install_log.txt

Download miniconda to provide the conda package manager from

https://conda.io/miniconda.html
(64-bit linux bash installer)

Ran the install script from my home/workshops/Valters folder:

~/Valters$ bash Miniconda3-latest-Linux-x86_64.sh

Accept the licence and all the default install paths

~/Valters$ export PATH=/home/workshops/miniconda3/bin:$PATH

Follow the instructions provided by the RSE team to install the Intel python distribution
https://software.intel.com/en-us/articles/using-intel-distribution-for-python-with-anaconda

~/Valters$ conda update conda
~/Valters$ conda config --add channels intel
~/Valters$ conda create -n idp intelpython3_core python=3

## ACTIVATE THE CONDA ENVIRONMENT
~/Valters$ source activate idp

Now install the workshop specific packages:

~/Valters$ conda install cython mpi4py numba

Added these just in case people prefer them for note taking:

~/Valters$ conda install ipython jupyter matplotlib

Some C and C++ compilers, and an MPI implementation will also be needed:

~/Valters$ sudo apt-get install gcc g++ openmpi-bin

Some utilities to install for people's favourite editors etc.:

~/Valters$ sudo apt-get install vim emacs vim-gtk git


All the packages installed with conda are listed in package-list.txt
This was created with:

conda list -n idp --export > package-list.txt



## TESTING
==========

## Running all the tests at once

Run the bash script:

./run_all_workshop_tests.sh

It should produce the output in the test_correct_output_log.txt

i.e.

(idp) workshops@RSE2018-workshops:~/Valters$ ./run_all_workshop_tests.sh 
running build_ext
[2, 3, 5, 7, 11, 13, 17, 19, 23, 29]
running build_ext
435
pi is approximately 3.1415927369231262, error is 0.0000000833333331
main line
module name: __main__
parent process: 19099
process id: 19100
function f
module name: __main__
parent process: 19100
process id: 19101
hello bob
3.1415927
[0, -1, -2, -3, -4, -5, -6, -7, -8, -9]
[[0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]
 ...
 [0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]]


## Running individual tests

# Testing the Multiprocessing module (and Jupyter notebooks)
In the test_multiprocessing directory, run "run_tests.sh". It should print out:

(idp) workshops@RSE2018-workshops:~/Valters/test_multiprocessing$ python simple.py 
main line
module name: __main__
parent process: 9019
process id: 18483
function f
module name: __main__
parent process: 18483
process id: 18484
hello bob
3.1415927
[0, -1, -2, -3, -4, -5, -6, -7, -8, -9]


# Testing Cython
In the test_cython_basic directory, run the "run_tests.sh" script. It should print out:

(idp) workshops@RSE2018-workshops:~/Valters/test_cython_basic$ ./run_test.sh 
running build_ext
[2, 3, 5, 7, 11, 13, 17, 19, 23, 29]


# Testing Cython with openmp
In the test_cython_openmp directory, run the "run_tests.sh" script. It should print out:

(idp) workshops@RSE2018-workshops:~/Valters/test_cython_openmp$ ./run_tests.sh 
running build_ext
435


# Testing mpi4py
In the test_mpi4py directory, run the "run_tests.sh" script. You should get the following output (or very similar to...):

(idp) workshops@RSE2018-workshops:~/Valters/test_mpi4py$ ./run_tests.sh 
pi is approximately 3.1415927369231262, error is 0.0000000833333331


# Testing numba
In the test_numba directory, run the "run_tests.sh" script. It should print out: 

(idp) workshops@RSE2018-workshops:~/Valters/test_numba$ ./run_tests.sh 
[[0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]
 ...
 [0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]
 [0. 0. 0. ... 0. 0. 0.]]