Merge branch 'master' of https://gitlab.pasteur.fr/statistical-genetics/JASS_Pre-processing

.gitlab-ci.yml

+image: centos:centos7
+pages:
+  script:
+    - yum install -y epel-release wget
+    - wget https://centos7.iuscommunity.org/ius-release.rpm
+    - rpm -Uvh ius-release*.rpm
+    - yum provides python3.5
+    - yum install -y python35u python35u-libs python35u-devel python35u-pip
+    - pip3.5 install -U pip
+    - pip3.5 install virtualenv
+    - virtualenv -p python3.5 venv
+    - . venv/bin/activate
+    - pip3 install sphinx
+    - yum install -y make
+    - pip3 install sphinx
+    - pip3 install sphinxcontrib-bibtex
+    - cd jass_preprocessing/doc
+    - make html
+    - mv _build/html/ ../../public
+  artifacts:
+    paths:
+    - public
+  only:
+  - master

README.md

 
-
 # Preprocessing package for cleaning and formating data for JASS
 
 This helper package convert heterogeneous GWAS summary statistic format to
 the IMPG input format.
 
-## Installation
-
-*Requirement* :
-
-## Usage
-
-Once installed the preprocessing can be launch in the following manner:
-
-
-
-## reference panel format:
-
-The user is expected to provide a reference panel with the following
-column naming and column types:
-
-| chr | pos | snp_id | ref | alt | MAF |
-|-----|-----|--------|-----|-----|-----|
-|1	|13116	|rs62635286 |	T|	G|	0.0970447|
-|1	|13118	|rs200579949 |A	|G	|0.0970447|
-|1	|14604	|rs541940975 |A	|G	|0.147564|
-|1	|14930	|rs75454623	|A	|G	|0.482228|
-
-***
-
-## Output format
-['rsID', 'pos', 'A0', "A1", "Z" ]
+The package is documented at http://statistical-genetics.pages.pasteur.fr/JASS_Pre-processing/
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