diff --git a/IO/IOHelpers.h b/IO/IOHelpers.h
index 2e9b06e0..eca4b0db 100644
--- a/IO/IOHelpers.h
+++ b/IO/IOHelpers.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef IO_HELPERS_INC
#define IO_HELPERS_INC
diff --git a/IO/Mesh.cpp b/IO/Mesh.cpp
index eb712296..ec95c184 100644
--- a/IO/Mesh.cpp
+++ b/IO/Mesh.cpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "Mesh.h"
#include "common/Utilities.h"
diff --git a/IO/Mesh.h b/IO/Mesh.h
index b204675a..fec23021 100644
--- a/IO/Mesh.h
+++ b/IO/Mesh.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef MESH_INC
#define MESH_INC
diff --git a/IO/MeshDatabase.cpp b/IO/MeshDatabase.cpp
index 1fad9231..602a93dc 100644
--- a/IO/MeshDatabase.cpp
+++ b/IO/MeshDatabase.cpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "IO/MeshDatabase.h"
#include "IO/Mesh.h"
#include "IO/IOHelpers.h"
diff --git a/IO/MeshDatabase.h b/IO/MeshDatabase.h
index 9f544925..d5214e44 100644
--- a/IO/MeshDatabase.h
+++ b/IO/MeshDatabase.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef MeshDatabase_INC
#define MeshDatabase_INC
diff --git a/IO/PIO.cpp b/IO/PIO.cpp
index 6c6ece2d..6554bf15 100644
--- a/IO/PIO.cpp
+++ b/IO/PIO.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "IO/PIO.h"
#include "common/Utilities.h"
#include "common/MPI_Helpers.h"
diff --git a/IO/PIO.h b/IO/PIO.h
index b6d8b103..99a9b3be 100644
--- a/IO/PIO.h
+++ b/IO/PIO.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_PIO
#define included_PIO
diff --git a/IO/PIO.hpp b/IO/PIO.hpp
index 67b32cdb..add86db4 100644
--- a/IO/PIO.hpp
+++ b/IO/PIO.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_PIO_hpp
#define included_PIO_hpp
diff --git a/IO/Reader.cpp b/IO/Reader.cpp
index dedb9b82..4c9074ae 100644
--- a/IO/Reader.cpp
+++ b/IO/Reader.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "IO/Reader.h"
#include "IO/Mesh.h"
#include "IO/MeshDatabase.h"
diff --git a/IO/Reader.h b/IO/Reader.h
index 4230ff8f..56f0ea52 100644
--- a/IO/Reader.h
+++ b/IO/Reader.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef READER_INC
#define READER_INC
diff --git a/IO/Writer.cpp b/IO/Writer.cpp
index 6581ad42..baa634ac 100644
--- a/IO/Writer.cpp
+++ b/IO/Writer.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "IO/Writer.h"
#include "IO/MeshDatabase.h"
#include "IO/IOHelpers.h"
diff --git a/IO/Writer.h b/IO/Writer.h
index 710fa0d8..5f959fdb 100644
--- a/IO/Writer.h
+++ b/IO/Writer.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef WRITER_INC
#define WRITER_INC
diff --git a/IO/netcdf.cpp b/IO/netcdf.cpp
index b36bb6d6..04c65273 100644
--- a/IO/netcdf.cpp
+++ b/IO/netcdf.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "IO/netcdf.h"
#include "common/Utilities.h"
#include "common/MPI_Helpers.h"
diff --git a/IO/netcdf.h b/IO/netcdf.h
index 657747bf..289a228f 100644
--- a/IO/netcdf.h
+++ b/IO/netcdf.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef NETCDF_READER
#define NETCDF_READER
diff --git a/IO/silo.cpp b/IO/silo.cpp
index eece8583..8051c5a5 100644
--- a/IO/silo.cpp
+++ b/IO/silo.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "IO/silo.h"
#include "common/Utilities.h"
#include "common/MPI_Helpers.h"
diff --git a/IO/silo.h b/IO/silo.h
index 4c7081e5..178958bc 100644
--- a/IO/silo.h
+++ b/IO/silo.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef SILO_INTERFACE
#define SILO_INTERFACE
diff --git a/IO/silo.hpp b/IO/silo.hpp
index 312f32d8..938baec3 100644
--- a/IO/silo.hpp
+++ b/IO/silo.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef SILO_INTERFACE_HPP
#define SILO_INTERFACE_HPP
diff --git a/LICENSE b/LICENSE
index 31274f6d..72128316 100644
--- a/LICENSE
+++ b/LICENSE
@@ -1,3 +1,677 @@
+ GNU GENERAL PUBLIC LICENSE
+ Version 3, 29 June 2007
+
+ Copyright (C) 2007 Free Software Foundation, Inc.
+ Everyone is permitted to copy and distribute verbatim copies
+ of this license document, but changing it is not allowed.
+
+ Preamble
+
+ The GNU General Public License is a free, copyleft license for
+software and other kinds of works.
+
+ The licenses for most software and other practical works are designed
+to take away your freedom to share and change the works. By contrast,
+the GNU General Public License is intended to guarantee your freedom to
+share and change all versions of a program--to make sure it remains free
+software for all its users. We, the Free Software Foundation, use the
+GNU General Public License for most of our software; it applies also to
+any other work released this way by its authors. You can apply it to
+your programs, too.
+
+ When we speak of free software, we are referring to freedom, not
+price. Our General Public Licenses are designed to make sure that you
+have the freedom to distribute copies of free software (and charge for
+them if you wish), that you receive source code or can get it if you
+want it, that you can change the software or use pieces of it in new
+free programs, and that you know you can do these things.
+
+ To protect your rights, we need to prevent others from denying you
+these rights or asking you to surrender the rights. Therefore, you have
+certain responsibilities if you distribute copies of the software, or if
+you modify it: responsibilities to respect the freedom of others.
