pRESTO is a toolkit for processing raw reads from high-throughput sequencing of lymphocyte repertoires.

• Version: 0.5.2
• Added: June, 2016
• Link: http://presto.readthedocs.io/en/latest/index.html

See which versions of presto are available:

$ module avail presto

Load presto

$ module load presto/0.5.2

Notes from the sysadmin during installation:

$ cd /tmp/
- install cython; a dependency of pandas; https://pypi.python.org/pypi/Cython/
$ cd /tmp/
$ wget "https://pypi.python.org/packages/b1/51/bd5ef7dff3ae02a2c6047aa18d3d06df2fb8a40b00e938e7ea2f75544cac/Cython-0.24.tar.gz#md5=14fbc970f4a856845e633cbc09e61048" -O Cython-0.24.tar.gz
$ module load python/3.4.3
$ sudo chown -R joguya:joguya /export/apps/python/3.4.3/

- install pandas—a python3(dependency of presto) library that provides high performance easy to use data structures & data analysis tools: http://pandas.pydata.org/
$ cd /tmp
$ wget https://github.com/pydata/pandas/archive/v0.18.1.tar.gz
$ tar -xvf v0.18.1.tar.gz
$ cd pandas-0.18.1/
$ scl enable devtoolset-2 bash
$ module load python/3.4.3 
$ python setup.py install

- finally install presto
$ cd /tmp/
$ wget https://bitbucket.org/kleinstein/presto/downloads/presto-0.5.2.tar.gz
$ tar -xvf presto-0.5.2.tar.gz
$ cd presto-0.5.2
$ scl enable devtoolset-2 bash
$ module load python/3.4.3
$ sudo mkdir -p /export/apps/presto/0.5.2/
$ sudo chown -R joguya:joguya /export/apps/presto/0.5.2/
$ python setup.py install --install-scripts=/export/apps/presto/0.5.2/bin
$ sudo chown -R root:root /export/apps/presto/0.5.2/