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authorArnur Nigmetov <a.nigmetov@gmail.com>2018-06-19 21:49:23 +0200
committerArnur Nigmetov <a.nigmetov@gmail.com>2018-06-19 21:49:23 +0200
commit4e3fcd2f8596f39b9bff8cdd8d9789fdffe8a49c (patch)
tree56c7c5853f8ca015ca2d04758991262a716fc944
parenta9d06f12ecbaa055d17970e09827ea7b67d1f53c (diff)
Longest edge for bottleneck, tests for bottleneck
-rw-r--r--geom_bottleneck/example/bottleneck_dist.cpp9
-rw-r--r--geom_bottleneck/include/basic_defs_bt.h71
-rw-r--r--geom_bottleneck/include/bottleneck_detail.hpp200
-rw-r--r--geom_bottleneck/include/bound_match.hpp797
-rw-r--r--geom_bottleneck/include/dnn/local/kd-tree.hpp6
-rw-r--r--geom_bottleneck/include/neighb_oracle.h2
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-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_diag2_A1
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-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_diag2_B1
-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_diag2_B.pd.diphabin0 -> 48 bytes
-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_diag3_A220
-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_diag3_A.pd.diphabin0 -> 5304 bytes
-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_diag3_B193
-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_diag3_B.pd.diphabin0 -> 4656 bytes
-rw-r--r--geom_bottleneck/tests/data/ws_tests/test_list.txt21
-rw-r--r--geom_bottleneck/tests/test_hera_bottleneck.cpp169
1626 files changed, 54929 insertions, 501 deletions
diff --git a/geom_bottleneck/example/bottleneck_dist.cpp b/geom_bottleneck/example/bottleneck_dist.cpp
index 91c4190..8966789 100644
--- a/geom_bottleneck/example/bottleneck_dist.cpp
+++ b/geom_bottleneck/example/bottleneck_dist.cpp
@@ -57,6 +57,7 @@ int main(int argc, char* argv[])
}
double res;
+ hera::bt::MatchingEdge<double> e;
if (argc >= 4) {
// the third parameter is epsilon,
// return approximate distance (faster)
@@ -65,7 +66,7 @@ int main(int argc, char* argv[])
if (useSamplingHeur && diagramA.size() > heurThreshold && diagramB.size() > heurThreshold) {
res = hera::bottleneckDistApproxHeur(diagramA, diagramB, delta);
} else {
- res = hera::bottleneckDistApprox(diagramA, diagramB, delta);
+ res = hera::bottleneckDistApprox(diagramA, diagramB, delta, e, true);
}
} else if (delta == 0.0) {
res = hera::bottleneckDistExact(diagramA, diagramB, decPrecision);
@@ -75,10 +76,12 @@ int main(int argc, char* argv[])
}
} else {
// only filenames have been supplied, return exact distance
- res = hera::bottleneckDistExact(diagramA, diagramB, decPrecision);
+ res = hera::bottleneckDistExact(diagramA, diagramB, decPrecision, e, true);
+
}
std::cout << std::setprecision(15) << res << std::endl;
-
+ //std::cout << "Longest edge " << e.first.get_user_id() << " <-> " << e.second.get_user_id() << std::endl;
+ //std::cout << "Longest edge " << e.first << " <-> " << e.second << std::endl;
// Alternative could be to construct DiagramPointSet
// using the constructor with iterators.