+
+ For example, if you distribute copies of such a program, whether
+gratis or for a fee, you must pass on to the recipients the same
+freedoms that you received. You must make sure that they, too, receive
+or can get the source code. And you must show them these terms so they
+know their rights.
+
+ Developers that use the GNU GPL protect your rights with two steps:
+(1) assert copyright on the software, and (2) offer you this License
+giving you legal permission to copy, distribute and/or modify it.
+
+ For the developers' and authors' protection, the GPL clearly explains
+that there is no warranty for this free software. For both users' and
+authors' sake, the GPL requires that modified versions be marked as
+changed, so that their problems will not be attributed erroneously to
+authors of previous versions.
+
+ Some devices are designed to deny users access to install or run
+modified versions of the software inside them, although the manufacturer
+can do so. This is fundamentally incompatible with the aim of
+protecting users' freedom to change the software. The systematic
+pattern of such abuse occurs in the area of products for individuals to
+use, which is precisely where it is most unacceptable. Therefore, we
+have designed this version of the GPL to prohibit the practice for those
+products. If such problems arise substantially in other domains, we
+stand ready to extend this provision to those domains in future versions
+of the GPL, as needed to protect the freedom of users.
+
+ Finally, every program is threatened constantly by software patents.
+States should not allow patents to restrict development and use of
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+avoid the special danger that patents applied to a free program could
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+patents cannot be used to render the program non-free.
+
+ The precise terms and conditions for copying, distribution and
+modification follow.
+
+ TERMS AND CONDITIONS
+
+ 0. Definitions.
+
+ "This License" refers to version 3 of the GNU General Public License.
+
+ "Copyright" also means copyright-like laws that apply to other kinds of
+works, such as semiconductor masks.
+
+ "The Program" refers to any copyrightable work licensed under this
+License. Each licensee is addressed as "you". "Licensees" and
+"recipients" may be individuals or organizations.
+
+ To "modify" a work means to copy from or adapt all or part of the work
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+exact copy. The resulting work is called a "modified version" of the
+earlier work or a work "based on" the earlier work.
+
+ A "covered work" means either the unmodified Program or a work based
+on the Program.
+
+ To "propagate" a work means to do anything with it that, without
+permission, would make you directly or secondarily liable for
+infringement under applicable copyright law, except executing it on a
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+ To "convey" a work means any kind of propagation that enables other
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+tells the user that there is no warranty for the work (except to the
+extent that warranties are provided), that licensees may convey the
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+ The "source code" for a work means the preferred form of the work
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+such as by intimate data communication or control flow between those
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+ The Corresponding Source need not include anything that users
+can regenerate automatically from other parts of the Corresponding
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+ The Corresponding Source for a work in source code form is that
+same work.
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+ 2. Basic Permissions.
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+ All rights granted under this License are granted for the term of
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+ 3. Protecting Users' Legal Rights From Anti-Circumvention Law.
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+ 12. No Surrender of Others' Freedom.
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+
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+
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+ 14. Revised Versions of this License.
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+be similar in spirit to the present version, but may differ in detail to
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+later version.
+
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+
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+SUCH DAMAGES.
+
+ 17. Interpretation of Sections 15 and 16.
+
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+above cannot be given local legal effect according to their terms,
+reviewing courts shall apply local law that most closely approximates
+an absolute waiver of all civil liability in connection with the
+Program, unless a warranty or assumption of liability accompanies a
+copy of the Program in return for a fee.
+
+ END OF TERMS AND CONDITIONS
+
+ How to Apply These Terms to Your New Programs
+
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+possible use to the public, the best way to achieve this is to make it
+free software which everyone can redistribute and change under these terms.
+
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+to attach them to the start of each source file to most effectively
+state the exclusion of warranty; and each file should have at least
+the "copyright" line and a pointer to where the full notice is found.
+
+
+ Copyright (C)
+
+ 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 3 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, see .
+
+Also add information on how to contact you by electronic and paper mail.
+
+ If the program does terminal interaction, make it output a short
+notice like this when it starts in an interactive mode:
+
+ Copyright (C)
+ This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
+ This is free software, and you are welcome to redistribute it
+ under certain conditions; type `show c' for details.
+
+The hypothetical commands `show w' and `show c' should show the appropriate
+parts of the General Public License. Of course, your program's commands
+might be different; for a GUI interface, you would use an "about box".
+
+ You should also get your employer (if you work as a programmer) or school,
+if any, to sign a "copyright disclaimer" for the program, if necessary.
+For more information on this, and how to apply and follow the GNU GPL, see
+.
+
+ The GNU General Public License does not permit incorporating your program
+into proprietary programs. If your program is a subroutine library, you
+may consider it more useful to permit linking proprietary applications with
+the library. If this is what you want to do, use the GNU Lesser General
+Public License instead of this License. But first, please read
+.
Copyright (c) 2015, JamesEMcClure
All rights reserved.
@@ -21,4 +695,3 @@ SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
-
diff --git a/README.md b/README.md
index acad2c4b..fc758bc9 100644
--- a/README.md
+++ b/README.md
@@ -23,7 +23,7 @@ Configure, build & install procedure
* edit configure script from sample_scripts directory and configure (e.g.)
