Installation on python 3.6

[zenkavi]

In trying to install on python 3.6 I got the following error:
The error suggests kabuki depends on an older version of openssl that is no longer supported on python 3.6 (https://docs.python.org/3/whatsnew/3.6.html). Do you have any recommendations for this?

UnsatisfiableError: The following specifications were found to be in conflict:
  - hddm -> kabuki -> python 3.3* -> openssl 1.0.1*
  - hddm -> kabuki -> python 3.3* -> xz 5.0.5
  - python 3.6*

[twiecki]

Seems the actual problem is that it depends on Python 3.3, as binaries for 3.6 have not been built yet. You could try install via pip instead.

[sammosummo]

Neither conda nor pip worked on my system (Unix, anaconda Python 3.6). I managed to install pymc via conda and kabuki via pip, but neither works for hddm.

Here is the output of pip:

Running setup.py clean for hddm
Failed to build hddm
Installing collected packages: hddm
  Running setup.py install for hddm ... error
    Complete output from command /net/lustre/home/smathias/anaconda3/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-_1xjn9be/hddm/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-hsznps2r-record/install-record.txt --single-version-externally-managed --compile:
    running install
    running build
    running build_py
    creating build
    creating build/lib.linux-x86_64-3.6
    creating build/lib.linux-x86_64-3.6/hddm
    copying hddm/likelihoods.py -> build/lib.linux-x86_64-3.6/hddm
    copying hddm/generate.py -> build/lib.linux-x86_64-3.6/hddm
    copying hddm/utils.py -> build/lib.linux-x86_64-3.6/hddm
    copying hddm/MPLTraits.py -> build/lib.linux-x86_64-3.6/hddm
    copying hddm/diag.py -> build/lib.linux-x86_64-3.6/hddm
    copying hddm/MPLTraits_qt.py -> build/lib.linux-x86_64-3.6/hddm
    copying hddm/__init__.py -> build/lib.linux-x86_64-3.6/hddm
    creating build/lib.linux-x86_64-3.6/hddm/tests
    copying hddm/tests/matlab_values.py -> build/lib.linux-x86_64-3.6/hddm/tests
    copying hddm/tests/test_optimization.py -> build/lib.linux-x86_64-3.6/hddm/tests
    copying hddm/tests/test_models.py -> build/lib.linux-x86_64-3.6/hddm/tests
    copying hddm/tests/test_likelihoods.py -> build/lib.linux-x86_64-3.6/hddm/tests
    copying hddm/tests/benchmark.py -> build/lib.linux-x86_64-3.6/hddm/tests
    copying hddm/tests/test_generate.py -> build/lib.linux-x86_64-3.6/hddm/tests
    copying hddm/tests/__init__.py -> build/lib.linux-x86_64-3.6/hddm/tests
    creating build/lib.linux-x86_64-3.6/hddm/models
    copying hddm/models/hddm_transformed.py -> build/lib.linux-x86_64-3.6/hddm/models
    copying hddm/models/hddm_truncated.py -> build/lib.linux-x86_64-3.6/hddm/models
    copying hddm/models/hddm_regression.py -> build/lib.linux-x86_64-3.6/hddm/models
    copying hddm/models/hddm_info.py -> build/lib.linux-x86_64-3.6/hddm/models
    copying hddm/models/hddm_stimcoding.py -> build/lib.linux-x86_64-3.6/hddm/models
    copying hddm/models/base.py -> build/lib.linux-x86_64-3.6/hddm/models
    copying hddm/models/__init__.py -> build/lib.linux-x86_64-3.6/hddm/models
    creating build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/plot_posterior_quantiles.py -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/simple_model.py -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/postpred.py -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/__init__.py -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/simple_subjs_difficulty.csv -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/simple_difficulty.csv -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/cavanagh_theta_nn.csv -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/simple_subjs_difficulty_single.csv -> build/lib.linux-x86_64-3.6/hddm/examples
    copying hddm/examples/simple_difficulty.conf -> build/lib.linux-x86_64-3.6/hddm/examples
    running build_ext
    building 'wfpt' extension
    creating build/temp.linux-x86_64-3.6
    creating build/temp.linux-x86_64-3.6/src
    gcc -pthread -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/net/lustre/home/smathias/anaconda3/lib/python3.6/site-packages/numpy/core/include -I/net/lustre/home/smathias/anaconda3/include/python3.6m -c src/wfpt.cpp -o build/temp.linux-x86_64-3.6/src/wfpt.o
    unable to execute 'gcc': No such file or directory
    error: command 'gcc' failed with exit status 1

And here is the output of conda install -f -c pymc hddm:

Fetching package metadata .............
Solving package specifications: .

UnsatisfiableError: The following specifications were found to be in conflict:
  - hddm -> kabuki -> python 3.3* -> xz 5.0.5
  - python 3.6*
Use "conda info <package>" to see the dependencies for each package.

I assumed that -f would force conda not to look for dependencies but that doesn't seem to be the case.

[twiecki]

What error are you getting?

…

On Wed, Nov 1, 2017 at 3:20 PM, Sam Mathias ***@***.***> wrote: Neither conda nor pip worked on my system (Unix, anaconda Python 3.6). I managed to install pymc via conda and kabuki via pip, but neither works for hddm. — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#44 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AApJmAUM5ih-hj9qw4gfH3K2GIJk8gBoks5syH4bgaJpZM4PhOw1> .

[sammosummo]

I updated my answer with the errors.

Actually I think the issue is that I can't run gcc from a particular node of my computing system. Installing from a different node works.

While this was just my being dumb, it could be useful for people to realize that you can mix-and-match pip and conda to install as necessary.