepointWithDerivatives.mexa64 ok
 checking: SHTextractormex.mexa64 ok
Not all mex files are running. You might want to call
  [mex_install('force')](matlab: mex_install('force'))
to compile the mex files yourself.`

Doing 'mex_install' doesn't seem to help

[kilir]

Hi,
a) so did you try mex_install('force')?
b) How do you start Matlab? Just taking $MATLABPATH/bin/matlab or do you LD_PRELOAD some system libraries?
Cheers,
Rüdiger

[JQFonseca]

Hi Rüdiger,

a) so did you try mex_install('force')?

I did and I have different results on Ubuntu and fedora. On Ubuntu it seems to work but then when I run check_mex I get the message above. On fedora, it compiled but it didn't seem to compile the nfftmex file, it seemed to download it from somewhere. Then when I try check_mex I get a core dump and the trace says it was caused by nfftmex.mexa64

b) How do you start Matlab? Just taking $MATLABPATH/bin/matlab or do you LD_PRELOAD some system libraries?

I have tried just Matlab and with preloading /usr/lib64/libstdc++.so.6 ( /usr/lib/x86_64-linux-gnu/libstdc++.so.6 on ubuntu), no difference. Everyone I have spoken to has had no problems installing mtex, and I can run it from a container someone else has installed it in. But directly on my machines I am struggling. I will keep plugging away, thanks for trying to help. João

[kilir]

Have you tried to LD_PRELOAD libgomp as well?

[JQFonseca]

No but that's a good shout. I will try. João

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On Mon, 2025-12-22 at 02:16 -0800, Rüdiger Kilian wrote: Have you tried to LD_PRELOAD libgomp as well? — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you authored the thread.Message ID: <mtex-toolbox/mtex/repo- ***@***.***>

[ralfHielscher]

Hi João,
the point is that libnfsoft, libnfft and libnfsft are part of the nfft library. MTEX includes binaries of this library for convenience but not the source code. Hence mex_install will not compile these binaries. The correct way would be to download and compile the binaries from the NFFT website.

I hope this helps,
Ralf.