- `/path/to/LBPM-WIA/sample_scripts/configure_desktop`
+ `/path/to/LBPM/sample_scripts/configure_desktop`
* compile and install
diff --git a/StackTrace/StackTrace.h b/StackTrace/StackTrace.h
index 3773509c..7aab2d72 100644
--- a/StackTrace/StackTrace.h
+++ b/StackTrace/StackTrace.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_StackTrace
#define included_StackTrace
diff --git a/analysis/Minkowski.cpp b/analysis/Minkowski.cpp
index 668875b9..e64b2c70 100644
--- a/analysis/Minkowski.cpp
+++ b/analysis/Minkowski.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "analysis/Minkowski.h"
#include "analysis/pmmc.h"
#include "analysis/analysis.h"
diff --git a/analysis/Minkowski.h b/analysis/Minkowski.h
index ce3af874..b1e3b2a0 100644
--- a/analysis/Minkowski.h
+++ b/analysis/Minkowski.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Header file for two-phase averaging class
#ifndef Minkowski_INC
#define Minkowski_INC
diff --git a/analysis/PointList.h b/analysis/PointList.h
index 2ea39345..a5d0fa40 100644
--- a/analysis/PointList.h
+++ b/analysis/PointList.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef PointList_INC
#define PointList_INC
diff --git a/analysis/TwoPhase.cpp b/analysis/TwoPhase.cpp
index 9b2e5fd8..0bc9a5fd 100644
--- a/analysis/TwoPhase.cpp
+++ b/analysis/TwoPhase.cpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "analysis/TwoPhase.h"
#include "analysis/pmmc.h"
diff --git a/analysis/TwoPhase.h b/analysis/TwoPhase.h
index fddd04e8..20a11c34 100644
--- a/analysis/TwoPhase.h
+++ b/analysis/TwoPhase.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Header file for two-phase averaging class
#ifndef TwoPhase_INC
#define TwoPhase_INC
diff --git a/analysis/analysis.cpp b/analysis/analysis.cpp
index 7587f3c5..f81fdda5 100644
--- a/analysis/analysis.cpp
+++ b/analysis/analysis.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "analysis/analysis.h"
#include "ProfilerApp.h"
diff --git a/analysis/analysis.h b/analysis/analysis.h
index 2ce531b1..ea5fab68 100644
--- a/analysis/analysis.h
+++ b/analysis/analysis.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef Analysis_H_INC
#define Analysis_H_INC
diff --git a/analysis/distance.cpp b/analysis/distance.cpp
index fd48f7c7..4cce3cb5 100644
--- a/analysis/distance.cpp
+++ b/analysis/distance.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "analysis/distance.h"
diff --git a/analysis/distance.h b/analysis/distance.h
index d6c2740c..26d7dfe7 100644
--- a/analysis/distance.h
+++ b/analysis/distance.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef Distance_H_INC
#define Distance_H_INC
diff --git a/analysis/filters.cpp b/analysis/filters.cpp
index b71e4369..5e06cdda 100644
--- a/analysis/filters.cpp
+++ b/analysis/filters.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "analysis/filters.h"
#include "math.h"
#include "ProfilerApp.h"
diff --git a/analysis/filters.h b/analysis/filters.h
index 404fb265..fb436c55 100644
--- a/analysis/filters.h
+++ b/analysis/filters.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef Filters_H_INC
#define Filters_H_INC
diff --git a/analysis/histogram.h b/analysis/histogram.h
index 3d8b5ff2..62e8c279 100644
--- a/analysis/histogram.h
+++ b/analysis/histogram.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
/*
* Generate a histogram for volumetric, interfacial and common curve properties
* copyright 2014, James E. McClure
diff --git a/analysis/imfilter.h b/analysis/imfilter.h
index b1c4040a..3f7f9301 100644
--- a/analysis/imfilter.h
+++ b/analysis/imfilter.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// These functions mimic the behavior of imfilter in MATLAB
#ifndef included_imfilter
#define included_imfilter
diff --git a/analysis/imfilter.hpp b/analysis/imfilter.hpp
index 9816beca..7d13d54d 100644
--- a/analysis/imfilter.hpp
+++ b/analysis/imfilter.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "analysis/imfilter.h"
#include "ProfilerApp.h"
#include
diff --git a/analysis/pmmc.h b/analysis/pmmc.h
index b56a2796..436420e3 100644
--- a/analysis/pmmc.h
+++ b/analysis/pmmc.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef pmmc_INC
#define pmmc_INC
diff --git a/analysis/runAnalysis.cpp b/analysis/runAnalysis.cpp
index 7150ab31..4eabd1f7 100644
--- a/analysis/runAnalysis.cpp
+++ b/analysis/runAnalysis.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Run the analysis, blob identification, and write restart files
#include "analysis/runAnalysis.h"
#include "analysis/analysis.h"
diff --git a/analysis/runAnalysis.h b/analysis/runAnalysis.h
index 0bf2f676..2a39d25e 100644
--- a/analysis/runAnalysis.h
+++ b/analysis/runAnalysis.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef RunAnalysis_H_INC
#define RunAnalysis_H_INC
diff --git a/analysis/uCT.cpp b/analysis/uCT.cpp
index 912f8e85..ea3b3cd6 100644
--- a/analysis/uCT.cpp
+++ b/analysis/uCT.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "analysis/uCT.h"
#include "analysis/analysis.h"
#include "analysis/distance.h"
diff --git a/analysis/uCT.h b/analysis/uCT.h
index 284aac61..63be1a56 100644
--- a/analysis/uCT.h
+++ b/analysis/uCT.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef uCT_H_INC
#define uCT_H_INC
diff --git a/common/Array.h b/common/Array.h
index 2dccfde8..af4274b0 100644
--- a/common/Array.h
+++ b/common/Array.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_ArrayClass
#define included_ArrayClass
diff --git a/common/Array.hpp b/common/Array.hpp
index 2ad07ea4..e62ad247 100644