// May be useful if the same diagram is used multiple times
diff --git a/geom_bottleneck/include/basic_defs_bt.h b/geom_bottleneck/include/basic_defs_bt.h
index 954696e..a26d9a5 100644
--- a/geom_bottleneck/include/basic_defs_bt.h
+++ b/geom_bottleneck/include/basic_defs_bt.h
@@ -117,6 +117,7 @@ namespace hera {
public:
Type type;
IdType id;
+ IdType user_id;
// operators, constructors
bool operator==(const DiagramPoint<Real>& other) const
@@ -138,15 +139,17 @@ namespace hera {
x(0.0),
y(0.0),
type(DiagramPoint::DIAG),
- id(MinValidId - 1)
+ id(MinValidId - 1),
+ user_id(-1)
{
}
- DiagramPoint(Real _x, Real _y, Type _type, IdType _id) :
+ DiagramPoint(Real _x, Real _y, Type _type, IdType _id, IdType _user_id) :
x(_x),
y(_y),
type(_type),
- id(_id)
+ id(_id),
+ user_id(_user_id)
{
if (_y == _x and _type != DIAG) {
throw std::runtime_error("Point on the main diagonal must have DIAG type");
@@ -179,6 +182,28 @@ namespace hera {
return y;
}
+ IdType inline get_user_id() const
+ {
+ if (isNormal())
+ return user_id;
+ else
+ return -1;
+ }
+
+ Real inline get_persistence(const Real internal_p = get_infinity()) const
+ {
+ if (isDiagonal())
+ return 0.0;
+ Real pers = (y - x) / 2;
+ if (internal_p == get_infinity()) {
+ return pers;
+ } else if (internal_p == 1.0) {
+ return 2 * pers;
+ } else {
+ return std::pow(static_cast<Real>(2), static_cast<Real>(1) / internal_p);
+ }
+ }
+
#ifndef FOR_R_TDA
template<class R>
@@ -191,9 +216,7 @@ namespace hera {
}
return output;
}
-
#endif
-
};
template<class Real>
@@ -201,7 +224,7 @@ namespace hera {
// compute l-inf distance between two diagram points
template<class Real>
- Real distLInf(const DiagramPoint<Real>& a, const DiagramPoint<Real>& b)
+ inline Real distLInf(const DiagramPoint<Real>& a, const DiagramPoint<Real>& b)
{
if (a.isDiagonal() and b.isDiagonal()) {
// distance between points on the diagonal is 0
@@ -211,9 +234,29 @@ namespace hera {
return std::max(fabs(a.getRealX() - b.getRealX()), fabs(a.getRealY() - b.getRealY()));
}
+ // this function works with points at infinity as well
+ // not needed in actual computation, since these points are processed
+ // separately, but is useful in tests
+ template<class Real>
+ inline Real dist_l_inf_slow(const DiagramPoint<Real>& a, const DiagramPoint<Real>& b)
+ {
+ if (a.isDiagonal() and b.isDiagonal()) {
+ // distance between points on the diagonal is 0
+ return 0.0;
+ }
+ // otherwise distance is a usual l-inf distance
+ Real dx = (a.getRealX() == b.getRealX()) ? 0.0 : fabs(a.getRealX() - b.getRealX());
+ Real dy = (a.getRealY() == b.getRealY()) ? 0.0 : fabs(a.getRealY() - b.getRealY());
+ Real result = std::max(dx, dy);
+ if (std::isnan(result))
+ result = std::numeric_limits<Real>::infinity();
+ return result;
+ }
+
+
template<class Real = double>
- Real get_infinity()
+ inline Real get_infinity()
{
return Real(-1.0);
}
@@ -384,8 +427,9 @@ namespace hera {
isLinked = false;
clear();
IdType uniqueId = MinValidId + 1;
+ IdType user_id = 0;
for (auto iter = begin_iter; iter != end_iter; ++iter) {
- insert(DgmPoint(iter->first, iter->second, DgmPoint::NORMAL, uniqueId++));
+ insert(DgmPoint(iter->first, iter->second, DgmPoint::NORMAL, uniqueId++, user_id++));
}
}
@@ -396,10 +440,11 @@ namespace hera {
