Error: GLIBC_2.36' not found

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Miguel Angel Salinas Melgoza

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Jun 25, 2025, 3:41:41 PM6/25/25
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Hello,

I'm having this issue:
The problem is that the version of the inla.mkl executable installed by INLA was compiled with GLIBC 2.38 or higher, but my system (Ubuntu) has an older version (probably 2.35 or 2.36).

Thank you very much in advance
Miguel

> #correr INLA con:stack_full > result <- inla(formula_inla, + data = inla.stack.data(stack_full, spde = spde), + family = "poisson", + control.predictor = list(A = inla.stack.A(stack_full), compute = TRUE, link = 1), + control.inla = list(int.strategy = "eb"), + control.compute = list(waic = TRUE), + control.mode = list(restart = TRUE)) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libm.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libRmath.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libm.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgsl.so.28) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libmetis.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libhwloc.so.15) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libnuma.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libcrypto.so.3) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libltdl.so.7) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libm.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libomp.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.36' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libreadline.so.8) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgomp.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.36' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libcap.so.2) *** inla.core.safe: The inla program failed, but will rerun in case better initial values may help. try=1/1 /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libm.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libRmath.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libm.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgsl.so.28) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libmetis.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libhwloc.so.15) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libnuma.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libcrypto.so.3) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libltdl.so.7) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libm.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libomp.so.5) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.36' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libreadline.so.8) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libgomp.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.36' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.38' not found (required by /home/miguels/R/x86_64-pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/libcap.so.2)
Error en inla.core.safe(formula = formula, family = family, contrasts = contrasts, : The inla-program exited with an error. Unless you interupted it yourself, please rerun with verbose=TRUE and check the output carefully. If this does not help, please contact the developers at <he...@r-inla.org>. The inla program failed and the maximum number of tries has been reached.



>

Gianluca Baio

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Jul 1, 2025, 5:35:45 AM7/1/25
to R-inla discussion group
Hi all,
I'm encountering this issue too --- my issue is that GLIBC_2.38 is not found, but I think it's the same problem.... 

I'm on Ubuntu 22.04 and ldd --version gives
ldd (Ubuntu GLIBC 2.35-0ubuntu3.10) 2.35

If I try and install an older version of INLA, then it complains about fmesher not exporting object ‘fm_identical_CRS’.

> R.version _ platform x86_64-pc-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status major 4 minor 5.1 year 2025 month 06 day 13 svn rev 88306 language R version.string R version 4.5.1 (2025-06-13) nickname Great Square Root

Is there an easy fix to this?

Thanks,
Gianluca

Helpdesk (Haavard Rue)

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Jul 1, 2025, 5:46:30 AM7/1/25
to Gianluca Baio, R-inla discussion group

run

inla.binary.install()

and chose the Ubuntu22 binaries
> > > #correr INLA con:stack_full> result <- inla(formula_inla,+ data =
> > > inla.stack.data(stack_full, spde = spde),+ family = "poisson",+
> > > control.predictor = list(A = inla.stack.A(stack_full), compute = TRUE,
> > > link = 1),+ control.inla = list(int.strategy = "eb"),+ control.compute =
> > > list(waic = TRUE),+ control.mode = list(restart =
> > > TRUE))/home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libm.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libRmath.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libm.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgsl.so.28) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libmetis.so.5) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libhwloc.so.15) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libnuma.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libcrypto.so.3) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libltdl.so.7) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libm.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libomp.so.5) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libreadline.so.8) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgomp.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libcap.so.2) *** inla.core.safe: The inla
> > > program failed, but will rerun in case better initial values may help.
> > > try=1/1 /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libm.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libRmath.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libm.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgsl.so.28) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libmetis.so.5) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libhwloc.so.15) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libnuma.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libcrypto.so.3) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libltdl.so.7) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libm.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgfortran.so.5) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libomp.so.5) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libreadline.so.8) /home/miguels/R/x86_64-
> > > pc-linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libgomp.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libudev.so.1) /home/miguels/R/x86_64-pc-
> > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-linux-
> > > gnu/libc.so.6: version `GLIBC_2.38' not found (required by
> > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > library/4.5/INLA/bin/linux/64bit/libcap.so.2)
> >  Show Traceback
> >  Rerun with Debug
> > Error en inla.core.safe(formula = formula, family = family, contrasts =
> > contrasts, :
> >   The inla-program exited with an error. Unless you interupted it yourself,
> > please rerun with verbose=TRUE and check the output carefully.
> >   If this does not help, please contact the developers at
> > <he...@r-inla.org>.
> > The inla program failed and the maximum number of tries has been reached.
> >
> >
> >
> > >
> --
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> .