--- a/common/Array.hpp
+++ b/common/Array.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_ArrayClass_hpp
#define included_ArrayClass_hpp
diff --git a/common/Communication.cpp b/common/Communication.cpp
index f4711892..3f669c3f 100644
--- a/common/Communication.cpp
+++ b/common/Communication.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "common/Communication.h"
diff --git a/common/Communication.h b/common/Communication.h
index 7819a0bb..dc121c3f 100644
--- a/common/Communication.h
+++ b/common/Communication.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef COMMUNICATION_H_INC
#define COMMUNICATION_H_INC
diff --git a/common/Communication.hpp b/common/Communication.hpp
index 33fed3a7..b1f8ecc4 100644
--- a/common/Communication.hpp
+++ b/common/Communication.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef COMMUNICATION_HPP_INC
#define COMMUNICATION_HPP_INC
diff --git a/common/Database.cpp b/common/Database.cpp
index d318cc03..ab01ef3b 100644
--- a/common/Database.cpp
+++ b/common/Database.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "common/Database.h"
#include "common/Utilities.h"
diff --git a/common/Database.h b/common/Database.h
index dc2f846c..6aaa0dd1 100644
--- a/common/Database.h
+++ b/common/Database.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_Database
#define included_Database
diff --git a/common/Database.hpp b/common/Database.hpp
index 37a89af0..1a906736 100644
--- a/common/Database.hpp
+++ b/common/Database.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_Database_hpp
#define included_Database_hpp
diff --git a/common/Domain.cpp b/common/Domain.cpp
index 6368b5e2..9296f51f 100644
--- a/common/Domain.cpp
+++ b/common/Domain.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Created by James McClure
// Copyright 2008-2013
#include
diff --git a/common/Domain.h b/common/Domain.h
old mode 100755
new mode 100644
index 6cd4230f..8c7e520f
--- a/common/Domain.h
+++ b/common/Domain.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef Domain_INC
#define Domain_INC
diff --git a/common/FunctionTable.h b/common/FunctionTable.h
index d0e8565d..c1c4d10c 100644
--- a/common/FunctionTable.h
+++ b/common/FunctionTable.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_FunctionTable
#define included_FunctionTable
diff --git a/common/FunctionTable.hpp b/common/FunctionTable.hpp
index e5fc7786..1b1689d8 100644
--- a/common/FunctionTable.hpp
+++ b/common/FunctionTable.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_FunctionTable_hpp
#define included_FunctionTable_hpp
diff --git a/common/MPI_Helpers.cpp b/common/MPI_Helpers.cpp
index 736a2f02..5b4e2457 100644
--- a/common/MPI_Helpers.cpp
+++ b/common/MPI_Helpers.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "common/MPI_Helpers.h"
#include "common/Utilities.h"
diff --git a/common/MPI_Helpers.h b/common/MPI_Helpers.h
index 1d20318e..2d33e499 100644
--- a/common/MPI_Helpers.h
+++ b/common/MPI_Helpers.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// This file contains wrappers for MPI routines and functions to pack/unpack data structures
#ifndef MPI_WRAPPERS_INC
#define MPI_WRAPPERS_INC
diff --git a/common/MPI_Helpers.hpp b/common/MPI_Helpers.hpp
index 85261cf1..2a82f90c 100644
--- a/common/MPI_Helpers.hpp
+++ b/common/MPI_Helpers.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// This file contains wrappers for MPI routines and functions to pack/unpack data structures
#ifndef MPI_WRAPPERS_HPP
#define MPI_WRAPPERS_HPP
diff --git a/common/ScaLBL.cpp b/common/ScaLBL.cpp
index cc9e12aa..7bb0dc31 100644
--- a/common/ScaLBL.cpp
+++ b/common/ScaLBL.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "common/ScaLBL.h"
ScaLBL_Communicator::ScaLBL_Communicator(std::shared_ptr Dm){
diff --git a/common/ScaLBL.h b/common/ScaLBL.h
index 52533885..b63367fc 100644
--- a/common/ScaLBL.h
+++ b/common/ScaLBL.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
/* ScaLBL.h
* Header file for Scalable Lattice Boltzmann Library
* Separate implementations for GPU and CPU must both follow the conventions defined in this header
@@ -119,6 +134,59 @@ extern "C" void ScaLBL_D3Q19_AAeven_Greyscale_MRT(double *dist, int start, int f
extern "C" void ScaLBL_D3Q19_AAodd_Greyscale_MRT(int *neighborList, double *dist, int start, int finish, int Np, double rlx, double rlx_eff, double Fx, double Fy, double Fz,
double *Poros,double *Perm, double *Velocity,double Den,double *Pressure);
+
+extern "C" void ScaLBL_D3Q19_AAeven_GreyscaleColor(int *Map, double *dist, double *Aq, double *Bq, double *Den,
+ double *Phi,double *GreySolidGrad, double *Poros,double *Perm,double *Vel,
+ double rhoA, double rhoB, double tauA, double tauB,double tauA_eff,double tauB_eff, double alpha, double beta,
+ double Fx, double Fy, double Fz, int strideY, int strideZ, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q19_AAodd_GreyscaleColor(int *d_neighborList, int *Map, double *dist, double *Aq, double *Bq, double *Den,
+ double *Phi, double *GreySolidGrad, double *Poros,double *Perm,double *Vel,
+ double rhoA, double rhoB, double tauA, double tauB, double tauA_eff,double tauB_eff, double alpha, double beta,
+ double Fx, double Fy, double Fz, int strideY, int strideZ, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_AAodd_IonConcentration(int *neighborList, double *dist, double *Den, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_AAeven_IonConcentration(double *dist, double *Den, int start, int finish, int Np);
+
