added py-dxchange and its dependencies dxfile,edffile,spefile,tifffile (#4534)

* added py-dxchange and its dependencies dxfile,edffile,spefile,tifffile

* fixed https in homepage of py-dxfile

5 files changed, 203 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/py-dxchange/package.py b/var/spack/repos/builtin/packages/py-dxchange/package.py
new file mode 100644
index 0000000000..7c745c348f
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-dxchange/package.py
@@ -0,0 +1,47 @@
+##############################################################################
+# Copyright (c) 2013-2016, 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 LICENSE file 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 PyDxchange(PythonPackage):
+    """DXchange provides an interface with tomoPy and raw tomographic data
+       collected at different synchrotron facilities."""
+
+    homepage = "https://github.com/data-exchange/dxchange"
+    url      = "https://github.com/data-exchange/dxchange/archive/v0.1.2.tar.gz"
+
+    version('0.1.2', '36633bb67a1e7d1fb60c2300adbcbab3')
+
+    depends_on('py-setuptools', type='build')
+    depends_on('py-numpy', type='run')
+    depends_on('py-scipy', type='run')
+    depends_on('py-h5py', type='run')
+    depends_on('py-six', type='run')
+    depends_on('py-netcdf4', type='run')
+    depends_on('py-spefile', type='run')
+    depends_on('py-edffile', type='run')
+    depends_on('py-tifffile', type='run')
+    depends_on('py-dxfile', type='run')
diff --git a/var/spack/repos/builtin/packages/py-dxfile/package.py b/var/spack/repos/builtin/packages/py-dxfile/package.py
new file mode 100644
index 0000000000..c0942ddc98
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-dxfile/package.py
@@ -0,0 +1,38 @@
+##############################################################################
+# Copyright (c) 2013-2016, 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 LICENSE file 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 PyDxfile(PythonPackage):
+    """Scientific Data Exchange [A1] is a set of guidelines for storing scientific
+       data and metadata in a Hierarchical Data Format 5 [B6] file."""
+
+    homepage = "https://github.com/data-exchange/dxfile"
+    url      = "https://github.com/data-exchange/dxfile/archive/v0.4.tar.gz"
+
+    version('0.4', '0402cd38aefdfd5ce92feb43dda18947')
+
+    depends_on('py-setuptools', type='build')
+    depends_on('py-h5py', type='run')
diff --git a/var/spack/repos/builtin/packages/py-edffile/package.py b/var/spack/repos/builtin/packages/py-edffile/package.py
new file mode 100644
index 0000000000..02422dedff
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-edffile/package.py
@@ -0,0 +1,40 @@
+##############################################################################
+# Copyright (c) 2013-2016, 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 LICENSE file 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 PyEdffile(PythonPackage):
+    """Generic class for Edf files manipulation."""
+
+    homepage = "https://github.com/vasole/pymca/blob/master/PyMca5/PyMcaIO/EdfFile.py"
+    url      = "https://github.com/conda-forge/edffile-feedstock.git"
+
+    version('5.0.0', git='https://github.com/conda-forge/edffile-feedstock.git',
+            commit='be5ab4199db9f8209c59e31874934b8536b52301')
+
+    depends_on('py-setuptools', type='build')
+    depends_on('py-numpy', type=('build', 'run'))
+
+    build_directory = 'recipe/src'
diff --git a/var/spack/repos/builtin/packages/py-spefile/package.py b/var/spack/repos/builtin/packages/py-spefile/package.py
new file mode 100644
index 0000000000..6279391bbd
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-spefile/package.py
@@ -0,0 +1,41 @@
+##############################################################################
+# Copyright (c) 2013-2016, 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 LICENSE file 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 PySpefile(PythonPackage):
+    """Reader for SPE files part of pyspec a set of python routines for data
+       analysis of x-ray scattering experiments"""
+
+    homepage = "https://github.com/conda-forge/spefile-feedstock"
+    url      = "https://github.com/conda-forge/spefile-feedstock.git"
+
+    version('1.6', git='https://github.com/conda-forge/spefile-feedstock.git',
+            commit='24394e066da8dee5e7608f556ca0203c9db217f9')
+
+    depends_on('py-setuptools', type='build')
+    depends_on('py-numpy', type='run')
+
+    build_directory = 'recipe/src'
diff --git a/var/spack/repos/builtin/packages/py-tifffile/package.py b/var/spack/repos/builtin/packages/py-tifffile/package.py
new file mode 100644
index 0000000000..4412352db1
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-tifffile/package.py
@@ -0,0 +1,37 @@
+##############################################################################
+# Copyright (c) 2013-2016, 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 LICENSE file 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 PyTifffile(PythonPackage):
+    """Read and write image data from and to TIFF files."""
+
+    homepage = "https://github.com/blink1073/tifffile"
+    url      = "https://pypi.io/packages/source/t/tifffile/tifffile-0.12.1.tar.gz"
+
+    version('0.12.1', '8a8afa74dd0df7915ac376a6cd7eeffc')
+
+    depends_on('py-setuptools', type='build')
+    depends_on('py-numpy@1.8.2:',        type=('build', 'run'))