mCSM
=============

This contains scripts that does the following:
 1. mcsm.py: function for submitting mcsm job and extracting results
 2. run_mcsm.py: wrapper to call mcsm.py
 
foldx
=============
This contains scripts that does the following:
 1. runFoldx.py: submitting foldx requests and extracting results
 2. runfoldx.sh: is wrapped by runFoldx.py 
 
Requires an additional 'Data' directory. Batteries not included:-)

## Assumptions

 1. git repos are cloned to `~/git`
 2. Requires a data directory with an `input` and `output` subdirs. Can be specified on the CLI with `--datadir`, and optionally can be created with `mk_drug_dirs.sh <DRUG_NAME>`

## LSHTM\_analysis: 
 
subdirs within this repo

```
 scripts
 	*.R
 	*.py
	scripts/plotting/
	*.R
 mcsm
	*.py
 foldx
 	*.py
	*.sh
  
```
More docs here as I write them.