isLinked = false;
clear();
IdType uniqueId = MinValidId + 1;
+ IdType user_id = 0;
for (const auto& pt : dgm_cont) {
Real x = Traits::get_x(pt);
Real y = Traits::get_y(pt);
- insert(DgmPoint(x, y, DgmPoint::NORMAL, uniqueId++));
+ insert(DgmPoint(x, y, DgmPoint::NORMAL, uniqueId++, user_id++));
}
}
@@ -469,9 +514,9 @@ namespace hera {
for (auto& pA : A) {
if (pA.isNormal() and not pA.isInfinity()) {
// add pA's projection to B
- DgmPoint dpA { pA.getRealX(), pA.getRealY(), DgmPoint::NORMAL, uniqueId++ };
+ DgmPoint dpA { pA.getRealX(), pA.getRealY(), DgmPoint::NORMAL, uniqueId++, pA.get_user_id() };
DgmPoint dpB { (pA.getRealX() + pA.getRealY()) / 2, (pA.getRealX() + pA.getRealY()) / 2,
- DgmPoint::DIAG, uniqueId++ };
+ DgmPoint::DIAG, uniqueId++, -1 };
newA.insert(dpA);
newB.insert(dpB);
}
@@ -480,9 +525,9 @@ namespace hera {
for (auto& pB : B) {
if (pB.isNormal() and not pB.isInfinity()) {
// add pB's projection to A
- DgmPoint dpB { pB.getRealX(), pB.getRealY(), DgmPoint::NORMAL, uniqueId++ };
+ DgmPoint dpB { pB.getRealX(), pB.getRealY(), DgmPoint::NORMAL, uniqueId++, pB.get_user_id() };
DgmPoint dpA { (pB.getRealX() + pB.getRealY()) / 2, (pB.getRealX() + pB.getRealY()) / 2,
- DgmPoint::DIAG, uniqueId++ };
+ DgmPoint::DIAG, uniqueId++, -1 };
newB.insert(dpB);
newA.insert(dpA);
}
diff --git a/geom_bottleneck/include/bottleneck_detail.hpp b/geom_bottleneck/include/bottleneck_detail.hpp
index ad6c882..8ec9c68 100644
--- a/geom_bottleneck/include/bottleneck_detail.hpp
+++ b/geom_bottleneck/include/bottleneck_detail.hpp
@@ -40,6 +40,7 @@ derivative works thereof, in binary and source code form.
#include <sstream>
#include <string>
#include <cctype>
+#include <set>
#include "bottleneck_detail.h"
@@ -106,31 +107,35 @@ namespace hera {
distMax = std::max(distMax, infinityCost);
}
- template<class Real>
- inline Real getOneDimensionalCost(std::vector<Real>& set_A, std::vector<Real>& set_B)
- {
- if (set_A.size() != set_B.size()) {
- return std::numeric_limits<Real>::infinity();
- }
-
- if (set_A.empty()) {
- return Real(0.0);
- }
-
- std::sort(set_A.begin(), set_A.end());
- std::sort(set_B.begin(), set_B.end());
-
- Real result = 0.0;
- for (size_t i = 0; i < set_A.size(); ++i) {
- result = std::max(result, (std::fabs(set_A[i] - set_B[i])));
- }
-
- return result;
- }
+ // template<class Real>
+ // inline Real getOneDimensionalCost(std::vector<Real>& set_A, std::vector<Real>& set_B)
+ // {
+ // if (set_A.size() != set_B.size()) {
+ // return std::numeric_limits<Real>::infinity();
+ // }
+ //
+ // if (set_A.empty()) {
+ // return Real(0.0);
+ // }
+ //
+ // std::sort(set_A.begin(), set_A.end());
+ // std::sort(set_B.begin(), set_B.end());
+ //
+ // Real result = 0.0;
+ // for (size_t i = 0; i < set_A.size(); ++i) {
+ // result = std::max(result, (std::fabs(set_A[i] - set_B[i])));
+ // }
+ //
+ // return result;
+ // }
template<class Real>
- using CostEdgePair = std::pair<Real, typename hera::bt::MatchingEdge<Real>>;
+ struct CostEdgePair
+ {
+ Real cost;
+ typename hera::bt::MatchingEdge<Real> edge;
+ };
template<class Real>
using CoordPointPair = std::pair<Real, typename hera::bt::DiagramPoint<Real>>;
@@ -148,27 +153,31 @@ namespace hera {
};
template<class Real>
