Author: benATSALILAB.ORG
Date: 2008-12-03 12:26:15 -0800 (Wed, 03 Dec 2008)
New Revision: 940
Added:
trunk/modules/core/include/Matrix3D.h
trunk/modules/core/include/ParticleFunction.h
trunk/modules/core/include/Rotation3D.h
trunk/modules/core/include/Transformation3D.h
trunk/modules/core/include/TransformationFunction.h
trunk/modules/core/src/Matrix3D.cpp
trunk/modules/core/src/Rotation3D.cpp
trunk/modules/core/src/Transformation3D.cpp
trunk/modules/core/test/transformation/
Removed:
trunk/modules/misc/include/Matrix3D.h
trunk/modules/misc/include/ParticleFunction.h
trunk/modules/misc/include/Rotation3D.h
trunk/modules/misc/include/Transformation3D.h
trunk/modules/misc/include/TransformationFunction.h
trunk/modules/misc/src/Matrix3D.cpp
trunk/modules/misc/src/Rotation3D.cpp
trunk/modules/misc/src/Transformation3D.cpp
trunk/modules/misc/test/transformation/
Modified:
trunk/modules/core/include/SConscript
trunk/modules/core/src/SConscript
trunk/modules/core/test/transformation/
test_particles_transformation.py
trunk/modules/core/test/transformation/test_rigid_transformation.py
trunk/modules/misc/include/SConscript
trunk/modules/misc/src/SConscript
Log:
Move transformation classes from misc to core, since they are of
general
utility.
Copied: trunk/modules/core/include/Matrix3D.h (from rev 939, trunk/
modules/misc/include/Matrix3D.h)
===================================================================
--- trunk/modules/core/include/Matrix3D.h
(rev 0)
+++ trunk/modules/core/include/Matrix3D.h 2008-12-03 20:26:15 UTC
(rev 940)
@@ -0,0 +1,96 @@
+/**
+ * \file Matrix3D.h \brief 3D matrix class.
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ *
+ */
+
+#ifndef IMPCORE_MATRIX_3D_H
+#define IMPCORE_MATRIX_3D_H
+
+#include "core_exports.h"
+
+#include "IMP/Vector3D.h"
+#include <math.h>
+
+IMPCORE_BEGIN_NAMESPACE
+
+//! 3D matrix class.
+/** \ingroup helper
+*/
+class IMPCOREEXPORT Matrix3D
+{
+public:
+ //! Default constructor. All cells of the matrix are 0
+ Matrix3D() {
+ vrow[0] = vrow[1] = vrow[2] = Vector3D(0, 0, 0);
+ }
+
+ //! Initializes a matrix with explicit values
+ Matrix3D(Float a11, Float a12, Float a13,
+ Float a21, Float a22, Float a23,
+ Float a31, Float a32, Float a33) {
+ vrow[0] = Vector3D(a11, a12, a13);
+ vrow[1] = Vector3D(a21, a22, a23);
+ vrow[2] = Vector3D(a31, a32, a33);
+ }
+ //! Constructs a matrix with d's in the diagonal and 0's else
where.
+ /** \param[in] d the value of the diagonal cells
+ */
+ Matrix3D(Float d){
+ vrow[0] = Vector3D(d, 0, 0);
+ vrow[1] = Vector3D(0, d, 0);
+ vrow[2] = Vector3D(0, 0, d);
+ }
+
+ Vector3D operator*(const Vector3D &o) const {
+ return Vector3D(vrow[0]*o, vrow[1]*o, vrow[2]*o);
+ }
+
+ //! Returns the rotation around the x-axis for a rotational
matrix assuming
+ //! rotations are performed in the order of x-y-z.
+ /** \note the output is meaningless if the matrix is not a
rotational matrix.
+ */
+ Float rotX() const {
+ return atan2(element(3,2), element(3,3));
+ }
+ //! Returns the rotation around the y-axis for a rotational
matrix assuming
+ //! rotations are performed in the order of x-y-z.
+ /** \note the output is meaningless if the matrix is not a
rotational matrix.
+ */
+ Float rotY() const {
+ return atan2(element(3,1),
+
sqrt(element(2,1)*element(2,1)+element(1,1)*element(1,1)));
+ }
+
+ //! Returns the rotation around the z-axis for a rotational
matrix assuming
+ //! rotations are performed in the order of x-y-z.
