Scripts for processing text files ready for indexing for the RESTful servers as pipelines within the MuG VRE.
Full documentation can be found on ReadTheDocs
- bedToBigBed - http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/
- HDF5
- Python 2.7.10+
- Python Modules:
- numpy
- h5py
Cloneing from GitHub:
git clone https://github.com/Multiscale-Genomics/mg-process-files.git
To get this to be picked up by pip if part of a webserver then:
pip install --editable .
This should install the required packages listed in the setup.py script.
Installation via pip:
pip install git+https://github.com/Multiscale-Genomics/mg-process-files.git
Requires a file with the name dmp.cnf with the following parameters to define the MongoDB server:
[dmp]
host = localhost
port = 27017
user =
pass =
db = dmp
ftp_root = ftp://ftp.<url_root>