Running GLM under macOS Sierra

[lawinslow]

It seems restrictions have gotten tighter on macOS Sierra. Having trouble running GLM through GLMr on Sierra. Getting dyld: Library not loaded error messages.

I have tried altering Gatekeeper settings via instructions here. No luck yet. I think it might be an issue with our use of DYLD_FALLBACK_LIBRARY_PATH, but I am not 100% certain.

Has anyone run into this? Any luck on dealing with this issue?

[lawinslow]

Update: I have gotten GLM from the website working by manually installing intel fortran redistributable and NCDF libraries manually and pointing at them using DYLD_LIBRARY_PATH. So it might be a library issue. GLMr may not have the right set of libraries included to run on sierra (older libraries or something).

[cayelan]

I've been able to reproduce the GLMr failure on about ~20 OS X machines, all Sierras or El Cap. The previous work-around by disabling SIP is no longer working- do you have any suggestions for how to get around this issue? I'm still able to run GLMr v.2.1.8 on my El Cap machine using R v.3.3 but not 3.4, if that's useful.

[cayelan]

Update: I can run GLMr v.3.1.14 on El Cap and Sierra OS X machines using R v.3.3.3 when SIP is disabled, but not using the newest R v.3.4.2. You can still install R v.3.3.3 from CRAN so it's fine, but I'm wondering what it is about R v.3.4.2 that isn't compatible with GLMr? (I've also tested GLMr v.3.1.10, 3.1.12, and 3.1.13 and none of those versions work either).

[lawinslow]

Potentially dealing with this in #120. @cayelan can you confirm that PR #120 as-is fixes the issue you saw with R v3.4.2 and doesn't also happen to break R v3.3.3?

[cayelan]

I just tested @akrinos forked version of GLMr and can confirm that it works successfully on a Sierra machine using R v.3.4.2 with SIP enabled. I will test on a machine with R v.3.3.3 tomorrow and let you know.

[cayelan]

Update: I re-tested @akrinos forked version of GLMr after the 2 new commits in #120 and GLMr no longer runs on my Sierra machine with R v.3.4.2. The error message to run_glm() is "command not found".

[akrinos]

Problem with commit to #120 was clearly manipulating exec directory structure; most recent commit rolled back because *nix build issue was not resolved. Search for alternate workable SIP/DYLD solution ongoing.