--
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Message has been deleted

Gianluca Baio

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Jul 4, 2025, 7:32:01 AM7/4/25
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Brilliant! That works.
Thank you, Haavard!
G

changchang Shi (畅)

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Jul 8, 2025, 12:56:27 AM7/8/25
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Hi, similar problem with above, but I‘m on CentOS7, with ldd (GNU libc) 2.17.  

NAME="CentOS Linux"
VERSION="7 (Core)"
ID="centos"
ID_LIKE="rhel fedora"
VERSION_ID="7"
PRETTY_NAME="CentOS Linux 7 (Core)"

 Available alternatives:
         Alternative 1  is  ./Fedora Linux-42 (Workstation Edition)/Version_25.06.22-1/64bit.tgz
         Alternative 2  is  ./Rocky Linux-8.10 (Green Obsidian)/Version_25.06.22-1/64bit.tgz
         Alternative 3  is  ./Rocky Linux-9.6 (Blue Onyx)/Version_25.06.22-1/64bit.tgz
         Alternative 4  is  ./Ubuntu-22.04.5 LTS (Jammy Jellyfish)/Version_25.06.22-1/64bit.tgz
         Alternative 5  is  ./Ubuntu-24.10 (Oracular Oriole)/Version_25.06.22-1/64bit.tgz
  Chose alternative [1:5]
        1:

It seems that there is no binary for CentOS7? How could I fix the issue? 

Best,
chang

Havard Rue

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Jul 8, 2025, 1:00:08 AM7/8/25
to R-inla discussion group, changchang Shi (畅)
 Centos7 was removed a while ago as a build system as it is no longer supported. Still running it????
 
CentOS 7 reached its end-of-life (EOL) on June 30, 2024. This means the CentOS project no longer provides updates, security patches, or support for CentOS 7. Users are strongly advised to migrate to a newer operating system to maintain security and receive ongoing support. 


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Helpdesk (Haavard Rue)

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Jul 9, 2025, 3:48:12 AM7/9/25
to changchang Shi (畅), R-inla discussion group

CentOS7 is there now with version INLA_25.06.22-1

do

library(INLA)
inla.binary.install()

changchang Shi (畅)

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Jul 11, 2025, 4:26:11 AM7/11/25
to R-inla discussion group
 I'm quite new to working with HPC systems, and from what I've seen so far, it seems I'll need to contact the university's system administrator to move forward....
Thank you for your guidance!!

Best,
Chang

chang Chang (chang)

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Jul 11, 2025, 4:26:11 AM7/11/25
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Thank you!! 
However, there is new error this time: `CXXABI_1.3.8' not found, `CXXABI_1.3.9' not found, `GLIBCXX_3.4.30' not found 
Details Pasted below.