+ /** \note the output is meaningless if the matrix is not a
rotational matrix.
+ */
+ Float rotZ() const {
+ return atan2(element(2,1), element(1,1));
+ }
+
+ //! Returns 3 rotation angles assuming
+ //! rotations are performed in the order of x-y-z.
+ /** \note the output is meaningless if the matrix is not a
rotational matrix.
+ */
+ Vector3D rot() const {
+ return Vector3D(rotX(), rotY(), rotZ());
+ }
+
+ void show(std::ostream& out = std::cout) const {
+ out <<vrow[0]<<'\n'<<vrow[1]<<'\n'<<vrow[2]<<'\n';
+ }
+
+private:
+ //! Returns the numerical value at position row, col in the 3X3
matrix
+ //! row, col should be within the range of 1..3 or run time
errors may occur.
+ Float element(const unsigned short r, const unsigned short col)
const {
+ return vrow[r-1][col-1];
+ }
+ Vector3D vrow[3]; // 3 columns of the matrix are held in 3
vectors
+};
+
+IMPCORE_END_NAMESPACE
+#endif /* IMPCORE_MATRIX_3D_H */
Property changes on: trunk/modules/core/include/Matrix3D.h
___________________________________________________________________
Added: svn:mergeinfo
+
Copied: trunk/modules/core/include/ParticleFunction.h (from rev 939,
trunk/modules/misc/include/ParticleFunction.h)
===================================================================
--- trunk/modules/core/include/
ParticleFunction.h (rev 0)
+++ trunk/modules/core/include/ParticleFunction.h 2008-12-03
20:26:15 UTC (rev 940)
@@ -0,0 +1,32 @@
+/**
+ * \file ParticleFunction.h \brief Apply a function on a
particle
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ *
+ */
+
+#ifndef IMPCORE_PARTICLE_FUNCTION_H
+#define IMPCORE_PARTICLE_FUNCTION_H
+
+#include "core_exports.h"
+
+#include <IMP/Particle.h>
+
+IMPCORE_BEGIN_NAMESPACE
+
+//! Virtual class for applying a function on Particles
+/**
+ */
+class ParticleFunction
+{
+public:
+ //! Initialize the particle function
+ ParticleFunction(){}
+ virtual ~ParticleFunction(){}
+ //! Apply a function on a particle
+ virtual void apply(Particles ps){}
+};
+
+IMPCORE_END_NAMESPACE
+
+#endif /* IMPCORE_PARTICLE_FUNCTION_H */
Property changes on: trunk/modules/core/include/ParticleFunction.h
___________________________________________________________________
Added: svn:mergeinfo
+
Copied: trunk/modules/core/include/Rotation3D.h (from rev 939, trunk/
modules/misc/include/Rotation3D.h)
===================================================================
--- trunk/modules/core/include/Rotation3D.h
(rev 0)
+++ trunk/modules/core/include/Rotation3D.h 2008-12-03 20:26:15 UTC
(rev 940)
@@ -0,0 +1,107 @@
+/**
+ * \file Rotation3D.h \brief Simple 3D rotation class.
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ *
+ */
+
+#ifndef IMPCORE_ROTATION_3D_H
+#define IMPCORE_ROTATION_3D_H
+
+#include "core_exports.h"
+#include "IMP/Vector3D.h"
+#include <iostream>
+IMPCORE_BEGIN_NAMESPACE
+
+//! 3D rotation class.
+/** Holds a three dimensional rotation compactly using a quaternion
(4 numbers).
+ Advantages using quaternion:
+ 1. Easy convertion between axis/angle to quaternion reprsentation
+ 2. Robustness to rounding errors.
+ 3. Is not subject to "Gimbal lock" (i.e. attempts to rotate an
+ object fail to appear as expected, due to the order in which
the
+ rotations are performed) like Euler angles.
+ 4. Can be interpolated
+ 5. The quaternions representation does not harm the performance
too much.
