Add environment file

README.md

 ### INF pipeline
 
-**Requirements**
-
-Python3 with mlpy (!), numpy, scikit-learn, pandas, snakemake
-
-R >= 3.2.3 with argparse, cvTools, doParallel, TunePareto, igraph, lubridate, data.table
-
-To install R via Anaconda: [doc](https://docs.anaconda.com/anaconda/user-guide/tasks/using-r-language/)
+**Setup**
+```bash
+git clone https://gitlab.fbk.eu/MPBA/inf_revamped
+cd inf_revamped
+conda env create -f env.yml -n inf
+conda activate inf
+```
 
-To install the R dependencies, run the following command from the R prompt:
+To install the R dependencies (not in conda channels), run the following command via the R prompt:
+```bash
+install.packages("TunePareto")
+```
 
-`install.packages(c("argparse", "cvTools", "doParallel", "TunePareto", "igraph", "lubridate", "data.table"))`
+To install mlpy, follow the instructions [here](https://gitlab.fbk.eu/MPBA/mlpy). 
 
 **Input files**
 

env.yml

+name: base
+channels:
+  - defaults
+  - bioconda
+dependencies:
+  - python=3.6
+  - gsl
+  - numpy
+  - scikit-learn
+  - libgcc
+  - r-cvtools
+  - r-doparallel
+  - r-igraph
+  - pandas
+  - r-argparse
+  - r-data.table
+  - r-lubridate
+  - matplotlib
+  - matplotlib-venn
+  - tqdm
+  - conda
+  - snakemake
+prefix: //anaconda/envs/inf
+