Revert "Don't require Cython to recompile cc and h files in cpp/"

This reverts commit 5bafb40.

freud/_bond.pxd

@@ -11,6 +11,9 @@ from libcpp.map cimport map
 cimport freud._box
 cimport freud._locality
 
+cdef extern from "BondingAnalysis.cc" namespace "freud::bond":
+    pass
+
 cdef extern from "BondingAnalysis.h" namespace "freud::bond":
     cdef cppclass BondingAnalysis:
         BondingAnalysis(unsigned int, unsigned int)
@@ -25,6 +28,9 @@ cdef extern from "BondingAnalysis.h" namespace "freud::bond":
         unsigned int getNumParticles()
         unsigned int getNumBonds()
 
+cdef extern from "BondingR12.cc" namespace "freud::bond":
+    pass
+
 cdef extern from "BondingR12.h" namespace "freud::bond":
     cdef cppclass BondingR12:
         BondingR12(float, unsigned int, unsigned int, unsigned int,
@@ -44,6 +50,9 @@ cdef extern from "BondingR12.h" namespace "freud::bond":
         map[uint, uint] getListMap()
         map[uint, uint] getRevListMap()
 
+cdef extern from "BondingXY2D.cc" namespace "freud::bond":
+    pass
+
 cdef extern from "BondingXY2D.h" namespace "freud::bond":
     cdef cppclass BondingXY2D:
         BondingXY2D(float, float, unsigned int, unsigned int, unsigned int,
@@ -63,6 +72,9 @@ cdef extern from "BondingXY2D.h" namespace "freud::bond":
         map[uint, uint] getListMap()
         map[uint, uint] getRevListMap()
 
+cdef extern from "BondingXYT.cc" namespace "freud::bond":
+    pass
+
 cdef extern from "BondingXYT.h" namespace "freud::bond":
     cdef cppclass BondingXYT:
         BondingXYT(float, float, unsigned int, unsigned int, unsigned int,
@@ -82,6 +94,9 @@ cdef extern from "BondingXYT.h" namespace "freud::bond":
         map[uint, uint] getListMap()
         map[uint, uint] getRevListMap()
 
+cdef extern from "BondingXYZ.cc" namespace "freud::bond":
+    pass
+
 cdef extern from "BondingXYZ.h" namespace "freud::bond":
     cdef cppclass BondingXYZ:
         BondingXYZ(float, float, float, unsigned int, unsigned int,

freud/_box.pxd

@@ -5,6 +5,9 @@ from libcpp cimport bool
 from freud.util._VectorMath cimport vec3
 from libcpp.string cimport string
 
+cdef extern from "box.cc" namespace "freud::box":
+    pass
+
 cdef extern from "box.h" namespace "freud::box":
     cdef cppclass Box:
         Box()

freud/_cluster.pxd

@@ -9,6 +9,9 @@ from libc.stdint cimport uint32_t
 cimport freud._box
 cimport freud._locality
 
+cdef extern from "Cluster.cc" namespace "freud::cluster":
+    pass
+
 cdef extern from "Cluster.h" namespace "freud::cluster":
     cdef cppclass Cluster:
         Cluster(float)
@@ -23,6 +26,9 @@ cdef extern from "Cluster.h" namespace "freud::cluster":
         shared_ptr[unsigned int] getClusterIdx()
         const vector[vector[uint]] getClusterKeys()
 
+cdef extern from "ClusterProperties.cc" namespace "freud::cluster":
+    pass
+
 cdef extern from "ClusterProperties.h" namespace "freud::cluster":
     cdef cppclass ClusterProperties:
         ClusterProperties()

freud/_density.pxd

@@ -6,6 +6,9 @@ from libcpp.memory cimport shared_ptr
 cimport freud._box
 cimport freud._locality
 