+ http://www.euclideanspace.com/maths/algebra/matrix/orthogonal/rotation/index.htm
+
+ Currently the rotation can be initialized from either:
+ XYZ Euler angles
+ Rotation Matrix
+ Quaternion
+*/
+
+class IMPCOREEXPORT Rotation3D {
+public:
+ Rotation3D():a_(0.0),b_(0.0),c_(0.0),d_(0.0) {}
+ Rotation3D(Float a, Float b, Float c, Float d){
+ a_=a;b_=b;c_=c;d_=d;
+ }
+ //! Rotation by vector multiplication
+ Vector3D mult(const Vector3D &o) const {
+ return Vector3D((a_*a_+b_*b_-c_*c_-d_*d_)*o[0] +
+ 2*(b_*c_-a_*d_)*o[1] + 2*(b_*d_+a_*c_)*o[2],
+ 2*(b_*c_+a_*d_)*o[0] +
+ (a_*a_-b_*b_+c_*c_-d_*d_)*o[1] + 2*(c_*d_-
a_*b_)*o[2],
+ 2*(b_*d_-a_*c_)*o[0] +
+ 2*(c_*d_+a_*b_)*o[1] + (a_*a_-b_*b_-c_*c_
+d_*d_)*o[2]);
+ }
+ void show(std::ostream& out = std::cout) const {
+ out <<a_<<"|"<<b_<<"|"<<c_<<"|"<<d_<<'\n';
+ }
+private:
+ Float a_,b_,c_,d_;
+};
+
+
+//! Initialize a rotation in x-y-z order from three angles
+/** \param[in] xr Rotation around the X axis in radians
+ \param[in] yr Rotation around the Y axis in radians
+ \param[in] zr Rotation around the Z axis in radians
+ \note The three rotations are represented in the original
(fixed)
+ coordinate frame. http://en.wikipedia.org/wiki/Conversion_between_quaternions_and_Euler_angles
+*/
+inline Rotation3D rotation_from_fixed_xyz(Float xr,Float yr, Float
zr)
+{
+ Float a,b,c,d;
+ Float cx = cos(xr); Float cy = cos(yr); Float cz = cos(zr);
+ Float sx = sin(xr); Float sy = sin(yr); Float sz = sin(zr);
+ Float m00 = cz*cy;
+ Float m11 = -sy*sx*sz + cx*cz;
+ Float m22 = cy*cx;
+ a = sqrt(1+m00+m11+m22)/2.0;
+ b = sqrt(1+m00-m11-m22)/2.0;
+ c = sqrt(1-m00+m11-m22)/2.0;
+ d = sqrt(1-m00-m11+m22)/2.0;
+ if (cy*sx + sy*cx*sz + sx*cz < 0.0) b = -b;
+ if (sz*sx - sy*cx*cz - sy < 0.0) c = -c;
+ if (sz*cy + sy*sx*cz + sz*cx < 0.0) d = -d;
+ return Rotation3D(a,b,c,d);
+}
+
+inline Rotation3D rotation_from_mat(Float m11,Float m12,Float m13,
+ Float m21,Float m22,Float m23,
+ Float m31,Float m32,Float m33) {
+ Float a,b,c,d;
+ a = fabs(1+m11+m22+m33)/4;
+ b = fabs(1+m11-m22-m33)/4;
+ c = fabs(1-m11+m22-m33)/4;
+ d = fabs(1-m11-m22+m33)/4;
+
+ // make sure quat is normalized.
