View source for Sep 19, 2018 - Installing software


== Load modules ==

Add to <code>~/.bash_profile</code>:

<source>
module load intel/intel-18\n
module load intelmpi/2018.1.163
module load openmpi/3.0.0-intel-18
module load gcc/7.3.0
module load python/2.7.14
#necessary to have Intel MPI working on CITA cluster
export I_MPI_FABRICS=shm:tcp
export I_MPI_TCP_NETMASK=10.5.0.0
</source>

On Niagara, instead add

<source>
module load intel/2018.3
module load python/3.6.4-anaconda5.1.0
module load intelmpi/2018.3
</source>

== Install FITSIO ==

Download from [https://heasarc.gsfc.nasa.gov/fitsio/]

Run <code> ./configure </code>

Run <code> make </code>

== Install Healpix ==

Download from [https://sourceforge.net/projects/healpix/]

Run <code>./configure</code>

Choose default choices unless otherwise stated.

Choose 3 (Fortran), ifort (F90 compiler), folder in which FITSIO was installed in the previous step (location of the cfitsio library).

Choose 4 (C++), 1 (basic_gcc configuration for C++ compilation)

Choose 5 (Python)

Choose 0 (exit)

Add Healpix initialization to <code>~/.bash_profile</code> (see output after Fortran initialization). Source the file to reflect the changes.

Run <code>make</code>

Go for a coffee

P.S.: On Niagara, in the Fortran section of configure choose icc as the C compiler

== Install modified Lenspix ==

Clone git repo <code>https://github.com/louis-pham/modified_lenspix</code>

Run <code>make</code>  in <code>src</code>

As a test, run <code>python lens.py test_maps/kappa_map.fits test_maps/primary_alm.fits test_maps/phi_trial.fits test_maps/lensed_trial.fits -np 8</code>

Actually, on the first attempt the code started with <code>Creating zero map...</code>, then did a bunch of other things and then got stuck (or so it seemed). After termination and restarting all proceeded normally.

P.S.: On Niagara, it is necessary to replace all the 
<code>print X</code> 
by 
<code>print(X)</code> 
to be compliant with Python3

We also had to perform following changes in Makefile:
* Add <code> cfitsio = /home/r/rbond/motloch/useful_software/cfitsio </code>
* Change the Fortran flags by editing cfitstio -L and adding curl to 
<code> 
F90FLAGS = $(FFLAGS) -I$(healpix) -I$(healpix)/include -L$(cfitsio) -L$(healpix)/lib $(LAPACKL) -lcfitsio -lcurl 
<\code>