+
+extern "C" void ScaLBL_D3Q7_AAodd_Ion(int *neighborList, double *dist, double *Den, double *Velocity, double *ElectricField,
+ double Di, int zi, double rlx, double Vt, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_AAeven_Ion(double *dist, double *Den, double *Velocity, double *ElectricField,
+ double Di, int zi, double rlx, double Vt, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_Ion_Init(double *dist, double *Den, double DenInit, int Np);
+extern "C" void ScaLBL_D3Q7_Ion_Init_FromFile(double *dist, double *Den, int Np);
+
+extern "C" void ScaLBL_D3Q7_Ion_ChargeDensity(double *Den, double *ChargeDensity, int IonValence, int ion_component, int start, int finish, int Np);
+
+// LBM Poisson solver
+
+extern "C" void ScaLBL_D3Q7_AAodd_Poisson(int *neighborList,int *Map, double *dist, double *Den_charge, double *Psi, double *ElectricField, double tau, double epsilon_LB,
+ int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_AAeven_Poisson(int *Map, double *dist, double *Den_charge, double *Psi, double *ElectricField, double tau, double epsilon_LB,
+ int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_AAodd_Poisson_ElectricPotential(int *neighborList,int *Map, double *dist, double *Psi, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_AAeven_Poisson_ElectricPotential(int *Map, double *dist, double *Psi, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q7_Poisson_Init(int *Map, double *dist, double *Psi, int start, int finish, int Np);
+
+//maybe deprecated
+//extern "C" void ScaLBL_D3Q7_Poisson_ElectricField(int *neighborList, int *Map, signed char *ID, double *Psi, double *ElectricField, int SolidBC,
+// int strideY, int strideZ,int start, int finish, int Np);
+
+// LBM Stokes Model (adapted from MRT model)
+
+extern "C" void ScaLBL_D3Q19_AAeven_StokesMRT(double *dist, double *Velocity, double *ChargeDensity, double *ElectricField, double rlx_setA, double rlx_setB,
+ double Gx, double Gy, double Gz,double rho0, double den_scale, double h, double time_conv, int start, int finish, int Np);
+
+extern "C" void ScaLBL_D3Q19_AAodd_StokesMRT(int *neighborList, double *dist, double *Velocity, double *ChargeDensity, double *ElectricField, double rlx_setA, double rlx_setB,
+ double Gx, double Gy, double Gz, double rho0, double den_scale, double h, double time_conv,int start, int finish, int Np);
+
// GREYSCALE FREE-ENERGY MODEL (Two-component)
//extern "C" void ScaLBL_D3Q19_AAeven_GreyscaleFE(double *dist, double *Aq, double *Bq, double *Den,
@@ -408,6 +476,10 @@ public:
void GreyscaleSC_BC_Z(int *Map, double *DenA, double *DenB, double vA, double vB);
void GreyscaleSC_Pressure_BC_z(int *neighborList, double *fqA, double *fqB, double dinA, double dinB, int time);
void GreyscaleSC_Pressure_BC_Z(int *neighborList, double *fqA, double *fqB, double doutA, double doutB, int time);
+ void GreyscaleSC_BC_z(int *Map, double *DenA, double *DenB, double vA, double vB);
+ void GreyscaleSC_BC_Z(int *Map, double *DenA, double *DenB, double vA, double vB);
+ void GreyscaleSC_Pressure_BC_z(int *neighborList, double *fqA, double *fqB, double dinA, double dinB, int time);
+ void GreyscaleSC_Pressure_BC_Z(int *neighborList, double *fqA, double *fqB, double doutA, double doutB, int time);
// Debugging and unit testing functions
void PrintD3Q19();
diff --git a/common/SpherePack.cpp b/common/SpherePack.cpp
index a7246b72..907c4c74 100644
--- a/common/SpherePack.cpp
+++ b/common/SpherePack.cpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
#include
#include
diff --git a/common/SpherePack.h b/common/SpherePack.h
index 5075b289..59a46c9c 100644
--- a/common/SpherePack.h
+++ b/common/SpherePack.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef SpherePack_INC
#define SpherePack_INC
diff --git a/common/UnitTest.cpp b/common/UnitTest.cpp
old mode 100755
new mode 100644
index b995fa68..ce671e87
--- a/common/UnitTest.cpp
+++ b/common/UnitTest.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "common/UnitTest.h"
#include "common/Utilities.h"
#include
diff --git a/common/UnitTest.h b/common/UnitTest.h
old mode 100755
new mode 100644
index 80503d19..92af309d
--- a/common/UnitTest.h
+++ b/common/UnitTest.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_UnitTest
#define included_UnitTest
diff --git a/common/Units.cpp b/common/Units.cpp
index 8cef9832..9c374bdc 100644
--- a/common/Units.cpp
+++ b/common/Units.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "common/Units.h"
#include "common/Utilities.h"
diff --git a/common/Units.h b/common/Units.h
index a3496ee1..441f1275 100644
--- a/common/Units.h
+++ b/common/Units.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_Units
#define included_Units
diff --git a/common/Utilities.cpp b/common/Utilities.cpp
index 9c89e024..6082f7dd 100644
--- a/common/Utilities.cpp
+++ b/common/Utilities.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "common/Utilities.h"
#include "StackTrace/StackTrace.h"
#include "StackTrace/ErrorHandlers.h"
diff --git a/common/Utilities.h b/common/Utilities.h
index da579966..fc3f3e4b 100644
--- a/common/Utilities.h
+++ b/common/Utilities.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_Utilities
#define included_Utilities
diff --git a/common/UtilityMacros.h b/common/UtilityMacros.h
index bfac172f..fb501c1d 100644
--- a/common/UtilityMacros.h
+++ b/common/UtilityMacros.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// This file contains useful macros including ERROR, WARNING, INSIST, ASSERT, etc.