Best,
Chang

> inla.binary.install()
* Looking for Version_25.06.22-1 and os='<choose interactively>'
  Available alternatives:
         Alternative 1  is  ./CentOS Linux-7 (Core)/Version_25.06.22-1/64bit.tgz
         Alternative 2  is  ./Fedora Linux-42 (Workstation Edition)/Version_25.06.22-1/64bit.tgz
         Alternative 3  is  ./Rocky Linux-8.10 (Green Obsidian)/Version_25.06.22-1/64bit.tgz
         Alternative 4  is  ./Rocky Linux-9.6 (Blue Onyx)/Version_25.06.22-1/64bit.tgz
         Alternative 5  is  ./Ubuntu-22.04.5 LTS (Jammy Jellyfish)/Version_25.06.22-1/64bit.tgz
         Alternative 6  is  ./Ubuntu-24.10 (Oracular Oriole)/Version_25.06.22-1/64bit.tgz
  Chose alternative [1:6]
        1: 1
* Install file [https://inla.r-inla-download.org/Linux-builds/./CentOS Linux-7 (Core)/Version_25.06.22-1/64bit.tgz]
* INLA is installed in [/home/224030204/R/r433_env/lib/R/library/INLA]
* Checking for write access...
* Download file, please wait...
* md5-checksum [87b2034b178bcab2550886649b68e6ca] OK.
* Rename old 64bit directory...
* Unpack file...
* Remove temporary file...
* Remove old 64bit directory...
* Done!
>
n = 100; a = 1; b = 1; tau = 100
z = rnorm(n)
eta = a + b*z

scale = exp(rnorm(n))
prec = scale*tau
y = rnorm(n, mean = eta, sd = 1/sqrt(prec))

data = list(y=y, z=z)
formula = y ~ 1+z
result = inla(formula, family = "gaussian", data = data)

/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `GLIBCXX_3.4.30' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)


 *** inla.core.safe:  The inla program failed, but will rerun in case better initial values may help. try=1/1
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `GLIBCXX_3.4.30' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
Error in inla.core.safe(formula = formula, family = family, contrasts = contrasts,  :

  The inla-program exited with an error. Unless you interupted it yourself, please rerun with verbose=TRUE and check the output carefully.
  If this does not help, please contact the developers at <he...@r-inla.org>.
The inla program failed and the maximum number of tries has been reached.

Helpdesk (Haavard Rue)

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Jul 11, 2025, 4:58:26 AM7/11/25
to chang Chang (chang), R-inla discussion group

your centos7 system is not even up-to-date with the most recent CentOS7...

I removed the libR support (so no 'rgeneric' or 'rprior')

can you try again now?



On Wed, 2025-07-09 at 20:32 -0700, chang Chang (chang) wrote:
> Thank you!! 
> However, there is new error this time: `CXXABI_1.3.8' not found,
> `CXXABI_1.3.9' not found, `GLIBCXX_3.4.30' not found 
> Details Pasted below.
>
> Best,
> Chang
>
> > inla.binary.install()
> * Looking for Version_25.06.22-1 and os='<choose interactively>'
>   Available alternatives:
>          Alternative 1  is  ./CentOS Linux-7 (Core)/Version_25.06.22-
> 1/64bit.tgz
>          Alternative 2  is  ./Fedora Linux-42 (Workstation
> Edition)/Version_25.06.22-1/64bit.tgz
>          Alternative 3  is  ./Rocky Linux-8.10 (Green
> Obsidian)/Version_25.06.22-1/64bit.tgz
>          Alternative 4  is  ./Rocky Linux-9.6 (Blue Onyx)/Version_25.06.22-
> 1/64bit.tgz
>          Alternative 5  is  ./Ubuntu-22.04.5 LTS (Jammy
> Jellyfish)/Version_25.06.22-1/64bit.tgz
>          Alternative 6  is  ./Ubuntu-24.10 (Oracular Oriole)/Version_25.06.22-
> 1/64bit.tgz
> > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl) /home/miguels/R/x86_64-
> > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl) /home/miguels/R/x86_64-
> > > > > > > pc-
> > > > > > > linux-gnu-library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > linux-

chang Chang (chang)

unread,
Jul 12, 2025, 3:20:23 AM7/12/25
to R-inla discussion group
Hi, So kind of you, Haavard!!
But it still reports the same error as pasted below?
(Ah, certainly, our university's system for CPU-based Compute Cluster should be updated !!!
They said they would update in September...)
I truly appreciate your help with this !!!