+cdef extern from "CorrelationFunction.cc" namespace "freud::density":
+    pass
+
 cdef extern from "CorrelationFunction.h" namespace "freud::density":
     cdef cppclass CorrelationFunction[T]:
         CorrelationFunction(float, float)
@@ -24,6 +27,9 @@ cdef extern from "CorrelationFunction.h" namespace "freud::density":
         shared_ptr[float] getR()
         unsigned int getNBins() const
 
+cdef extern from "GaussianDensity.cc" namespace "freud::density":
+    pass
+
 cdef extern from "GaussianDensity.h" namespace "freud::density":
     cdef cppclass GaussianDensity:
         GaussianDensity(unsigned int, float, float)
@@ -44,6 +50,9 @@ cdef extern from "GaussianDensity.h" namespace "freud::density":
         unsigned int getWidthY()
         unsigned int getWidthZ()
 
+cdef extern from "LocalDensity.cc" namespace "freud::density":
+    pass
+
 cdef extern from "LocalDensity.h" namespace "freud::density":
     cdef cppclass LocalDensity:
         LocalDensity(float, float, float)
@@ -59,6 +68,9 @@ cdef extern from "LocalDensity.h" namespace "freud::density":
         shared_ptr[float] getDensity()
         shared_ptr[float] getNumNeighbors()
 
+cdef extern from "RDF.cc" namespace "freud::density":
+    pass
+
 cdef extern from "RDF.h" namespace "freud::density":
     cdef cppclass RDF:
         RDF(float, float, float)

freud/_environment.pxd

@@ -11,6 +11,9 @@ from libcpp.map cimport map
 cimport freud._box
 cimport freud._locality
 
+cdef extern from "BondOrder.cc" namespace "freud::environment":
+    pass
+
 cdef extern from "BondOrder.h" namespace "freud::environment":
     cdef cppclass BondOrder:
         BondOrder(float, float, unsigned int, unsigned int, unsigned int)
@@ -33,6 +36,9 @@ cdef extern from "BondOrder.h" namespace "freud::environment":
         unsigned int getNBinsTheta()
         unsigned int getNBinsPhi()
 
+cdef extern from "LocalDescriptors.cc" namespace "freud::environment":
+    pass
+
 cdef extern from "LocalDescriptors.h" namespace "freud::environment":
     ctypedef enum LocalDescriptorOrientation:
         LocalNeighborhood
@@ -59,6 +65,9 @@ cdef extern from "LocalDescriptors.h" namespace "freud::environment":
             const quat[float]*, LocalDescriptorOrientation) nogil except +
         shared_ptr[float complex] getSph()
 
+cdef extern from "MatchEnv.cc" namespace "freud::environment":
+    pass
+
 cdef extern from "MatchEnv.h" namespace "freud::environment":
     cdef cppclass MatchEnv:
         MatchEnv(const freud._box.Box &, float, unsigned int) nogil except +
@@ -103,6 +112,9 @@ cdef extern from "MatchEnv.h" namespace "freud::environment":
         unsigned int getNumNeighbors()
         unsigned int getMaxNumNeighbors()
 
+cdef extern from "Pairing2D.cc" namespace "freud::environment":
+    pass
+
 cdef extern from "Pairing2D.h" namespace "freud::environment":
     cdef cppclass Pairing2D:
         Pairing2D(const float, const unsigned int, float)
@@ -119,6 +131,9 @@ cdef extern from "Pairing2D.h" namespace "freud::environment":
         shared_ptr[unsigned int] getPair()
         unsigned int getNumParticles()
 
+cdef extern from "AngularSeparation.cc" namespace "freud::environment":
+    pass
+
 cdef extern from "AngularSeparation.h" namespace "freud::environment":
     cdef cppclass AngularSeparation:
         AngularSeparation()

freud/_interface.pxd

@@ -6,6 +6,9 @@ from freud.util._VectorMath cimport vec3
 cimport freud._box
 cimport freud._locality
 