+ Float sum = a+b+c+d;
+ a = sqrt(a/sum);
+ b = sqrt(b/sum);
+ c = sqrt(c/sum);
+ d = sqrt(d/sum);
+
+ if (m32-m23 < 0.0) b=-b;
+ if (m13-m31 < 0.0) c=-c;
+ if (m21-m12 < 0.0) d=-d;
+ return Rotation3D(a,b,c,d);
+}
+/*
+Rotation3D rotation_from_axis_angle(Vector3D axis, Float a){}
+*/
+IMPCORE_END_NAMESPACE
+#endif /* IMPCORE_ROTATION_3D_H */
Property changes on: trunk/modules/core/include/Rotation3D.h
___________________________________________________________________
Added: svn:mergeinfo
+
Modified: trunk/modules/core/include/SConscript
===================================================================
--- trunk/modules/core/include/SConscript 2008-12-03 03:57:02 UTC
(rev 939)
+++ trunk/modules/core/include/SConscript 2008-12-03 20:26:15 UTC
(rev 940)
@@ -42,6 +42,7 @@
'Linear.h',
'ListPairContainer.h',
'ListSingletonContainer.h',
+ 'Matrix3D.h',
'MaxChangeScoreState.h',
'MaximumChangeScoreState.h',
'MaximumPairScoreRestraint.h',
@@ -65,10 +66,12 @@
'PairModifier.h',
'PairsRestraint.h',
'PairsScoreState.h',
+ 'ParticleFunction.h',
'PropagateBondDerivativesSingletonModifier.h',
'QuadraticClosePairsFinder.h',
'ResidueDecorator.h',
'RestraintSet.h',
+ 'Rotation3D.h',
'SingletonContainer.h',
'SingletonContainerSet.h',
'SingletonListRestraint.h',
@@ -77,6 +80,8 @@
'SingletonsScoreState.h',
'SphereDistancePairScore.h',
'SteepestDescent.h',
+ 'Transformation3D.h',
+ 'TransformationFunction.h',
'TransformedDistancePairScore.h',
'TripletChainRestraint.h',
'TypedPairScore.h',
Copied: trunk/modules/core/include/Transformation3D.h (from rev 939,
trunk/modules/misc/include/Transformation3D.h)
===================================================================
--- trunk/modules/core/include/
Transformation3D.h (rev 0)
+++ trunk/modules/core/include/Transformation3D.h 2008-12-03
20:26:15 UTC (rev 940)
@@ -0,0 +1,47 @@
+/**
+ * \file Transformation3D.h \brief Simple 3D transformation class.
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ *
+ */
+
+#ifndef IMPCORE_TRANSFORMATION_3D_H
+#define IMPCORE_TRANSFORMATION_3D_H
+
+#include "core_exports.h"
+
+#include "IMP/Vector3D.h"
+#include "IMP/core/Rotation3D.h"
+
+IMPCORE_BEGIN_NAMESPACE
+
+//! Simple 3D transformation class
+/** \ingroup helper
+*/
+class IMPCOREEXPORT Transformation3D
+{
+public:
+ // public for swig
+ typedef Transformation3D This;
+ Transformation3D():rot_(),trans_(){
+ }
+ Transformation3D(const Rotation3D& r, const Vector3D& t)
+ : rot_(r), trans_(t){}
+ //! transform
+ Vector3D transform(const Vector3D &o) const {
+ return rot_.mult(o) + trans_;
+ }
+ Vector3D get_trans()const{return trans_;}
+ // Matrix3D get_mat()const{return rot_;}
+ void show(std::ostream& out = std::cout) const {
+ rot_.show(out);
+ out<<" || "<<trans_<<"\n";
+ }
+private:
+ Vector3D trans_; //tranlation
+ Rotation3D rot_; //rotation
+};
+
+IMPCORE_END_NAMESPACE
+
+#endif /* IMPCORE_TRANSFORMATION_3D_H */
Property changes on: trunk/modules/core/include/Transformation3D.h
___________________________________________________________________
Added: svn:mergeinfo
+
Copied: trunk/modules/core/include/TransformationFunction.h (from
rev 939, trunk/modules/misc/include/TransformationFunction.h)
===================================================================
--- trunk/modules/core/include/
TransformationFunction.h (rev 0)
+++ trunk/modules/core/include/TransformationFunction.h 2008-12-03
20:26:15 UTC (rev 940)
@@ -0,0 +1,50 @@
+/**
+ * \file TransformationFunction.h
+ * \brief Transforms a vector of Particles
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ */
+
+#ifndef IMPCORE_TRANSFORMATION_FUNCTION_H
+#define IMPCORE_TRANSFORMATION_FUNCTION_H
+
+#include "core_exports.h"
+
+#include <IMP/core/ParticleFunction.h>
+#include "IMP/core/Transformation3D.h"
+#include "IMP/core/MolecularHierarchyDecorator.h"
+#include "IMP/core/XYZDecorator.h"
+#include <iostream>
+
+IMPCORE_BEGIN_NAMESPACE
+//! This class transforms a vector of particles
+/**
+ */
+class TransformationFunction : public ParticleFunction
+{
+public:
+ TransformationFunction(Transformation3D t)
+ {
+ t_=t;
+ }
+ ~TransformationFunction()
+ {
+ }
+ //! Apply the transformation on all of the particle-leaves of
+ //! the input particle.
