From 84dd8cebae9eefdb7d7f9ca43e53b3ddfc295eb1 Mon Sep 17 00:00:00 2001
From: pjotrp
Date: Tue, 20 Mar 2018 11:13:56 +0000
Subject: Adding GN python packages for testing

---
 gn/packages/genenetwork.scm |  5 +++++
 gn/packages/python.scm      | 21 +++++++++++++++++++++
 2 files changed, 26 insertions(+)

(limited to 'gn')

diff --git a/gn/packages/genenetwork.scm b/gn/packages/genenetwork.scm
index d9696a3..14b7945 100644
--- a/gn/packages/genenetwork.scm
+++ b/gn/packages/genenetwork.scm
@@ -19,6 +19,7 @@
   #:use-module (gnu packages bioinformatics)
   #:use-module (gnu packages boost)
   #:use-module (gnu packages compression)
+  #:use-module (gnu packages check)
   #:use-module (gnu packages databases)
   #:use-module (gnu packages cpio)
   #:use-module (gn packages elixir)
@@ -202,6 +203,7 @@ location of a putative QTL.")
               ("nginx" ,nginx)
               ("python2-flask" ,python2-flask)
               ("gunicorn" ,gunicorn)
+              ("python2-cssselect" ,python2-cssselect)
               ("python2-elasticsearch" ,python2-elasticsearch)
               ("python2-htmlgen-gn" ,python2-htmlgen-gn)
               ("python2-jinja2" ,python2-jinja2)
@@ -209,12 +211,14 @@ location of a putative QTL.")
               ("python2-flask-sqlalchemy" ,python2-flask-sqlalchemy)
               ("python2-setuptools" ,python2-setuptools)
               ("python2-scipy" ,python2-scipy)
+              ("python2-lxml" ,python2-lxml)
               ("python2-mechanize" ,python2-mechanize)
               ("python2-mysqlclient" ,python2-mysqlclient)
               ("python2-numarray" ,python2-numarray)
               ("python2-numpy" ,python2-numpy)
               ("python2-pandas" ,python2-pandas)
               ("python2-parallel" ,python2-parallel)
+              ("python2-parameterized" ,python2-parameterized)
               ("python2-passlib" ,python2-passlib)
               ("python2-piddle-gn" ,python2-piddle-gn)
               ("python2-redis" ,python2-redis)
@@ -225,6 +229,7 @@ location of a putative QTL.")
               ("python2-scipy" ,python2-scipy)
               ("python2-simplejson" ,python2-simplejson)
               ("python2-pyyaml" ,python2-pyyaml)
+              ("python2-unittest2" ,python2-unittest2)
               ("python2-xlsxwriter" ,python2-xlsxwriter)
               ("qtlreaper" ,qtlreaper)
               ("javascript-twitter-post-fetcher" ,javascript-twitter-post-fetcher)
diff --git a/gn/packages/python.scm b/gn/packages/python.scm
index 9601b3c..a6a99c6 100644
--- a/gn/packages/python.scm
+++ b/gn/packages/python.scm
@@ -44,6 +44,27 @@
   #:use-module (guix build-system trivial)
   #:use-module (srfi srfi-1))
 
+(define-public python-pyvcf
+  (package
+   (name "python-pyvcf")
+   (version "0.6.8")
+   (source
+    (origin
+     (method url-fetch)
+     (uri (pypi-uri "pyvcf" version))
+     (sha256
+      (base32
+       "1ngryr12d3izmhmwplc46xhyj9i7yhrpm90xnsd2578p7m8p5n79"))))
+   (build-system python-build-system)
+   (home-page
+    "https://github.com/jamescasbon/PyVCF")
+   (synopsis
+    "Variant Call Format (VCF) parser for Python")
+   (description
+    "Variant Call Format (VCF) parser for Python")
+   (license #f)))
+
+
 (define-public python-elasticsearch
   (package
     (name "python-elasticsearch")
-- 
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