Best,
Ch

result = inla(formula, family = "gaussian", data = data)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `GLIBCXX_3.4.30' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)


 *** inla.core.safe:  The inla program failed, but will rerun in case better initial values may help. try=1/1
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `GLIBCXX_3.4.30' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)

Error in inla.core.safe(formula = formula, family = family, contrasts = contrasts,  :
  The inla-program exited with an error. Unless you interupted it yourself, please rerun with verbose=TRUE and check the output carefully.
  If this does not help, please contact the developers at <he...@r-inla.org>.
The inla program failed and the maximum number of tries has been reached.

Havard Rue

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Jul 12, 2025, 3:23:22 AM7/12/25
to R-inla discussion group, chang Chang (chang)
You have run
 
inla.binary.install()
 
again?

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Håvard Rue 
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chang Chang (chang)

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Jul 12, 2025, 5:09:00 AM7/12/25
to R-inla discussion group
for sure, again~~~ see below again
Oh, where would go wrong?

Best,
Chang

> inla.binary.install()
* Looking for Version_25.06.22-1 and os='<choose interactively>'
  Available alternatives:
         Alternative 1  is  ./CentOS Linux-7 (Core)/Version_25.06.22-1/64bit.tgz
         Alternative 2  is  ./Fedora Linux-42 (Workstation Edition)/Version_25.06.22-1/64bit.tgz
         Alternative 3  is  ./Rocky Linux-8.10 (Green Obsidian)/Version_25.06.22-1/64bit.tgz
         Alternative 4  is  ./Rocky Linux-9.6 (Blue Onyx)/Version_25.06.22-1/64bit.tgz
         Alternative 5  is  ./Ubuntu-22.04.5 LTS (Jammy Jellyfish)/Version_25.06.22-1/64bit.tgz
         Alternative 6  is  ./Ubuntu-24.10 (Oracular Oriole)/Version_25.06.22-1/64bit.tgz
  Chose alternative [1:6]
        1: 1
* Install file [https://inla.r-inla-download.org/Linux-builds/./CentOS Linux-7 (Core)/Version_25.06.22-1/64bit.tgz]
* INLA is installed in [/home/224030204/R/r433_env/lib/R/library/INLA]
* Checking for write access...
* Download file, please wait...
* md5-checksum [6b1e8125d90599933906a6e2b9abb6b2] OK.

* Rename old 64bit directory...
* Unpack file...
* Remove temporary file...
* Remove old 64bit directory...
* Done!
>
n = 100; a = 1; b = 1; tau = 100
z = rnorm(n)
eta = a + b*z

scale = exp(rnorm(n))
prec = scale*tau
y = rnorm(n, mean = eta, sd = 1/sqrt(prec))

data = list(y=y, z=z)
formula = y ~ 1+z
result = inla(formula, family = "gaussian", data = data)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `GLIBCXX_3.4.30' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)

 *** inla.core.safe:  The inla program failed, but will rerun in case better initial values may help. try=1/1
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `GLIBCXX_3.4.30' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
/home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl: /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstdc++.so.6: version `CXXABI_1.3.9' not found (required by /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
Error in inla.core.safe(formula = formula, family = family, contrasts = contrasts,  :
  The inla-program exited with an error. Unless you interupted it yourself, please rerun with verbose=TRUE and check the output carefully.
  If this does not help, please contact the developers at <he...@r-inla.org>.
The inla program failed and the maximum number of tries has been reached.