+ void apply(Particles ps)
+ {
+ IMP::core::XYZDecorator xyz;
+ Vector3D v;
+ for(Particles::iterator it = ps.begin(); it != ps.end();it++) {
+ xyz = IMP::core::XYZDecorator::cast(*it);
+ v = xyz.get_coordinates();
+ xyz.set_coordinates(t_.transform(v));
+ }
+ }
+private:
+ Transformation3D t_;
+};
+
+IMPCORE_END_NAMESPACE
+#endif /* IMPCORE_TRANSFORMATION_FUNCTION_H */
Property changes on: trunk/modules/core/include/
TransformationFunction.h
___________________________________________________________________
Added: svn:mergeinfo
+
Copied: trunk/modules/core/src/Matrix3D.cpp (from rev 939, trunk/
modules/misc/src/Matrix3D.cpp)
===================================================================
--- trunk/modules/core/src/Matrix3D.cpp (rev
0)
+++ trunk/modules/core/src/Matrix3D.cpp 2008-12-03 20:26:15 UTC (rev
940)
@@ -0,0 +1,10 @@
+/**
+ * \file Matrix3D.cpp \brief 3D matrix class.
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ *
+ */
+#include "IMP/core/Matrix3D.h"
+IMPCORE_BEGIN_NAMESPACE
+
+IMPCORE_END_NAMESPACE
Property changes on: trunk/modules/core/src/Matrix3D.cpp
___________________________________________________________________
Added: svn:mergeinfo
+
Copied: trunk/modules/core/src/Rotation3D.cpp (from rev 939, trunk/
modules/misc/src/Rotation3D.cpp)
===================================================================
--- trunk/modules/core/src/Rotation3D.cpp
(rev 0)
+++ trunk/modules/core/src/Rotation3D.cpp 2008-12-03 20:26:15 UTC
(rev 940)
@@ -0,0 +1,10 @@
+/**
+ * \file Rotation3D.cpp \brief Simple 3D rotation class.
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ *
+ */
+#include "IMP/core/Rotation3D.h"
+IMPCORE_BEGIN_NAMESPACE
+
+IMPCORE_END_NAMESPACE
Property changes on: trunk/modules/core/src/Rotation3D.cpp
___________________________________________________________________
Added: svn:mergeinfo
+
Modified: trunk/modules/core/src/SConscript
===================================================================
--- trunk/modules/core/src/SConscript 2008-12-03 03:57:02 UTC (rev
939)
+++ trunk/modules/core/src/SConscript 2008-12-03 20:26:15 UTC (rev
940)
@@ -38,6 +38,7 @@
'HierarchyDecorator.cpp',
'ListPairContainer.cpp',
'ListSingletonContainer.cpp',
+ 'Matrix3D.cpp',
'MaxChangeScoreState.cpp',
'MaximumChangeScoreState.cpp',
'MaximumPairScoreRestraint.cpp',
@@ -64,6 +65,7 @@
'QuadraticClosePairsFinder.cpp',
'ResidueDecorator.cpp',
'RestraintSet.cpp',
+ 'Rotation3D.cpp',
'SingletonContainer.cpp',
'SingletonContainerSet.cpp',
'SingletonListRestraint.cpp',
@@ -72,6 +74,7 @@
'SingletonsScoreState.cpp',
'SphereDistancePairScore.cpp',
'SteepestDescent.cpp',
+ 'Transformation3D.cpp',
'TransformedDistancePairScore.cpp',
'TripletChainRestraint.cpp',
'TypedPairScore.cpp',
Copied: trunk/modules/core/src/Transformation3D.cpp (from rev 939,
trunk/modules/misc/src/Transformation3D.cpp)
===================================================================
--- trunk/modules/core/src/
Transformation3D.cpp (rev 0)
+++ trunk/modules/core/src/Transformation3D.cpp 2008-12-03 20:26:15
UTC (rev 940)
@@ -0,0 +1,12 @@
+/**
+ * \file Transformation3D.cpp
+ * \brief Simple 3D transformation class.
+ *
+ * Copyright 2007-8 Sali Lab. All rights reserved.