+cdef extern from "InterfaceMeasure.cc" namespace "freud::interface":
+    pass
+
 cdef extern from "InterfaceMeasure.h" namespace "freud::interface":
     cdef cppclass InterfaceMeasure:
         InterfaceMeasure(const freud._box.Box &, float)

freud/_kspace.pxd

@@ -5,6 +5,9 @@ from libcpp.memory cimport shared_ptr
 from freud.util._VectorMath cimport vec3, quat
 from libcpp.complex cimport complex
 
+cdef extern from "kspace.cc" namespace "freud::kspace":
+    pass
+
 cdef extern from "kspace.h" namespace "freud::kspace":
     cdef cppclass FTdelta:
         FTDelta()

freud/_locality.pxd

@@ -8,6 +8,9 @@ from libcpp.memory cimport shared_ptr
 from libcpp.vector cimport vector
 cimport freud._box
 
+cdef extern from "NeighborList.cc" namespace "freud::locality":
+    pass
+
 cdef extern from "NeighborList.h" namespace "freud::locality":
     cdef cppclass NeighborList:
         NeighborList()
@@ -35,6 +38,9 @@ cdef extern from "NeighborList.h" namespace "freud::locality":
         void copy(const NeighborList &)
         void validate(size_t, size_t) except +
 
+cdef extern from "LinkCell.cc" namespace "freud::locality":
+    pass
+
 cdef extern from "LinkCell.h" namespace "freud::locality":
     cdef cppclass IteratorLinkCell:
         IteratorLinkCell()
@@ -77,6 +83,9 @@ cdef extern from "LinkCell.h" namespace "freud::locality":
             bool) nogil except +
         NeighborList * getNeighborList()
 
+cdef extern from "NearestNeighbors.cc" namespace "freud::locality":
+    pass
+
 cdef extern from "NearestNeighbors.h" namespace "freud::locality":
     cdef cppclass NearestNeighbors:
         NearestNeighbors()

freud/_order.pxd

@@ -11,6 +11,9 @@ from libcpp.map cimport map
 cimport freud._box
 cimport freud._locality
 
+cdef extern from "CubaticOrderParameter.cc" namespace "freud::order":
+    pass
+
 cdef extern from "CubaticOrderParameter.h" namespace "freud::order":
     cdef cppclass CubaticOrderParameter:
         CubaticOrderParameter(float,
@@ -36,6 +39,9 @@ cdef extern from "CubaticOrderParameter.h" namespace "freud::order":
         float getScale()
         quat[float] getCubaticOrientation()
 
+cdef extern from "NematicOrderParameter.cc" namespace "freud::order":
+    pass
+
 cdef extern from "NematicOrderParameter.h" namespace "freud::order":
     cdef cppclass NematicOrderParameter:
         NematicOrderParameter(vec3[float])
@@ -49,6 +55,9 @@ cdef extern from "NematicOrderParameter.h" namespace "freud::order":
         vec3[float] getNematicDirector()
 
 
+cdef extern from "HexOrderParameter.cc" namespace "freud::order":
+    pass
+
 cdef extern from "HexOrderParameter.h" namespace "freud::order":
     cdef cppclass HexOrderParameter:
         HexOrderParameter(float, unsigned int, unsigned int)
@@ -63,6 +72,9 @@ cdef extern from "HexOrderParameter.h" namespace "freud::order":
         unsigned int getNP()
         unsigned int getK()
 
+cdef extern from "TransOrderParameter.cc" namespace "freud::order":
+    pass
+
 cdef extern from "TransOrderParameter.h" namespace "freud::order":
     cdef cppclass TransOrderParameter:
         TransOrderParameter(float, float)
@@ -74,6 +86,9 @@ cdef extern from "TransOrderParameter.h" namespace "freud::order":
         shared_ptr[float complex] getDr()
         unsigned int getNP()
 
+cdef extern from "LocalQl.cc" namespace "freud::order":
+    pass
+
 cdef extern from "LocalQl.h" namespace "freud::order":
     cdef cppclass LocalQl:
         LocalQl(const freud._box.Box &, float, unsigned int, float)
@@ -96,6 +111,9 @@ cdef extern from "LocalQl.h" namespace "freud::order":
         shared_ptr[float] getQlNorm()
         shared_ptr[float] getQlAveNorm()
 
