Closed robinsonjj closed 7 years ago
It looks like there is a missing mkl symbol -- perhaps an older than expected version of MKL on the system? No real way to debug or productively speculate from here as this gets into Anaconda + MKL territory with which I'm entirely unfamiliar. I can tell you that we have successfully tested with Ananconda on Ubuntu.
ok, no worries, as far as I know I have the latest anaconda dist, do you know whether you have tested it against the latest version?:
$ conda list | grep -E "mkl|numpy"
mkl 2017.0.1 0
mkl-rt 11.1 p0
mkl-service 1.1.2 py36_3
numpy 1.11.3 py36_0
numpydoc 0.6.0 py36_0
The missing symbol is defined in libmkl_core.so:
$ nm -A /home/joe/anaconda3/lib/libmkl* | grep mkl_pds_lp64_pardiso_getenv_f
/home/joe/anaconda3/lib/libmkl_core.so:0000000000e67d80 T mkl_pds_lp64_pardiso_getenv_f
/home/joe/anaconda3/lib/libmkl_intel_lp64.so: U mkl_pds_lp64_pardiso_getenv_f
Here's what I get:
$ conda list | grep -E "mkl|numpy"
mkl 2017.0.1 0
numpy 1.11.3 py35_0
$ conda --version
conda 4.2.13
$ ~/anaconda3/bin/python --version
Python 3.5.2 :: Anaconda 4.2.0 (64-bit)
After updating I now get output that looks more like yours:
conda list | grep -E "mkl|numpy"
mkl 2017.0.1 0
mkl-service 1.1.2 py35_3
numpy 1.11.3 py35_0
numpydoc 0.6.0 py35_0
And things still work.
For completeness:
$ conda --version
conda 4.3.11
python --version
Python 3.6.0 :: Anaconda custom (64-bit)
Not sure what the 'custom' version is all about.. Looks like the main difference is python 3.5 vs 3.6, which I guess means that this is likely a problem local to my machine? Thanks a lot for following this all up, and doesn't seem like there is an obvious fix so I'll just use the stock python for now.
I blew away my existing install and re-installed the latest version of Anaconda. Things still work. Here's my Python version info:
$ python --version
Python 3.6.0 :: Anaconda 4.3.0 (64-bit)
So it's something in the "custom" that's doing you in!
I'm going to close this issue. Feel free to re-open if you discover what's going on and think there is something we can do to address this in the package.
I think I've narrowed down the problem - microsoft r open and anaconda don't play nice together, everything works if I use a different R. Sorry, I should have mentioned I was using R open earlier. I'm happy using a non-anaconda python so please don't re-open this issue on my behalf. Cheers.
Makes sense since both want to load their own versions of MKL! Glad you figured this out.
The package installs fine but can't initialize python:
All works fine with the stock ubuntu python though, thanks for a very nice package!