+ */
+#include "IMP/core/Transformation3D.h"
+#include "IMP/core/XYZDecorator.h"
+
+IMPCORE_BEGIN_NAMESPACE
+
+IMPCORE_END_NAMESPACE
Property changes on: trunk/modules/core/src/Transformation3D.cpp
___________________________________________________________________
Added: svn:mergeinfo
+
Property changes on: trunk/modules/core/test/transformation
___________________________________________________________________
Added: svn:ignore
+ *.pyc
Added: svn:mergeinfo
+
Modified: trunk/modules/core/test/transformation/
test_particles_transformation.py
===================================================================
--- trunk/modules/misc/test/transformation/
test_particles_transformation.py 2008-12-03 03:57:02 UTC (rev 939)
+++ trunk/modules/core/test/transformation/
test_particles_transformation.py 2008-12-03 20:26:15 UTC (rev 940)
@@ -1,6 +1,5 @@
import unittest
import IMP.utils
-import IMP.misc
import IMP.core
import IMP.test, IMP
@@ -27,9 +26,9 @@
82.603,46.874,76.53))
def test_transformation(self):
"""Test the TransformationFunction class"""
- r = IMP.misc.rotation_from_fixed_xyz(0.2,0.8,-0.4)
- t=IMP.misc.Transformation3D(r,IMP.Vector3D(20.0,-12.4,18.6))
- tf=IMP.misc.TransformationFunction(t)
+ r = IMP.core.rotation_from_fixed_xyz(0.2,0.8,-0.4)
+ t=IMP.core.Transformation3D(r,IMP.Vector3D(20.0,-12.4,18.6))
+ tf=IMP.core.TransformationFunction(t)
r = tf.apply(self.particles)
tp=[]
tp.append(IMP.Vector3D(47.948, -86.769, 118.648))
Modified: trunk/modules/core/test/transformation/
test_rigid_transformation.py
===================================================================
--- trunk/modules/misc/test/transformation/
test_rigid_transformation.py 2008-12-03 03:57:02 UTC (rev 939)
+++ trunk/modules/core/test/transformation/
test_rigid_transformation.py 2008-12-03 20:26:15 UTC (rev 940)
@@ -2,7 +2,6 @@
import IMP
import IMP.utils
import IMP.test
-import IMP.misc
class RigidTransformationTests(IMP.test.TestCase):
"""Test particles"""
@@ -16,8 +15,8 @@
def test_transformation(self):
"""Check that the rotation function is ok"""
- rt = IMP.misc.rotation_from_fixed_xyz(0.2,0.8,-0.4)
- t=IMP.misc.Transformation3D(rt,IMP.Vector3D(20.0,-12.4,18.6))
+ rt = IMP.core.rotation_from_fixed_xyz(0.2,0.8,-0.4)
+ t=IMP.core.Transformation3D(rt,IMP.Vector3D(20.0,-12.4,18.6))
v1_t = t.transform(self.v1)
v2_t = t.transform(self.v2)
v1_t_res=IMP.Vector3D(-62.517,86.209, 41.139)
Modified: trunk/modules/misc/include/SConscript
===================================================================
--- trunk/modules/misc/include/SConscript 2008-12-03 03:57:02 UTC
(rev 939)
+++ trunk/modules/misc/include/SConscript 2008-12-03 20:26:15 UTC
(rev 940)
@@ -3,12 +3,7 @@
files = [
'ChildrenParticleRefiner.h',
'LowestRefinedPairScore.h',
- 'Matrix3D.h',
- 'ParticleFunction.h',
'RefineOncePairScore.h',
- 'Rotation3D.h',
- 'Transformation3D.h',
- 'TransformationFunction.h',
'TunnelSingletonScore.h',
'WormLikeChain.h',
]
Modified: trunk/modules/misc/src/SConscript
===================================================================
--- trunk/modules/misc/src/SConscript 2008-12-03 03:57:02 UTC (rev
939)
+++ trunk/modules/misc/src/SConscript 2008-12-03 20:26:15 UTC (rev
940)
@@ -4,10 +4,7 @@
files = [
'ChildrenParticleRefiner.cpp',
'LowestRefinedPairScore.cpp',
- 'Matrix3D.cpp',
'RefineOncePairScore.cpp',
- 'Rotation3D.cpp',
- 'Transformation3D.cpp',
'TunnelSingletonScore.cpp',
]
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