Helpdesk (Haavard Rue)

unread,
Jul 12, 2025, 5:38:30 AM7/12/25
to chang Chang (chang), R-inla discussion group

can you try to do

rm /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/libR.so



On Sat, 2025-07-12 at 02:08 -0700, chang Chang (chang) wrote:
> for sure, again~~~ see below again
> Oh, where would go wrong?
>
> Best,
> Chang
>
> > inla.binary.install()
> * Looking for Version_25.06.22-1 and os='<choose interactively>'
>   Available alternatives:
>          Alternative 1  is  ./CentOS Linux-7 (Core)/Version_25.06.22-
> 1/64bit.tgz
>          Alternative 2  is  ./Fedora Linux-42 (Workstation
> Edition)/Version_25.06.22-1/64bit.tgz
>          Alternative 3  is  ./Rocky Linux-8.10 (Green
> Obsidian)/Version_25.06.22-1/64bit.tgz
>          Alternative 4  is  ./Rocky Linux-9.6 (Blue Onyx)/Version_25.06.22-
> 1/64bit.tgz
>          Alternative 5  is  ./Ubuntu-22.04.5 LTS (Jammy
> Jellyfish)/Version_25.06.22-1/64bit.tgz
>          Alternative 6  is  ./Ubuntu-24.10 (Oracular Oriole)/Version_25.06.22-
> 1/64bit.tgz
>   Chose alternative [1:6]
>         1: 1
> * Install file [https://inla.r-inla-download.org/Linux-builds/./CentOS Linux-7
> (Core)/Version_25.06.22-1/64bit.tgz]
> * INLA is installed in [/home/224030204/R/r433_env/lib/R/library/INLA]
> * Checking for write access...
> * Download file, please wait...
> * md5-checksum [6b1e8125d90599933906a6e2b9abb6b2] OK.
> * Rename old 64bit directory...
> * Unpack file...
> * Remove temporary file...
> * Remove old 64bit directory...
> * Done!
> >
> n = 100; a = 1; b = 1; tau = 100
> z = rnorm(n)
> eta = a + b*z
>
> scale = exp(rnorm(n))
> prec = scale*tau
> y = rnorm(n, mean = eta, sd = 1/sqrt(prec))
>
> data = list(y=y, z=z)
> formula = y ~ 1+z
> result = inla(formula, family = "gaussian", data = data)
> /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> 在2025年7月12日星期六 UTC+8 15:23:22<Havard Rue> 写道：
> >
> >
> >
> >
> > You have run
> >  
> > inla.binary.install()
> >  
> > again?
> >
> > -- 
> > Håvard Rue 
> > hr...@r-inla.org
> > On 12 Jul 2025 at 09:20 +0200, chang Chang (chang) <ys81...@gmail.com>,
> > wrote:
> > > Hi, So kind of you, Haavard!!
> > > But it still reports the same error as pasted below?
> > > (Ah, certainly, our university's system for CPU-based Compute Cluster
> > > should be updated !!!
> > > They said they would update in September...)
> > > I truly appreciate your help with this !!!
> > >
> > > Best,
> > > Ch
> > >
> > > result = inla(formula, family = "gaussian", data = data)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.9' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `GLIBCXX_3.4.30' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.9' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
> > >
> > >  *** inla.core.safe:  The inla program failed, but will rerun in case
> > > better initial values may help. try=1/1
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.9' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `GLIBCXX_3.4.30' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> > > > > > > > > > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> > > > > > > > > > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> https://groups.google.com/d/msgid/r-inla-discussion-group/e6b757d0-9a43-47ef-9790-f3109984c29bn%40googlegroups.com

Håvard Rue

unread,
Jul 12, 2025, 5:59:01 AM7/12/25
to chang Chang (chang), R-inla discussion group

