From e57a291c26e9302a01918687f991d91bb6fc26b8 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Luk=C3=A1=C5=A1=20Krup=C4=8D=C3=ADk?= <lukas.krupcik@vsb.cz>
Date: Wed, 25 Apr 2018 09:38:57 +0200
Subject: [PATCH] 	new file:   g/GATK/GATK-4.0.3.0-Java-1.8.0_144.eb 
 new file:   p/pydot/pydot-1.2.4-Py-3.6.eb

---
 g/GATK/GATK-4.0.3.0-Java-1.8.0_144.eb | 40 +++++++++++++++++++++++++++
 p/pydot/pydot-1.2.4-Py-3.6.eb         | 24 ++++++++++++++++
 2 files changed, 64 insertions(+)
 create mode 100644 g/GATK/GATK-4.0.3.0-Java-1.8.0_144.eb
 create mode 100644 p/pydot/pydot-1.2.4-Py-3.6.eb

diff --git a/g/GATK/GATK-4.0.3.0-Java-1.8.0_144.eb b/g/GATK/GATK-4.0.3.0-Java-1.8.0_144.eb
new file mode 100644
index 00000000..a8e08f95
--- /dev/null
+++ b/g/GATK/GATK-4.0.3.0-Java-1.8.0_144.eb
@@ -0,0 +1,40 @@
+# IT4Innovations 2018
+
+easyblock = 'Tarball'
+
+name = 'GATK'
+version = '4.0.3.0'
+versionsuffix = '-Java-%(javaver)s'
+
+homepage = 'http://www.broadinstitute.org/gatk/'
+description = """The Genome Analysis Toolkit or GATK is a software package developed at the Broad Institute
+ to analyse next-generation resequencing data. The toolkit offers a wide variety of tools,
+ with a primary focus on variant discovery and genotyping as well as strong emphasis on
+ data quality assurance. Its robust architecture, powerful processing engine and
+ high-performance computing features make it capable of taking on projects of any size."""
+
+toolchain = {'name': 'dummy', 'version': ''}
+
+# download manually from http://www.broadinstitute.org/gatk/download
+source_urls = [' https://github.com/broadinstitute/gatk/releases/download/%(version)s/']
+
+sources = ['gatk-%(version)s.zip']
+
+dependencies = [('Java', '1.8.0_144')]
+
+
+postinstallcmds = [
+    'mkdir %(installdir)s/bin',
+    'mv %(installdir)s/gatk %(installdir)s/bin',
+]
+
+modextravars = {
+    'export GATK_LOCAL_JAR':'%(installdir)s/gatk-package-4.0.3.0-local.jar'
+}
+
+sanity_check_paths = {
+    'files': ['gatk-package-4.0.3.0-local.jar', 'gatk-package-4.0.3.0-spark.jar'],
+    'dirs': ['bin'],
+}
+
+moduleclass = 'bio'
diff --git a/p/pydot/pydot-1.2.4-Py-3.6.eb b/p/pydot/pydot-1.2.4-Py-3.6.eb
new file mode 100644
index 00000000..e98be96a
--- /dev/null
+++ b/p/pydot/pydot-1.2.4-Py-3.6.eb
@@ -0,0 +1,24 @@
+# IT4Innovations 2018
+
+easyblock = "PythonPackage"
+name = 'pydot'
+version = '1.2.4'
+
+homepage = 'https://pypi.python.org/pypi/pydot'
+description = 'A Python interface to GraphViz and the DOT language.'
+
+toolchain = {'name': 'Py', 'version': '3.6'}
+
+source_urls = [PYPI_SOURCE]
+sources = [SOURCE_TAR_GZ]
+
+dependencies = [
+    ('pyparsing', '2.2.0'),
+]
+
+sanity_check_paths = {
+    'files': ['lib/python3.6/site-packages/%(name)s-%(version)s-py3.6.egg'],
+    'dirs': [],
+}
+
+moduleclass = 'python'