#ifndef included_UtilityMacros
#define included_UtilityMacros
diff --git a/cpu/BGK.cpp b/cpu/BGK.cpp
index 436ab381..d0249ead 100644
--- a/cpu/BGK.cpp
+++ b/cpu/BGK.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
extern "C" void ScaLBL_D3Q19_AAeven_BGK(double *dist, int start, int finish, int Np, double rlx, double Fx, double Fy, double Fz){
int n;
// conserved momemnts
diff --git a/cpu/Color.cpp b/cpu/Color.cpp
index 35cbd5fd..48578fc0 100644
--- a/cpu/Color.cpp
+++ b/cpu/Color.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
#define STOKES
diff --git a/cpu/D3Q19.cpp b/cpu/D3Q19.cpp
index a7e46e41..8d897e84 100644
--- a/cpu/D3Q19.cpp
+++ b/cpu/D3Q19.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
extern "C" void ScaLBL_D3Q19_Pack(int q, int *list, int start, int count, double *sendbuf, double *dist, int N){
diff --git a/cpu/D3Q7.cpp b/cpu/D3Q7.cpp
index 48f71495..6cde5433 100644
--- a/cpu/D3Q7.cpp
+++ b/cpu/D3Q7.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// CPU Functions for D3Q7 Lattice Boltzmann Methods
extern "C" void ScaLBL_Scalar_Pack(int *list, int count, double *sendbuf, double *Data, int N){
diff --git a/cpu/Extras.cpp b/cpu/Extras.cpp
index 71f5c04a..e0d19976 100644
--- a/cpu/Extras.cpp
+++ b/cpu/Extras.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Basic cuda functions callable from C/C++ code
#include
#include
diff --git a/cpu/Greyscale.cpp b/cpu/Greyscale.cpp
index 4aab97e2..46c05644 100644
--- a/cpu/Greyscale.cpp
+++ b/cpu/Greyscale.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2020 Equinor ASA
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
extern "C" void ScaLBL_D3Q19_AAeven_Greyscale(double *dist, int start, int finish, int Np, double rlx, double rlx_eff, double Gx, double Gy, double Gz,
diff --git a/cpu/MRT.cpp b/cpu/MRT.cpp
index b3ddb47d..f513c6c2 100644
--- a/cpu/MRT.cpp
+++ b/cpu/MRT.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
extern "C" void INITIALIZE(char *ID, double *f_even, double *f_odd, int Nx, int Ny, int Nz)
{
diff --git a/cpu/dfh.cpp b/cpu/dfh.cpp
index c87bc261..1cbc2db1 100644
--- a/cpu/dfh.cpp
+++ b/cpu/dfh.cpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
#include
diff --git a/cpu/thermal.cpp b/cpu/thermal.cpp
index 24a7de81..9e1f81fb 100644
--- a/cpu/thermal.cpp
+++ b/cpu/thermal.cpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// cpu implementation for thermal lattice boltzmann methods
// copyright James McClure, 2014
diff --git a/gpu/BGK.cu b/gpu/BGK.cu
index b1da88bb..d89e1298 100644
--- a/gpu/BGK.cu
+++ b/gpu/BGK.cu
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
#define NBLOCKS 1024
diff --git a/gpu/Color.cu b/gpu/Color.cu
index aeeb3998..2f70a60d 100644
--- a/gpu/Color.cu
+++ b/gpu/Color.cu
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
#include
#include
diff --git a/gpu/CudaExtras.cu b/gpu/CudaExtras.cu
index 86ec713d..8e3ef955 100644
--- a/gpu/CudaExtras.cu
+++ b/gpu/CudaExtras.cu
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Basic cuda functions callable from C/C++ code
#include
diff --git a/gpu/D3Q19.cu b/gpu/D3Q19.cu
index 5e56922a..d31712b1 100644
--- a/gpu/D3Q19.cu
+++ b/gpu/D3Q19.cu
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
#include
diff --git a/gpu/D3Q7.cu b/gpu/D3Q7.cu
index 8a551f78..2ac58245 100644
--- a/gpu/D3Q7.cu
+++ b/gpu/D3Q7.cu
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// GPU Functions for D3Q7 Lattice Boltzmann Methods
#include
diff --git a/gpu/Extras.cu b/gpu/Extras.cu
index 8aeedc87..e4ad23c0 100644
--- a/gpu/Extras.cu
+++ b/gpu/Extras.cu
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Basic cuda functions callable from C/C++ code
#include
#include
diff --git a/gpu/Greyscale.cu b/gpu/Greyscale.cu
index edf80a16..7b8eeec6 100644
--- a/gpu/Greyscale.cu
+++ b/gpu/Greyscale.cu
@@ -1,3 +1,19 @@
+/*
+ Copyright 2020 Equinor ASA
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+
#include
#define NBLOCKS 1024
diff --git a/gpu/MRT.cu b/gpu/MRT.cu
index e79a41d1..c2cd664e 100644
--- a/gpu/MRT.cu
+++ b/gpu/MRT.cu
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
//*************************************************************************
// CUDA kernels for single-phase ScaLBL_D3Q19_MRT code
// James McClure
diff --git a/gpu/dfh.cu b/gpu/dfh.cu
index dc0ab0af..f4dbe299 100644
--- a/gpu/dfh.cu
+++ b/gpu/dfh.cu
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include
#include
#include
diff --git a/models/ColorModel.cpp b/models/ColorModel.cpp
index 28d2fbe2..a8dcea8f 100644
--- a/models/ColorModel.cpp
+++ b/models/ColorModel.cpp
@@ -1,4 +1,19 @@
- /*
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
color lattice boltzmann model
*/
#include "models/ColorModel.h"
diff --git a/models/ColorModel.h b/models/ColorModel.h
index a3b3a124..11d0bca4 100644
--- a/models/ColorModel.h
+++ b/models/ColorModel.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
/*
Implementation of color lattice boltzmann model
*/
diff --git a/models/GreyscaleModel.cpp b/models/GreyscaleModel.cpp
index b1bceeff..32877fc1 100644
--- a/models/GreyscaleModel.cpp