I found the issue. please try inla.binary.install() again




On Sat, 2025-07-12 at 02:08 -0700, chang Chang (chang) wrote:
> for sure, again~~~ see below again
> Oh, where would go wrong?
>
> Best,
> Chang
>
> > inla.binary.install()
> * Looking for Version_25.06.22-1 and os='<choose interactively>'
>   Available alternatives:
>          Alternative 1  is  ./CentOS Linux-7 (Core)/Version_25.06.22-
> 1/64bit.tgz
>          Alternative 2  is  ./Fedora Linux-42 (Workstation
> Edition)/Version_25.06.22-1/64bit.tgz
>          Alternative 3  is  ./Rocky Linux-8.10 (Green
> Obsidian)/Version_25.06.22-1/64bit.tgz
>          Alternative 4  is  ./Rocky Linux-9.6 (Blue Onyx)/Version_25.06.22-
> 1/64bit.tgz
>          Alternative 5  is  ./Ubuntu-22.04.5 LTS (Jammy
> Jellyfish)/Version_25.06.22-1/64bit.tgz
>          Alternative 6  is  ./Ubuntu-24.10 (Oracular Oriole)/Version_25.06.22-
> 1/64bit.tgz
>   Chose alternative [1:6]
>         1: 1
> * Install file [https://inla.r-inla-download.org/Linux-builds/./CentOS Linux-7
> (Core)/Version_25.06.22-1/64bit.tgz]
> * INLA is installed in [/home/224030204/R/r433_env/lib/R/library/INLA]
> * Checking for write access...
> * Download file, please wait...
> * md5-checksum [6b1e8125d90599933906a6e2b9abb6b2] OK.
> * Rename old 64bit directory...
> * Unpack file...
> * Remove temporary file...
> * Remove old 64bit directory...
> * Done!
> >
> n = 100; a = 1; b = 1; tau = 100
> z = rnorm(n)
> eta = a + b*z
>
> scale = exp(rnorm(n))
> prec = scale*tau
> y = rnorm(n, mean = eta, sd = 1/sqrt(prec))
>
> data = list(y=y, z=z)
> formula = y ~ 1+z
> result = inla(formula, family = "gaussian", data = data)
> /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> 在2025年7月12日星期六 UTC+8 15:23:22<Havard Rue> 写道：
> >
> >
> >
> >
> > You have run
> >  
> > inla.binary.install()
> >  
> > again?
> >
> > -- 
> > Håvard Rue 
> > hr...@r-inla.org
> > On 12 Jul 2025 at 09:20 +0200, chang Chang (chang) <ys81...@gmail.com>,
> > wrote:
> > > Hi, So kind of you, Haavard!!
> > > But it still reports the same error as pasted below?
> > > (Ah, certainly, our university's system for CPU-based Compute Cluster
> > > should be updated !!!
> > > They said they would update in September...)
> > > I truly appreciate your help with this !!!
> > >
> > > Best,
> > > Ch
> > >
> > > result = inla(formula, family = "gaussian", data = data)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.9' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `GLIBCXX_3.4.30' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.9' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
> > >
> > >  *** inla.core.safe:  The inla program failed, but will rerun in case
> > > better initial values may help. try=1/1
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.9' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `GLIBCXX_3.4.30' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicuuc.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > c++.so.6: version `CXXABI_1.3.8' not found (required by
> > > /home/224030204/R/r433_env/lib/R/lib/../../libicui18n.so.75)
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/inla.mkl:
> > > /home/224030204/R/r433_env/lib/R/library/INLA/bin/linux/64bit/first/libstd
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> > > > > > > > > > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> > > > > > > > > > > gnu/libc.so.6: version `GLIBC_2.36' not found (required by
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/first/libstdc++.so.6)
> > > > > > > > > > > /home/miguels/R/x86_64-pc-linux-gnu-
> > > > > > > > > > > library/4.5/INLA/bin/linux/64bit/inla.mkl: /lib/x86_64-
> > > > > > > > > > > linux-
> https://groups.google.com/d/msgid/r-inla-discussion-group/e6b757d0-9a43-47ef-9790-f3109984c29bn%40googlegroups.com
> .

--
Håvard Rue
hr...@r-inla.org

chang Chang (chang)

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Jul 12, 2025, 9:37:10 AM7/12/25
to R-inla discussion group
Problem solved! 
You are so awesome!!! 
Thank you sooooooo much!  

Best,
Chang
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