GIT: Resolved conflict

This commit is contained in:
Andrew Heather
2016-06-28 16:59:01 +01:00
28 changed files with 3714 additions and 611 deletions

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@ -51,6 +51,12 @@ $(surfWriters)/starcd/starcdSurfaceWriter.C
$(surfWriters)/vtk/vtkSurfaceWriter.C
$(surfWriters)/boundaryData/boundaryDataSurfaceWriter.C
surfReaders = sampledSurface/readers
$(surfReaders)/surfaceReader.C
$(surfReaders)/surfaceReaderNew.C
$(surfReaders)/ensight/ensightSurfaceReader.C
graphField/writePatchGraph.C
graphField/writeCellGraph.C
graphField/makeGraph.C

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@ -0,0 +1,416 @@
/*---------------------------------------------------------------------------*\
========= |
\\ / F ield | OpenFOAM: The Open Source CFD Toolbox
\\ / O peration |
\\ / A nd | Copyright (C) 2015-2016 OpenCFD Ltd.
\\/ M anipulation |
-------------------------------------------------------------------------------
License
This file is part of OpenFOAM.
OpenFOAM 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.
OpenFOAM 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 OpenFOAM. If not, see <http://www.gnu.org/licenses/>.
\*---------------------------------------------------------------------------*/
#include "ensightSurfaceReader.H"
// * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
namespace Foam
{
defineTypeNameAndDebug(ensightSurfaceReader, 0);
addToRunTimeSelectionTable(surfaceReader, ensightSurfaceReader, fileName);
}
void Foam::ensightSurfaceReader::skip(const label n, IFstream& is) const
{
label i = 0;
token t;
while (is.good() && (i < n))
{
is >> t;
i++;
if (debug)
{
Info<< "Skipping token " << t << endl;
}
}
if (i != n)
{
WarningInFunction
<< "Requested to skip " << n << "tokens, but stream exited after "
<< i << " tokens. Last token read: " << t
<< endl;
}
}
void Foam::ensightSurfaceReader::debugSection
(
const word& expected,
IFstream& is
) const
{
word actual(is);
if (expected != actual)
{
FatalIOErrorInFunction(is)
<< "Expected section header '" << expected
<< "' but read the word '" << actual << "'"
<< exit(FatalIOError);
}
}
void Foam::ensightSurfaceReader::readCase(IFstream& is)
{
if (debug)
{
InfoInFunction<< endl;
}
if (!is.good())
{
FatalErrorInFunction
<< "Cannot read file " << is.name()
<< exit(FatalError);
}
// Read the file
debugSection("FORMAT", is);
skip(3, is); // type: ensight gold
debugSection("GEOMETRY", is);
readSkip(is, 2, meshFileName_);
debugSection("VARIABLE", is);
DynamicList<word> fieldNames(10);
DynamicList<word> fieldFileNames(10);
word fieldName;
word fieldFileName;
while (is.good())
{
word primitiveType(is); // scalar, vector
if (primitiveType == "TIME")
{
break;
}
readSkip(is, 3, fieldName); // p, U etc
fieldNames.append(fieldName);
is >> fieldFileName; // surfaceName.****.fieldName
fieldFileNames.append(fieldFileName);
}
fieldNames_.transfer(fieldNames);
fieldFileNames_.transfer(fieldFileNames);
if (debug)
{
Info<< "fieldNames: " << fieldNames << nl
<< "fieldFileNames: " << fieldFileNames << endl;
}
// Start reading time information
skip(3, is); // time set: 1
readSkip(is, 3, nTimeSteps_);
readSkip(is, 3, timeStartIndex_);
readSkip(is, 2, timeIncrement_);
if (debug)
{
Info<< "nTimeSteps: " << nTimeSteps_ << nl
<< "timeStartIndex: " << timeStartIndex_ << nl
<< "timeIncrement: " << timeIncrement_ << endl;
}
// Read the time values
skip(2, is); // time values:
timeValues_.setSize(nTimeSteps_);
for (label i = 0; i < nTimeSteps_; i++)
{
scalar t(readScalar(is));
timeValues_[i].value() = t;
// TODO: use character representation of t directly instead of
// regenerating from scalar value
timeValues_[i].name() = Foam::name(t);
}
}
// * * * * * * * * * * * * * * * * Constructors * * * * * * * * * * * * * * //
Foam::ensightSurfaceReader::ensightSurfaceReader(const fileName& fName)
:
surfaceReader(fName),
baseDir_(fName.path()),
meshFileName_(),
fieldNames_(),
fieldFileNames_(),
nTimeSteps_(0),
timeStartIndex_(0),