+++ b/models/GreyscaleModel.cpp
@@ -1,5 +1,19 @@
/*
-Greyscale lattice boltzmann model
+ Copyright 2020 Equinor ASA
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+
+ Greyscale lattice boltzmann model
*/
#include "models/GreyscaleModel.h"
#include "analysis/distance.h"
diff --git a/models/GreyscaleModel.h b/models/GreyscaleModel.h
index 6fe1a108..a5dfcd78 100644
--- a/models/GreyscaleModel.h
+++ b/models/GreyscaleModel.h
@@ -1,5 +1,19 @@
/*
-Implementation of color lattice boltzmann model
+ Copyright 2020 Equinor ASA
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+
+ greyscale lattice boltzmann model
*/
#include
#include
diff --git a/models/MRTModel.cpp b/models/MRTModel.cpp
index b16e1705..c1cf58a1 100644
--- a/models/MRTModel.cpp
+++ b/models/MRTModel.cpp
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
/*
* Multi-relaxation time LBM Model
*/
@@ -412,7 +427,9 @@ void ScaLBL_MRTModel::VelocityField(){
if (rank==0) printf("%.8g %.8g %.8g %.8g %.8g %.8g %.8g %.8g %.8g %.8g %.8g\n",Fx, Fy, Fz, mu,
Morphology.V(),Morphology.A(),Morphology.J(),Morphology.X(),vax,vay,vaz);
*/
-
+ vis_db = db->getDatabase( "Visualization" );
+ if (vis_db->getWithDefault( "write_silo", false )){
+
std::vector visData;
fillHalo fillData(Dm->Comm,Dm->rank_info,{Dm->Nx-2,Dm->Ny-2,Dm->Nz-2},{1,1,1},0,1);
@@ -464,5 +481,5 @@ void ScaLBL_MRTModel::VelocityField(){
fillData.copy(Velocity_z,VelzData);
IO::writeData( timestep, visData, Dm->Comm );
-
+ }
}
diff --git a/models/MRTModel.h b/models/MRTModel.h
index aa4ee1f0..9be72339 100644
--- a/models/MRTModel.h
+++ b/models/MRTModel.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
/*
* Multi-relaxation time LBM Model
*/
@@ -49,6 +64,7 @@ public:
std::shared_ptr db;
std::shared_ptr domain_db;
std::shared_ptr mrt_db;
+ std::shared_ptr vis_db;
IntArray Map;
DoubleArray Distance;
diff --git a/sample_scripts/configure_huckleberry b/sample_scripts/configure_huckleberry
index 8a4a313a..0c438627 100755
--- a/sample_scripts/configure_huckleberry
+++ b/sample_scripts/configure_huckleberry
@@ -7,6 +7,8 @@ module list
module load hdf5/1.8.12
module load silo
+export LBPM_SOURCE_DIR=$HOME/LBPM
+
cmake \
-D CMAKE_C_COMPILER:PATH=mpicc \
-D CMAKE_CXX_COMPILER:PATH=mpicxx \
@@ -24,7 +26,7 @@ cmake \
-D USE_SILO=1 \
-D SILO_DIRECTORY=$SILO_DIR \
-D USE_TIMER=0 \
- ~/LBPM-WIA
+ $LBPM_SOURCE_DIR
make VERBOSE=1 -j8 && make install
diff --git a/threadpool/atomic_helpers.cpp b/threadpool/atomic_helpers.cpp
index 327cb3f5..46affa87 100644
--- a/threadpool/atomic_helpers.cpp
+++ b/threadpool/atomic_helpers.cpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#include "threadpool/atomic_helpers.h"
#include
diff --git a/threadpool/atomic_helpers.h b/threadpool/atomic_helpers.h
index 32b67200..0c3bed60 100644
--- a/threadpool/atomic_helpers.h
+++ b/threadpool/atomic_helpers.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Copyright © 2004 Mark Berrill. All Rights Reserved. This work is distributed with permission,
// but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
#ifndef included_ThreadPoolAtomicHelpers
diff --git a/threadpool/atomic_list.h b/threadpool/atomic_list.h
index c60c2869..da632dc6 100644
--- a/threadpool/atomic_list.h
+++ b/threadpool/atomic_list.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_AtomicModelAtomicList
#define included_AtomicModelAtomicList
diff --git a/threadpool/atomic_list.hpp b/threadpool/atomic_list.hpp
index 3a4df598..bc65ae35 100644
--- a/threadpool/atomic_list.hpp
+++ b/threadpool/atomic_list.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
#ifndef included_AtomicList_hpp
#define included_AtomicList_hpp
diff --git a/threadpool/thread_pool.h b/threadpool/thread_pool.h
index 9cb5b21a..1273f405 100644
--- a/threadpool/thread_pool.h
+++ b/threadpool/thread_pool.h
@@ -1,3 +1,18 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// Copyright © 2004 Mark Berrill. All Rights Reserved. This work is distributed with permission,
// but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A
// PARTICULAR PURPOSE.
diff --git a/threadpool/thread_pool.hpp b/threadpool/thread_pool.hpp
index 394e5619..34838446 100644
--- a/threadpool/thread_pool.hpp
+++ b/threadpool/thread_pool.hpp
@@ -1,3 +1,33 @@
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
+/*
+ Copyright 2013--2018 James E. McClure, Virginia Polytechnic & State University
+
+ This file is part of the Open Porous Media project (OPM).
+ OPM 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 3 of the License, or
+ (at your option) any later version.
+ OPM 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 OPM. If not, see .
+*/
// This file contains the template functions for the thread pool
#ifndef included_ThreadPoolTmpl
#define included_ThreadPoolTmpl
diff --git a/workflows/Util/gridUtil.py b/workflows/Util/gridUtil.py
new file mode 100644
index 00000000..16b4e954
--- /dev/null
+++ b/workflows/Util/gridUtil.py
@@ -0,0 +1,183 @@
+#!/bin/env python
+#
+# 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 3 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, see .
