added standard license headers

HEADER

@@ -0,0 +1,4 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details

cubical/MBTiggerSim.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 import collections
 import functools
 import types

cubical/TiggerSourceProvider.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 import logging
 import numpy as np
 

cubical/__init__.py

@@ -0,0 +1,4 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details

cubical/data_handler.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 import numpy as np
 from collections import Counter, OrderedDict
 import pyrap.tables as pt

cubical/flagging.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 # this is to keep matplotlib from falling over when no DISPLAY is set (which it otherwise does, even if one is only
 # trying to save figures to .png...)
 import matplotlib

cubical/kernels/__init__.py

@@ -0,0 +1,4 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details

cubical/kernels/cychain.pyx

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cython.parallel import prange, parallel
 import numpy as np
 cimport numpy as np

cubical/kernels/cyf_slope.pyx

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cython.parallel import prange, parallel
 import numpy as np
 cimport numpy as np

cubical/kernels/cyfull_W_complex.pyx

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cython.parallel import prange, parallel
 import numpy as np
 cimport numpy as np

cubical/kernels/cyfull_complex.pyx

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cython.parallel import prange, parallel
 import numpy as np
 cimport numpy as np

cubical/kernels/cyphase_only.pyx

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cython.parallel import prange, parallel
 import numpy as np
 cimport numpy as np

cubical/kernels/cyt_slope.pyx

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cython.parallel import prange, parallel
 import numpy as np
 cimport numpy as np

cubical/kernels/cytf_plane.pyx

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cython.parallel import prange, parallel
 import numpy as np
 cimport numpy as np

cubical/machines/__init__.py

@@ -0,0 +1,4 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details

cubical/machines/abstract_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from abc import ABCMeta, abstractmethod, abstractproperty
 import numpy as np
 from numpy.ma import masked_array

cubical/machines/complex_2x2_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cubical.machines.interval_gain_machine import PerIntervalGains
 import numpy as np
 import cubical.kernels.cyfull_complex as cyfull

cubical/machines/complex_W_2x2_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cubical.machines.interval_gain_machine import PerIntervalGains
 import numpy as np
 import cubical.kernels.cyfull_W_complex as cyfull

cubical/machines/interval_gain_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from abc import ABCMeta, abstractmethod
 import numpy as np
 from cubical.flagging import FL

cubical/machines/jones_chain_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cubical.machines.abstract_machine import MasterMachine
 from cubical.machines.complex_2x2_machine import Complex2x2Gains
 import numpy as np

cubical/machines/parameterised_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from abc import ABCMeta, abstractmethod
 import numpy as np
 from cubical.flagging import FL

cubical/machines/phase_diag_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cubical.machines.interval_gain_machine import PerIntervalGains
 import numpy as np
 import cubical.kernels.cyphase_only as cyphase

cubical/machines/slope_machine.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 from cubical.machines.parameterised_machine import ParameterisedGains
 import numpy as np
 from cubical.flagging import FL

cubical/main.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 import cPickle
 import os
 import os.path

cubical/param_db.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 import cPickle, os, os.path
 import numpy as np
 from numpy.ma import masked_array

cubical/plots.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 import matplotlib
 matplotlib.use("Agg")
 

cubical/solver.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 """
 Implements the solver loop
 """

cubical/statistics.py

@@ -1,3 +1,7 @@
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 import math
 import numpy as np
 import cPickle

cubical/tools/ClassPrint.py

@@ -1,22 +1,10 @@
-'''
-DDFacet, a facet-based radio imaging package
-Copyright (C) 2013-2016  Cyril Tasse, l'Observatoire de Paris,
-SKA South Africa, Rhodes University
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 
-This program is free software; you can redistribute it and/or
-modify it under the terms of the GNU General Public License
-as published by the Free Software Foundation; either version 2
-of the License, or (at your option) any later version.
-
-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
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program; if not, write to the Free Software
-Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
-'''
+# This module has been adapted from the DDFacet package,
+# (c) Cyril Tasse et al., see http://github.com/saopicc/DDFacet
 
 import os
 import sys

cubical/tools/ModColor.py

@@ -1,22 +1,10 @@
-'''
-DDFacet, a facet-based radio imaging package
-Copyright (C) 2013-2016  Cyril Tasse, l'Observatoire de Paris,
-SKA South Africa, Rhodes University
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
 