timeIncrement_(1),
timeValues_(),
surfPtr_(NULL)
{
IFstream is(fName);
readCase(is);
}
// * * * * * * * * * * * * * * * * Destructor * * * * * * * * * * * * * * * //
Foam::ensightSurfaceReader::~ensightSurfaceReader()
{}
// * * * * * * * * * * * * * Public Member Functions * * * * * * * * * * * //
const Foam::meshedSurface& Foam::ensightSurfaceReader::geometry()
{
if (debug)
{
InfoInFunction<< endl;
}
if (!surfPtr_.valid())
{
IFstream is(baseDir_/meshFileName_);
if (!is.good())
{
FatalErrorInFunction
<< "Cannot read file " << is.name()
<< exit(FatalError);
}
token t;
while (is.good())
{
is >> t;
if (t.isWord())
{
word wordToken = t.wordToken();
if (wordToken == "coordinates")
{
break;
}
}
}
label nPoints(readLabel(is));
if (debug)
{
Info<< "nPoints: " << nPoints << endl;
}
pointField points(nPoints);
{
scalarField x(nPoints);
for (label dir = 0; dir < 3; dir++)
{
forAll(points, pointI)
{
x[pointI] = readScalar(is);
}
points.replace(dir, x);
}
}
// Read faces - may be a mix of tris, quads and polys
DynamicList<face> faces(ceil(nPoints/3));
while (is.good())
{
token t(is);
if (is.eof())
{
break;
}
word faceType(t.wordToken());
if (debug)
{
Info<< "faceType: " << faceType << endl;
}
label nFace(readLabel(is));
if (debug)
{
Info<< "nFace: " << nFace << endl;
}
if (faceType == "tria3")
{
label np = 3;
for (label faceI = 0; faceI < nFace; faceI++)
{
face f(np);
for (label fpI = 0; fpI < np; fpI++)
{
f[fpI] = readLabel(is);
}
faces.append(f);
}
}
else if (faceType == "quad4")
{
label np = 4;
for (label faceI = 0; faceI < nFace; faceI++)
{
face f(np);
for (label fpI = 0; fpI < np; fpI++)
{
f[fpI] = readLabel(is);
}
faces.append(f);
}
}
else if (faceType == "nsided")
{
labelList np(nFace);
for (label faceI = 0; faceI < nFace; faceI++)
{
np[faceI] = readLabel(is);
}
for (label faceI = 0; faceI < nFace; faceI++)
{
face f(np[faceI]);
for (label fpI = 0; fpI < f.size(); fpI++)
{
f[fpI] = readLabel(is);
}
faces.append(f);
}
}
else if (faceType != "")
{
WarningInFunction
<< "Unknown face type: " << faceType
<< ". Aborting read and continuing with current elements "
<< "only" << endl;
}
}
if (debug)
{
Info<< "read nFaces: " << faces.size() << endl;
}
forAll(faces, faceI)
{
face& f = faces[faceI];
forAll(f, fpI)
{
f[fpI]--;
}
}
surfPtr_.reset(new meshedSurface(xferMove(points), faces.xfer()));
}
return surfPtr_();
}
Foam::instantList Foam::ensightSurfaceReader::times() const
{
return timeValues_;
}
Foam::wordList Foam::ensightSurfaceReader::fieldNames
(
const label timeIndex
) const
{
return fieldNames_;
}
Foam::tmp<Foam::Field<Foam::scalar> > Foam::ensightSurfaceReader::field
(
const label timeIndex,
const label fieldIndex,
const scalar& refValue
) const
{
return readField<scalar>(timeIndex, fieldIndex);
}
Foam::tmp<Foam::Field<Foam::vector> > Foam::ensightSurfaceReader::field
(
const label timeIndex,
const label fieldIndex,
const vector& refValue
) const
{
return readField<vector>(timeIndex, fieldIndex);
}
Foam::tmp<Foam::Field<Foam::sphericalTensor> >
Foam::ensightSurfaceReader::field
(
const label timeIndex,
const label fieldIndex,
const sphericalTensor& refValue
) const
{
return readField<sphericalTensor>(timeIndex, fieldIndex);
}
Foam::tmp<Foam::Field<Foam::symmTensor> > Foam::ensightSurfaceReader::field
(
const label timeIndex,
const label fieldIndex,
const symmTensor& refValue
) const
{
return readField<symmTensor>(timeIndex, fieldIndex);
}
Foam::tmp<Foam::Field<Foam::tensor> > Foam::ensightSurfaceReader::field
(
const label timeIndex,
const label fieldIndex,
const tensor& refValue
) const
{
return readField<tensor>(timeIndex, fieldIndex);
}
// ************************************************************************* //

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@ -0,0 +1,191 @@
/*---------------------------------------------------------------------------*\
========= |
\\ / F ield | OpenFOAM: The Open Source CFD Toolbox
\\ / O peration |
\\ / A nd | Copyright (C) 2015 OpenCFD Ltd.