+#
+####################################################################
+
+
+import numpy as np
+
+def segmentGrid32bit(inputFileName, outputFileName):
+ inputFile=inputFileName
+ value=np.fromfile(inputFile,dtype=np.float32)
+ value_new = np.copy(value)
+
+ value_new[value < 0.1] = 1
+ value_new[value > -0.01 and value < 0.01] = 0
+ value_new[value > 0.1] = 2
+
+
+ value_new.tofile(outputFileName)
+
+def segmentGrid8bit(inputFileName, outputFileName):
+ inputFile=inputFileName
+ value=np.fromfile(inputFile,dtype=np.uint8)
+ value_new = np.copy(value)
+
+ value_new[value == 0] = 0
+ value_new[value == 127] = 1
+ value_new[value == 255] = 0
+
+ value_new.tofile(outputFileName)
+
+
+def segmentGrid8bitRedPhase(path):
+ import os
+ for inputFile in os.listdir(path):
+ if os.path.isfile(inputFile) and inputFile.endswith('.raw') and inputFile.startswith('id_t'):
+ value=np.fromfile(inputFile,dtype=np.uint8)
+ value_new = np.copy(value)
+
+ value_new[value == 0] = 0
+ value_new[value == 1] = 255
+ value_new[value >= 2] = 0
+
+ value_new.tofile('Red_'+inputFile)
+
+def segmentGrid8bitRockPhase(inputFileName):
+ inputFile=inputFileName
+ value=np.fromfile(inputFile,dtype=np.uint8)
+ value_new = np.copy(value)
+
+ value_new[value == 0] = 255
+ value_new[value == 1] = 0
+ value_new[value >= 2] = 0
+
+ value_new.tofile('Rock_'+inputFile)
+
+
+
+def unSegmentGrid8bit(inputFileName, outputFileName):
+ inputFile=inputFileName
+ value=np.fromfile(inputFile,dtype=np.uint8)
+ value_new = np.copy(value)
+
+ value_new[value == 0] = 0
+ value_new[value == 1] = 127
+ value_new[value == 2] = 255
+
+ value_new.tofile(outputFileName)
+
+
+
+def segmentGrid32to8bit(inputFileName, outputFileName):
+## Something wrong with this...
+ inputFile=inputFileName
+ value=np.fromfile(inputFile,dtype=np.float32)
+ value_new = np.copy(value)
+ value_new.astype(np.uint8)
+
+
+ value_new[value < -0.2] = 1
+ value_new[value > -0.1, value < 0.1] = 0
+ value_new[value > 0.1] = 2
+
+ value_new.tofile(outputFileName)
+
+def addVoidLayers(inputFileName, outputFileName, nx, ny, nz, layers):
+ inputFile=open(inputFileName, 'r')
+ value=np.fromfile(inputFile,dtype=np.uint8)
+ inputFile.close()
+ value_3D = np.reshape(value, (nz,ny,nx))
+ value_3D = np.pad(value_3D, ((0,0), (0,0), (layers,layers)),
+ 'constant', constant_values=((1,1)))
+
+ value_3D = np.pad(value_3D, ((1,1), (1,1), (0,0)),
+ 'constant', constant_values=((0,0)))
+
+ value_3D.tofile(outputFileName)
+
+
+def crop(inputFileName, outputFileName, nx, ny, nz, x1, x2, y1, y2, z1, z2):
+ inputFile=open(inputFileName, 'r')
+ value=np.fromfile(inputFile,dtype=np.uint8)
+ inputFile.close()
+ value_3D = np.reshape(value, (nz,ny,nx))
+ value_3D_crop = value_3D[z1-1:z2, y1-1:y2, x1-1:x2]
+ value_3D_crop.tofile(outputFileName)
+
+
+def circleTube(outputFileName,nx,ny,nz):
+
+ tube_3D_new = np.zeros((nz, ny, nx), dtype=np.uint8)
+ centerZ = nz/2
+ centerY = ny/2
+ radius = ny/2
+
+
+ # outer loop to handle number of rows
+ for i in range(0, nx):
+
+ # inner loop to handle number spaces
+ # values changing acc. to requirement
+ for j in range(0, ny):
+ for k in range(0, nz):
+ if (((j-centerY)**2 + (k-centerZ)**2) < radius**2):
+ tube_3D_new[k,j,i] = tube_3D_new[k,j,i] + 1
+
+ tube_3D_new.tofile(outputFileName)
+
+def squareTube(outputFileName,nx,ny,nz):
+
+ tube_3D_new = np.zeros((nz, ny, nx), dtype=np.uint8) + 1
+ tube_3D_new = np.pad(tube_3D_new, ((1,1), (1,1), (0,0)),
+ 'constant', constant_values=((0,0)))
+
+
+ tube_3D_new.tofile(outputFileName)
+
+def makeVtk(headerVTK, path) :
+ import os
+ for f in os.listdir(path):
+ if os.path.isfile(f) and f.endswith('.raw') and f.startswith('Red_id_t'):
+ infile = open(f, 'rb')
+ header = open(headerVTK, 'r')
+ outFileName = f.split('.')[0]+'.vtk'
+ outFile = open( outFileName, 'w')
+ outFile.write(header.read())
+ outFile.write(infile.read())
+ outFile.close()
+ infile.close()
+ header.close()
+
+
+
+
+
+
+# Driver Code
+#segmentGrid8bitRedPhase('path')
+#segmentGrid8bitRockPhase('id_t100008.raw')
+
+
+#makeVtk('headerVTK.txt', 'path')
+
+#circleTube('Tube.raw',100,101,101)
+
+#squareTube('SquareTube.raw',100,100,100)
+
+#crop('BentheimerSegmWW8bit2.raw', 'Outout2.raw', 1432, 461, 457, 100, 699, 5, 404, 5, 404)
+#addVoidLayers('Outout2.raw', 'BentheimerSegmWW8bit2CropCoated600x400x400.raw', 600, 400, 400, 0)
+
+