fastqvalidator: new package (#5573)

* fastqvalidator: new package

* adding version-specificity to compiler conflict

* quick changes to env vars and build phase

* Update package.py

* oops. forgot to install executable

* Update package.py

* updating package.py

* turn env into targets

1 files changed, 56 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/fastqvalidator/package.py b/var/spack/repos/builtin/packages/fastqvalidator/package.py
new file mode 100644
index 0000000000..425800e4ef
--- /dev/null
+++ b/var/spack/repos/builtin/packages/fastqvalidator/package.py
@@ -0,0 +1,56 @@
+##############################################################################
+# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC.
+# Produced at the Lawrence Livermore National Laboratory.
+#
+# This file is part of Spack.
+# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
+# LLNL-CODE-647188
+#
+# For details, see https://github.com/llnl/spack
+# Please also see the NOTICE and LICENSE files for our notice and the LGPL.
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU Lesser General Public License (as
+# published by the Free Software Foundation) version 2.1, February 1999.
+#
+# This program is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
+# conditions of the GNU Lesser General Public License for more details.
+#
+# You should have received a copy of the GNU Lesser General Public
+# License along with this program; if not, write to the Free Software
+# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
+##############################################################################
+from spack import *
+
+
+class Fastqvalidator(MakefilePackage):
+    """The fastQValidator validates the format of fastq files."""
+
+    homepage = "http://genome.sph.umich.edu/wiki/FastQValidator"
+    url      = "https://github.com/statgen/fastQValidator/archive/v0.1.1a.tar.gz"
+
+    version('0.1.1a', '5c5de69527020b72b64f32987409bd12')
+
+    conflicts('%gcc@7:', when='@0.1.1a')  # statgen/fastQValidator#14
+
+    resource(
+        name='libStatGen',
+        url='https://github.com/statgen/libStatGen/archive/v1.0.14.tar.gz',
+        sha256='70a504c5cc4838c6ac96cdd010644454615cc907df4e3794c999baf958fa734b',
+    )
+
+    @property
+    def build_targets(self):
+        return ['LIB_PATH_GENERAL={0}'.format(
+                join_path(self.stage.source_path, 'libStatGen-1.0.14'))]
+
+    @property
+    def install_targets(self):
+        return [
+            'INSTALLDIR={0}'.format(self.prefix.bin),
+            'LIB_PATH_GENERAL={0}'.format(
+                join_path(self.stage.source_path, 'libStatGen-1.0.14')),
+            'install'
+        ]