\\/ M anipulation |
-------------------------------------------------------------------------------
License
This file is part of OpenFOAM.
OpenFOAM 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.
OpenFOAM 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 OpenFOAM. If not, see <http://www.gnu.org/licenses/>.
Class
Foam::ensightensightSurfaceReader
Description
Ensight format surface reader
SourceFiles
ensightSurfaceReader.C
\*---------------------------------------------------------------------------*/
#ifndef ensightSurfaceReader_H
#define ensightSurfaceReader_H
#include "surfaceReader.H"
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
namespace Foam
{
/*---------------------------------------------------------------------------*\
Class ensightSurfaceReader Declaration
\*---------------------------------------------------------------------------*/
class ensightSurfaceReader
:
public surfaceReader
{
protected:
// Protected Data
//- Base directory
fileName baseDir_;
//- Name of mesh file
word meshFileName_;
//- Field names
List<word> fieldNames_;
//- Field file names
List<word> fieldFileNames_;
//- Number of time steps
label nTimeSteps_;
//- Start time index
label timeStartIndex_;
//- Time increment
label timeIncrement_;
//- Times
instantList timeValues_;
//- Pointer to the surface
autoPtr<meshedSurface> surfPtr_;
// Protected Member Functions
//- Read and check a section header
void debugSection(const word& expected, IFstream& is) const;
//- Read the case file
void readCase(IFstream& is);
//- Helper function to skip forward n steps in stream
void skip(const label n, IFstream& is) const;
//- Helper function to return Type after skipping n tokens
template<class Type>
void readSkip(IFstream& is, const label nSkip, Type& value) const;
//- Helper function to return a field
template<class Type>
tmp<Field<Type> > readField
(
const label timeIndex,
const label fieldIndex
) const;
public:
//- Runtime type information
TypeName("ensight");
// Constructors
//- Construct from fileName
ensightSurfaceReader(const fileName& fName);
//- Destructor
virtual ~ensightSurfaceReader();
// Member Functions
//- Return a reference to the surface geometry
virtual const meshedSurface& geometry();
//- Return a list of the available times
virtual instantList times() const;
//- Return a list of the available fields at a given time
virtual wordList fieldNames(const label timeIndex) const;
//- Return a scalar field at a given time
virtual tmp<Field<scalar> > field
(
const label timeIndex,
const label fieldIndex,
const scalar& refValue = pTraits<scalar>::zero
) const;
//- Return a scalar field at a given time
virtual tmp<Field<vector> > field
(
const label timeIndex,
const label fieldIndex,
const vector& refValue = pTraits<vector>::zero
) const;
//- Return a sphericalTensor field at a given time
virtual tmp<Field<sphericalTensor> > field
(
const label timeIndex,
const label fieldIndex,
const sphericalTensor& reValue = pTraits<sphericalTensor>::zero
) const;
//- Return a symmTensor field at a given time
virtual tmp<Field<symmTensor> > field
(
const label timeIndex,
const label fieldIndex,
const symmTensor& reValue = pTraits<symmTensor>::zero
) const;
//- Return a tensor field at a given time
virtual tmp<Field<tensor> > field
(
const label timeIndex,
const label fieldIndex,
const tensor& reValue = pTraits<tensor>::zero
) const;
};
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
} // End namespace Foam
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
#ifdef NoRepository
#include "ensightSurfaceReaderTemplates.C"
#endif
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
#endif
// ************************************************************************* //

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@ -0,0 +1,144 @@
/*---------------------------------------------------------------------------*\
========= |
\\ / F ield | OpenFOAM: The Open Source CFD Toolbox
\\ / O peration |
\\ / A nd | Copyright (C) 2015-2016 OpenCFD Ltd.
