uncoverml pre-req and setup issues for new user

[s-m-t-c]

Uncover ML - set up errors

Current

Module / python egg related error

• Full output

uncovermlmodulerror.txt

• sample output

virtualenvwrapper.user_scripts could not run "/g/data/ge3/john/venvs/preactivate": [Errno 8] Exec format error
mpirun: WARNING: unable to determine OpenMPI version of uncoverml, runtime version may be incompatible

File "/g/data1a/ge3/john/venvs/catboost/bin/uncoverml", line 11, in <module>
    load_entry_point('uncover-ml', 'console_scripts', 'uncoverml')()

Solved

• $ py.test ~/uncover-ml/tests/ generates error: ImportError: No module named 'mpi4py'

Tried $ pip install -v --no-binary :all: --user mpi4py as a solution but generates error (this worked for previous missing module errors).

Full output here: uncovermlerrortext.txt

• Automating the loading of python modules through .profile generates error, success when manually installed via 'Module load' python3/3.4.3(2):ERROR:150: Module 'python3/3.4.3' conflicts with the currently loaded module(s) 'python3/3.4.3-matplotlib' python3/3.4.3(2):ERROR:102: Tcl command execution failed: source /opt/Modules/extensions/extensions.tcl

• Could not copy the github repository due to a 'public key' error

  • Generated a new SSH private key 'id_rsa' and copied it into the appropriate hidden folder in my NCI home .ssh (using mobaxtherm sftp)
  • Changed the permissions to 400 on my ssh folder then added to ssh agent

    chmod 400 ~/.ssh/id_rsa
    ssh-add ~/.ssh/id_rsa

• Running test indicates missing module $ py.test ~/uncover-ml/tests/

  import shapefile as shp
  ImportError: No module named 'shapefile'

  Solved by installing 'shapefile' with: pip install -v --no-binary :all: --user pyshp

[basaks]

virtualenvwrapper.user_scripts could not run "/g/data/ge3/john/venvs/preactivate": [Errno 8] Exec format error
mpirun: WARNING: unable to determine OpenMPI version of uncoverml, runtime version may be incompatible
File "/g/data1a/ge3/john/venvs/catboost/bin/uncoverml", line 11, in <module>
    load_entry_point('uncover-ml', 'console_scripts', 'uncoverml')()

What are you trying to do? All tests run ok in your environment.

That error was due to the fact that the virtualenv WORKON_HOME env variable was pointing to the wrong directory. It should be fixed now that you have removed the env variable.