-This program is free software; you can redistribute it and/or
-modify it under the terms of the GNU General Public License
-as published by the Free Software Foundation; either version 2
-of the License, or (at your option) any later version.
-
-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
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program; if not, write to the Free Software
-Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
-'''
+# This module has been adapted from the DDFacet package,
+# (c) Cyril Tasse et al., see http://github.com/saopicc/DDFacet
 
 HEADER = '\033[95m'
 OKBLUE = '\033[94m'

cubical/tools/NpShared.py

@@ -1,22 +1,11 @@
-'''
-DDFacet, a facet-based radio imaging package
-Copyright (C) 2013-2016  Cyril Tasse, l'Observatoire de Paris,
-SKA South Africa, Rhodes University
-
-This program is free software; you can redistribute it and/or
-modify it under the terms of the GNU General Public License
-as published by the Free Software Foundation; either version 2
-of the License, or (at your option) any later version.
-
-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
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program; if not, write to the Free Software
-Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
-'''
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
+
+
+# This module has been adapted from the DDFacet package,
+# (c) Cyril Tasse et al., see http://github.com/saopicc/DDFacet
 
 #import sharedarray.SharedArray as SharedArray
 import SharedArray

cubical/tools/__init__.py

@@ -1,19 +1,4 @@
-'''
-DDFacet, a facet-based radio imaging package
-Copyright (C) 2013-2016  Cyril Tasse, l'Observatoire de Paris,
-SKA South Africa, Rhodes University
-
-This program is free software; you can redistribute it and/or
-modify it under the terms of the GNU General Public License
-as published by the Free Software Foundation; either version 2
-of the License, or (at your option) any later version.
-
-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
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program; if not, write to the Free Software
-Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
-'''
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details

cubical/tools/logger.py

@@ -1,22 +1,10 @@
-'''
-DDFacet, a facet-based radio imaging package
-Copyright (C) 2013-2016  Cyril Tasse, l'Observatoire de Paris,
-SKA South Africa, Rhodes University
-
-This program is free software; you can redistribute it and/or
-modify it under the terms of the GNU General Public License
-as published by the Free Software Foundation; either version 2
-of the License, or (at your option) any later version.
-
-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
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program; if not, write to the Free Software
-Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
-'''
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
+
+# This module has been adapted from the DDFacet package,
+# (c) Cyril Tasse et al., see http://github.com/saopicc/DDFacet
 
 import logging
 import os

cubical/tools/myoptparse.py

@@ -1,23 +1,10 @@
-#!/usr/bin/env python
-'''
-DDFacet, a facet-based radio imaging package
-Copyright (C) 2013-2016  Cyril Tasse, l'Observatoire de Paris,
-SKA South Africa, Rhodes University
-
-This program is free software; you can redistribute it and/or
-modify it under the terms of the GNU General Public License
-as published by the Free Software Foundation; either version 2
-of the License, or (at your option) any later version.
-
-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
-GNU General Public License for more details.
-
-You should have received a copy of the GNU General Public License
-along with this program; if not, write to the Free Software
-Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
-'''
+# CubiCal: a radio interferometric calibration suite
+# (c) 2017 Rhodes University & Jonathan S. Kenyon
+# http://github.com/ratt-ru/CubiCal
+# This code is distributed under the terms of GPLv2, see LICENSE.md for details
+
+# This module has been adapted from the DDFacet package,
+# (c) Cyril Tasse et al., see http://github.com/saopicc/DDFacet
 
 import collections
 import optparse as OptParse