pip3 install xgboost doesn't install libgomp.so in 0.90 on travis

[MarvinT]

TravisCI has updated my repo to xgboost 0.90 (from 0.82) and I'm getting an error

~/virtualenv/python3.6.3/lib/python3.6/site-packages/xgboost/core.py in _load_lib()
    150             'libgomp.so for UNIX-like OSes)\n' +
    151             '  * You are running 32-bit Python on a 64-bit OS\n' +
--> 152             'Error message(s): {}\n'.format(os_error_list))
    153     lib.XGBGetLastError.restype = ctypes.c_char_p
1;32m    154     lib.callback = _get_log_callback_func()
XGBoostError: XGBoost Library (libxgboost.so) could not be loaded.
Likely causes:
  * OpenMP runtime is not installed (vcomp140.dll or libgomp-1.dll for Windows, libgomp.so for UNIX-like OSes)
  * You are running 32-bit Python on a 64-bit OS
Error message(s): ["/usr/lib/x86_64-linux-gnu/libgomp.so.1: version `GOMP_4.0' not found (required by /home/travis/virtualenv/python3.6.3/lib/python3.6/site-packages/xgboost/./lib/libxgboost.so)", "/usr/lib/x86_64-linux-gnu/libgomp.so.1: version `GOMP_4.0' not found (required by /home/travis/virtualenv/python3.6.3/xgboost/libxgboost.so)"]

Hopefully current solution: (still waiting for travis build to complete)

apt-get install libgomp1 

I'm not sure if the pip installed binaries are supposed to include all the libraries or why this changed from 0.82 to .90, but I just wanted to raise the issue and let people know.

[trivialfis]

@MarvinT Thanks, it should work, I just did:

dpkg -S /usr/lib/x86_64-linux-gnu/libgomp.so.1

and dpkg returned:

libgomp1:amd64: /usr/lib/x86_64-linux-gnu/libgomp.so.1

But I'm curious why omp runtime is not presented.

[trivialfis]

@MarvinT Any update on this? How's it doing?

[MarvinT]

Sorry, this is the new error I'm getting:

XGBoostError: XGBoost Library (libxgboost.so) could not be loaded.
Likely causes:
  * OpenMP runtime is not installed (vcomp140.dll or libgomp-1.dll for Windows, libgomp.so for UNIX-like OSes)
  * You are running 32-bit Python on a 64-bit OS
Error message(s): ["/usr/lib/x86_64-linux-gnu/libgomp.so.1: version `GOMP_4.0' not found (required by /home/travis/virtualenv/python3.6.3/lib/python3.6/site-packages/xgboost/./lib/libxgboost.so)", "/usr/lib/x86_64-linux-gnu/libgomp.so.1: version `GOMP_4.0' not found (required by /home/travis/virtualenv/python3.6.3/xgboost/libxgboost.so)"]

Here's a travis build if you want to see the configuration:
https://travis-ci.com/MarvinT/morphs/jobs/202333691

[trivialfis]

@MarvinT I don't have Ubuntu 14, but it might be mismatched gcc versions. We now build XGBoost with GCC 5.3.1, previously GCC 4.8.

[hcho3]

@trivialfis I wonder if it’s possible to bundle older libgomp when building with GCC 5.3.1

[MarvinT]

Yeah, sorry I don't have much time to follow this for you atm, I think I'm just going to downgrade to 0.82. I was just letting you guys know that this is an issue on the default pip install xgboost on travis

[hcho3]

@trivialfis I didn’t expect this issue when we upgraded GCC version in #4306

[hcho3]

@MarvinT Ubuntu 14.04 has reached its end of life last month. You should consider changing the Travis CI setting to use later version of Ubuntu. Alternatively, you can compile from the source.

[trivialfis]

@MarvinT Travis is moving to Ubuntu 16:

https://blog.travis-ci.com/2019-04-15-xenial-default-build-environment

[MarvinT]

hmm, I'm surprised the default for me was still 14.04. I guess its a very slow rollout...