+cdef extern from "LocalWl.cc" namespace "freud::order":
+    pass
+
 cdef extern from "LocalWl.h" namespace "freud::order":
     cdef cppclass LocalWl(LocalQl):
         LocalWl(const freud._box.Box &, float, unsigned int, float)
@@ -106,6 +124,9 @@ cdef extern from "LocalWl.h" namespace "freud::order":
         void enableNormalization()
         void disableNormalization()
 
+cdef extern from "SolLiq.cc" namespace "freud::order":
+    pass
+
 cdef extern from "SolLiq.h" namespace "freud::order":
     cdef cppclass SolLiq:
         SolLiq(const freud._box.Box &, float,

freud/_parallel.pxd

@@ -1,5 +1,8 @@
 # Copyright (c) 2010-2018 The Regents of the University of Michigan
 # This file is from the freud project, released under the BSD 3-Clause License.
 
+cdef extern from "tbb_config.cc" namespace "freud::parallel":
+    pass
+
 cdef extern from "tbb_config.h" namespace "freud::parallel":
     void setNumThreads(unsigned int)

freud/_pmft.pxd

@@ -7,6 +7,9 @@ from libcpp.memory cimport shared_ptr
 cimport freud._box
 cimport freud._locality
 
+cdef extern from "PMFT.cc" namespace "freud::pmft":
+    pass
+
 cdef extern from "PMFT.h" namespace "freud::pmft":
     cdef cppclass PMFT:
         PMFT()
@@ -18,6 +21,9 @@ cdef extern from "PMFT.h" namespace "freud::pmft":
         shared_ptr[float] getPCF()
         float getRCut()
 
+cdef extern from "PMFTR12.cc" namespace "freud::pmft":
+    pass
+
 cdef extern from "PMFTR12.h" namespace "freud::pmft":
     cdef cppclass PMFTR12(PMFT):
         PMFTR12(float, unsigned int, unsigned int, unsigned int)
@@ -38,6 +44,9 @@ cdef extern from "PMFTR12.h" namespace "freud::pmft":
         unsigned int getNBinsT1()
         unsigned int getNBinsT2()
 
+cdef extern from "PMFTXYT.cc" namespace "freud::pmft":
+    pass
+
 cdef extern from "PMFTXYT.h" namespace "freud::pmft":
     cdef cppclass PMFTXYT(PMFT):
         PMFTXYT(float, float, unsigned int, unsigned int, unsigned int)
@@ -58,6 +67,9 @@ cdef extern from "PMFTXYT.h" namespace "freud::pmft":
         unsigned int getNBinsY()
         unsigned int getNBinsT()
 
+cdef extern from "PMFTXY2D.cc" namespace "freud::pmft":
+    pass
+
 cdef extern from "PMFTXY2D.h" namespace "freud::pmft":
     cdef cppclass PMFTXY2D(PMFT):
         PMFTXY2D(float, unsigned int, unsigned int, unsigned int)
@@ -76,6 +88,9 @@ cdef extern from "PMFTXY2D.h" namespace "freud::pmft":
         unsigned int getNBinsX()
         unsigned int getNBinsY()
 
+cdef extern from "PMFTXYZ.cc" namespace "freud::pmft":
+    pass
+
 cdef extern from "PMFTXYZ.h" namespace "freud::pmft":
     cdef cppclass PMFTXYZ(PMFT):
         PMFTXYZ(float, float, float, unsigned int, unsigned int,

freud/_voronoi.pxd

@@ -8,6 +8,9 @@ cimport freud._box
 
 ctypedef unsigned int uint
 
+cdef extern from "VoronoiBuffer.cc" namespace "freud::voronoi":
+    pass
+
 cdef extern from "VoronoiBuffer.h" namespace "freud::voronoi":
     cdef cppclass VoronoiBuffer:
         VoronoiBuffer(const freud._box.Box &)