PETSc Example cannot be run on macOS 14.5 due to Library not loaded: libX11.6.dylib

[fahim831]

I am trying to run the simplest PETSc example. However, on the line where I call petsc.petsc_dae_by_time_element, I get an error message. I have tried running brew install xquartz --cask and restarting my computer as well but keep getting the below error message:

2024-05-29 16:38:58 [INFO] idaes.solve.petsc-dae: dyld[3865]: Library not loaded: /usr/local/opt/libx11/lib/libX11.6.dylib
2024-05-29 16:38:58 [INFO] idaes.solve.petsc-dae:   Referenced from: <F588438D-238F-3459-8B4A-7CC7BCFD83E8> /Users/$USER/.idaes/bin/petsc
2024-05-29 16:38:58 [INFO] idaes.solve.petsc-dae:   Reason: tried: '/libX11.6.dylib' (no such file), '/Users/$USER/.idaes/bin/libX11.6.dylib' (no such file), '/usr/local/opt/libx11/lib/libX11.6.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OS/usr/local/opt/libx11/lib/libX11.6.dylib' (no such file), '/usr/local/opt/libx11/lib/libX11.6.dylib' (no such file), '/usr/local/lib/libX11.6.dylib' (no such file), '/usr/lib/libX11.6.dylib' (no such file, not in dyld cache)

By the way, I can solve DAEs with pyomo.dae outside of IDAES right now.

[andrewlee94]

In order to help, we will need to know more about the system you are working on.

Looking at the error message it appears that there is a missing .dylib file, so you may need to install that separately.

[fahim831]

The system is macOS Sonoma 14.5.

How should I install that file separately? I installed petsc using this from the instructions:
daes get-extensions --extra petsc

[andrewlee94]

Unfortunately we don't have a lot of people who use Macs. @eslickj @adowling2 @Robbybp @bknueven Would one of you be able to provide any insight on this?

[Robbybp]

Have you tried brew install libx11? There seems to be a homebrew formula for this library.

[Robbybp]

I haven't seen this before, but also haven't updated to MacOS 14. Have you tried this on MacOS 13?

[lbianchi-lbl]

This is just a guess from my side, but could the machine architecture (ARM/Apple Silicon vs Intel) be relevant here? As of today, I'm not sure of the extent to which macOS is supported by the various subcomponents of the IDAES extensions.

[fahim831]

I just used brew install libx11 and restarted the terminal but it didn't help. I get the same error.

I don't think it's possible to revert my system back to 13 as it came with 14 and I didn't do the update myself.

@lbianchi-lbl I don't know if machine architecture is the issue but this does have an M2 chip so you may be onto something. Is there anything I can do to check?

[Robbybp]

If you have the the x11 library, but petsc can't find it, maybe you need to update DYLD_LIBRARY_PATH? I can try to reproduce this (I have a MacOS 14 machine at home), but may not get around to it for a while.

[bknueven]

I do have macOS 14.5 with an ARM chip. But I cannot reproduce this issue. I have attached the output of conda list in case it is useful.
watertap_env.log

EDIT: Further, I cannot find the missing library in the places the error message says it looks.

[fahim831]

@Robbybp Thank you, I will see how I can update that path and to what, after I try installing some of the packages in the other comment.

@bknueven Thank you. Maybe I will try installing the packages starting with lib and see if the required library gets installed among those.

[adowling2]

I've had to use LD PATH to get solver executables to work when not doing import idaes on an M1-Mac.

[fahim831]

After searching the issue a bit more, adding the DYLD_LIBRARY_PATH seemed to be a risky thing to do. Since I only needed that one file, I went to /opt/X11/lib, where the libX11.6.dylib file was, and manually just copied it to /usr/local/opt/libx11/lib based on the error message's list of places it looked at before returning the error. It works now. Thanks, everyone.

[dangunter]

Maybe adding the flag mentioned here to the configuration of the build will help:
https://lists.mcs.anl.gov/pipermail/petsc-users/2020-April/040728.html

[eslickj]

I think you can use install_name_tool to change where an executable looks for a library. Then you don't need to set DYLD_LIBRARY_PATH. I don’t remember PETSc linking X11. If there is a new build, I wonder in configure picked up X11 just because it’s there on whatever its being built on.

[eslickj]

idaes-ext/scripts/compile_solvers.sh

Line 472 in 67ab6e4

if [ ${osname} = "darwin" ]; then

That’s the section that copies the dependencies from homebrew. X11 isn’t there. And I don’t think it was previously a dependency, but i guess license permitting it could be added.

Get-extensions has a —release option. You could try to go back to previous releases to see if they work.

[adowling2]

@fahim831 another option to try instead of copying the file is to make a symbolic link. (I'm posting here in case someone in the future comes across this issue.)