\\/ M anipulation |
-------------------------------------------------------------------------------
License
This file is part of OpenFOAM.
OpenFOAM 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.
OpenFOAM 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 OpenFOAM. If not, see <http://www.gnu.org/licenses/>.
\*---------------------------------------------------------------------------*/
#include <iomanip>
#include <sstream>
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
template<class Type>
void Foam::ensightSurfaceReader::readSkip
(
IFstream& is,
const label nSkip,
Type& value
) const
{
skip(nSkip, is);
is >> value;
}
template<class Type>
Foam::tmp<Foam::Field<Type> > Foam::ensightSurfaceReader::readField
(
const label timeIndex,
const label fieldIndex
) const
{
if (debug)
{
InfoInFunction<< endl;
}
const word& fieldName(fieldNames_[fieldIndex]);
const label fileIndex = timeStartIndex_ + timeIndex*timeIncrement_;
fileName fieldFileName(fieldFileNames_[fieldIndex]);
std::ostringstream oss;
oss << std::setfill('0') << std::setw(4) << fileIndex;
const word indexStr = oss.str();
fieldFileName.replace("****", indexStr);
IFstream is(baseDir_/fieldFileName);
if (!is.good())
{
FatalErrorInFunction
<< "Cannot read file " << is.name()
<< " for field " << fieldName
<< exit(FatalError);
}
// Check that data type is as expected
word primitiveType(is);
if (debug)
{
Info<< "primitiveType: " << primitiveType << endl;
}
if (primitiveType != pTraits<Type>::typeName)
{
FatalIOErrorInFunction(is)
<< "Expected " << pTraits<Type>::typeName << "values "
<< "but found type " << primitiveType
<< exit(FatalIOError);
}
tmp<Field<Type> > tField(new Field<Type>());
label n;
if (surfPtr_.valid())
{
n = surfPtr_->size();
}
else
{
n = 1000;
}
Type value;
word wValue;
label iValue;
// Read header info: part index, e.g. part 1
is >> wValue >> iValue;
// Read data file
// - Assume that file contains a mix of words and numbers, and that all
// numbers relate to face values, e.g. header comprises of words and
// element types are also words, e.g. tria3, quad4, nsided
DynamicList<Type> values(n);
while (is.good())
{
token t(is);
if (is.eof())
{
break;
}
if (t.isWord())
{
wValue = t.wordToken();
}
else
{
is.putBack(t);
is >> value;
values.append(value);
}
}
tField().transfer(values);
return tField;
}
// ************************************************************************* //

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@ -0,0 +1,51 @@
/*---------------------------------------------------------------------------*\
========= |
\\ / F ield | OpenFOAM: The Open Source CFD Toolbox
\\ / O peration |
\\ / A nd | Copyright (C) 2015 OpenCFD Ltd.
\\/ M anipulation |
-------------------------------------------------------------------------------
License
This file is part of OpenFOAM.
OpenFOAM 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.
OpenFOAM 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 OpenFOAM. If not, see <http://www.gnu.org/licenses/>.
\*---------------------------------------------------------------------------*/
#include "surfaceReader.H"
// * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
namespace Foam
{
defineTypeNameAndDebug(surfaceReader, 0);
defineRunTimeSelectionTable(surfaceReader, fileName);
}
// * * * * * * * * * * * * * * * * Constructors * * * * * * * * * * * * * * //
Foam::surfaceReader::surfaceReader(const fileName& fName)
:
fileName_(fName)
{}
// * * * * * * * * * * * * * * * * Destructor * * * * * * * * * * * * * * * //
Foam::surfaceReader::~surfaceReader()
{}
// ************************************************************************* //

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@ -0,0 +1,161 @@
/*---------------------------------------------------------------------------*\
========= |
\\ / F ield | OpenFOAM: The Open Source CFD Toolbox
\\ / O peration |
\\ / A nd | Copyright (C) 2015 OpenCFD Ltd.
