PLINK2_pgenlib_install

[ytanigaw@sh-08-37 login! ~/repos/chrchang/plink-ng/2.0/Python]$ ml avail anaconda

------------------------ /home/users/ytanigaw/.modules -------------------------
   anaconda-old/rivaslab-sh1        anaconda-old/yosuke
   anaconda-old/rivaslab-sh2 (D)

------------------------- /home/groups/mrivas/.modules -------------------------
   anaconda/sherlock1    anaconda/sherlock2 (L,D)

  Where:
   D:  Default Module
   L:  Module is loaded

Use "module spider" to find all possible modules.
Use "module keyword key1 key2 ..." to search for all possible modules matching
any of the "keys".

[ytanigaw@sh-08-37 login! ~/repos/chrchang/plink-ng/2.0/Python]$ which python
/home/groups/mrivas/software/anaconda2_sherlock2/bin/python

[ytanigaw@sh-08-37 login! ~/repos/chrchang/plink-ng/2.0/Python]$ python --version
Python 2.7.14 :: Anaconda custom (64-bit)

[ytanigaw@sh-08-37 login! ~/repos/chrchang/plink-ng/2.0/Python]$ readlink -f $(pwd)
/oak/stanford/groups/mrivas/users/ytanigaw/repos/chrchang/plink-ng/2.0/Python

[ytanigaw@sh-08-37 login! ~/repos/chrchang/plink-ng/2.0/Python]$ cat ReadMe.md
This provides a basic Python API for pgenlib; see python_api.txt for details.
Cython and NumPy must be installed.

Build this with e.g.
  python setup.py build_ext
  [sudo] python setup.py install
  
[ytanigaw@sh-08-37 login! ~/repos/chrchang/plink-ng/2.0/Python]$ python setup.py build_ext
running build_ext
[ytanigaw@sh-08-37 login! ~/repos/chrchang/plink-ng/2.0/Python]$ python setup.py install  

(bunch of outputs)

Installed /home/groups/mrivas/software/anaconda2_sherlock2/lib/python2.7/site-packages/Pgenlib-0.7-py2.7-linux-x86_64.egg
Processing dependencies for Pgenlib==0.7
Finished processing dependencies for Pgenlib==0.7

plink2_program.txt

[ytanigaw@sh-ln02 login! ~]$ sdev
Sherlock2 system. Loading ytanigaw/sh2
[ytanigaw@sh-08-37 login! ~]$ ml avail plink2

------------------------- /home/groups/mrivas/.modules -------------------------
   plink2/20170702    plink2/20170904    plink2/20171119
   plink2/20170717    plink2/20170920    plink2/20171129
   plink2/20170802    plink2/20171015    plink2/20180105 (D)
   plink2/20170901    plink2/20171104    plink2/20180331

  Where:
   D:  Default Module

Use "module spider" to find all possible modules.
Use "module keyword key1 key2 ..." to search for all possible modules matching
any of the "keys".


[ytanigaw@sh-08-37 login! ~]$ ml load plink2/20180331
[ytanigaw@sh-08-37 login! ~]$ which plink2
/oak/stanford/groups/mrivas/software/plink2/20180331/plink2
[ytanigaw@sh-08-37 login! ~]$ plink2 --version
PLINK v2.00a2LM 64-bit Intel (31 Mar 2018)