\\/ M anipulation |
-------------------------------------------------------------------------------
License
This file is part of OpenFOAM.
OpenFOAM 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.
OpenFOAM 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 OpenFOAM. If not, see <http://www.gnu.org/licenses/>.
Class
Foam::surfaceReader
Description
Base class for surface readers
SourceFiles
surfaceReader.C
\*---------------------------------------------------------------------------*/
#ifndef surfaceReader_H
#define surfaceReader_H
#include "typeInfo.H"
#include "autoPtr.H"
#include "MeshedSurfaces.H"
#include "runTimeSelectionTables.H"
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
namespace Foam
{
/*---------------------------------------------------------------------------*\
Class surfaceReader Declaration
\*---------------------------------------------------------------------------*/
class surfaceReader
{
protected:
//- File name
fileName fileName_;
public:
//- Runtime type information
TypeName("surfaceReader");
// Declare run-time constructor selection table
declareRunTimeSelectionTable
(
autoPtr,
surfaceReader,
fileName,
(
const fileName& fName
),
(fName)
);
// Selectors
//- Return a reference to the selected surfaceReader
static autoPtr<surfaceReader> New
(
const word& readType,
const fileName& fName
);
// Constructors
//- Construct from fileName
surfaceReader(const fileName& fName);
//- Destructor
virtual ~surfaceReader();
// Member Functions
//- Return a reference to the surface geometry
virtual const meshedSurface& geometry() = 0;
//- Return a list of the available times
virtual instantList times() const = 0;
//- Return a list of the available fields at a given time
virtual wordList fieldNames(const label timeIndex) const = 0;
//- Return a scalar field at a given time
virtual tmp<Field<scalar> > field
(
const label timeIndex,
const label fieldIndex,
const scalar& refValue = pTraits<scalar>::zero
) const = 0;
//- Return a vector field at a given time
virtual tmp<Field<vector> > field
(
const label timeIndex,
const label fieldIndex,
const vector& refValue = pTraits<vector>::zero
) const = 0;
//- Return a sphericalTensor field at a given time
virtual tmp<Field<sphericalTensor> > field
(
const label timeIndex,
const label fieldIndex,
const sphericalTensor& reValue = pTraits<sphericalTensor>::zero
) const = 0;
//- Return a symmTensor field at a given time
virtual tmp<Field<symmTensor> > field
(
const label timeIndex,
const label fieldIndex,
const symmTensor& reValue = pTraits<symmTensor>::zero
) const = 0;
//- Return a tensor field at a given time
virtual tmp<Field<tensor> > field
(
const label timeIndex,
const label fieldIndex,
const tensor& reValue = pTraits<tensor>::zero
) const = 0;
};
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
} // End namespace Foam
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
#endif
// ************************************************************************* //

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@ -0,0 +1,52 @@
/*---------------------------------------------------------------------------*\
========= |
\\ / F ield | OpenFOAM: The Open Source CFD Toolbox
\\ / O peration |
\\ / A nd | Copyright (C) 2015-2016 OpenCFD Ltd.
\\/ M anipulation |
-------------------------------------------------------------------------------
License
This file is part of OpenFOAM.
OpenFOAM 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.
OpenFOAM 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 OpenFOAM. If not, see <http://www.gnu.org/licenses/>.
\*---------------------------------------------------------------------------*/
#include "surfaceReader.H"
// * * * * * * * * * * * * * Static Member Functions * * * * * * * * * * * * //
Foam::autoPtr<Foam::surfaceReader> Foam::surfaceReader::New
(
const word& readerType,
const fileName& fName
)
{
fileNameConstructorTable::iterator cstrIter =
fileNameConstructorTablePtr_->find(readerType);
if (cstrIter == fileNameConstructorTablePtr_->end())
{
FatalErrorInFunction
<< "Unknown reader type \"" << readerType << "\"\n\n"
<< "Valid reader types: "
<< fileNameConstructorTablePtr_->sortedToc() << nl
<< exit(FatalError);
}
return autoPtr<surfaceReader>(cstrIter()(fName));
}
// ************************************************************************* //