- inline typename hera::bt::CostEdgePair<Real> getOneDimensionalCost(typename hera::bt::CoordPointVector<Real>& set_A, typename hera::bt::CoordPointVector<Real>& set_B)
+ inline typename hera::bt::CostEdgePair<Real>
+ getOneDimensionalCost(typename hera::bt::CoordPointVector<Real>& set_A,
+ typename hera::bt::CoordPointVector<Real>& set_B)
{
using MatchingEdgeR = hera::bt::MatchingEdge<Real>;
+ using CostEdgePairR = CostEdgePair<Real>;
+
if (set_A.size() != set_B.size()) {
- return std::make_pair(std::numeric_limits<Real>::infinity(), MatchingEdgeR());
+ return CostEdgePairR { std::numeric_limits<Real>::infinity(), MatchingEdgeR() };
}
if (set_A.empty()) {
- return std::make_pair(Real(0.0), MatchingEdgeR());
+ return CostEdgePairR { Real(0.0), MatchingEdgeR() };
}
std::sort(set_A.begin(), set_A.end(), CoordPointPairComparator<Real>());
std::sort(set_B.begin(), set_B.end(), CoordPointPairComparator<Real>());
- CostEdgePair<Real> result(-1.0, MatchingEdgeR());
+ CostEdgePairR result { -1.0, MatchingEdgeR() };
for (size_t i = 0; i < set_A.size(); ++i) {
Real curr_cost = std::fabs(set_A[i].first - set_B[i].first);
- if (curr_cost > result.first) {
- result.first = curr_cost;
- result.second = MatchingEdgeR(set_A[i].second, set_B[i].second);
+ if (curr_cost > result.cost) {
+ result.cost = curr_cost;
+ result.edge = MatchingEdgeR(set_A[i].second, set_B[i].second);
}
}
return result;
@@ -176,23 +185,26 @@ namespace hera {
template<class Real>
- inline Real getInfinityCost(const DiagramPointSet <Real>& A, const DiagramPointSet <Real>& B,
- bool compute_longest_edge = false)
+ inline CostEdgePair<Real> getInfinityCost(const DiagramPointSet <Real>& A, const DiagramPointSet <Real>& B,
+ bool compute_longest_edge = false)
{
- std::vector<Real> x_plus_A, x_minus_A, y_plus_A, y_minus_A;
- std::vector<Real> x_plus_B, x_minus_B, y_plus_B, y_minus_B;
+ using CostEdgePairR = CostEdgePair<Real>;
+ using CoordPointVectorR = CoordPointVector<Real>;
+
+ CoordPointVectorR x_plus_A, x_minus_A, y_plus_A, y_minus_A;
+ CoordPointVectorR x_plus_B, x_minus_B, y_plus_B, y_minus_B;
for (auto iter_A = A.cbegin(); iter_A != A.cend(); ++iter_A) {
Real x = iter_A->getRealX();
Real y = iter_A->getRealY();
if (x == std::numeric_limits<Real>::infinity()) {
- y_plus_A.push_back(y);
+ y_plus_A.emplace_back(y, *iter_A);
} else if (x == -std::numeric_limits<Real>::infinity()) {
- y_minus_A.push_back(y);
+ y_minus_A.emplace_back(y, *iter_A);
} else if (y == std::numeric_limits<Real>::infinity()) {
- x_plus_A.push_back(x);
+ x_plus_A.emplace_back(x, *iter_A);
} else if (y == -std::numeric_limits<Real>::infinity()) {
- x_minus_A.push_back(x);
+ x_minus_A.emplace_back(x, *iter_A);
}
}
@@ -200,45 +212,60 @@ namespace hera {
Real x = iter_B->getRealX();
Real y = iter_B->getRealY();
if (x == std::numeric_limits<Real>::infinity()) {
- y_plus_B.push_back(y);
+ y_plus_B.emplace_back(y, *iter_B);
} else if (x == -std::numeric_limits<Real>::infinity()) {
- y_minus_B.push_back(y);
+ y_minus_B.emplace_back(y, *iter_B);
} else if (y == std::numeric_limits<Real>::infinity()) {
- x_plus_B.push_back(x);
+ x_plus_B.emplace_back(x, *iter_B);
} else if (y == -std::numeric_limits<Real>::infinity()) {
- x_minus_B.push_back(x);
+ x_minus_B.emplace_back(x, *iter_B);
}
}
- Real infinity_cost = getOneDimensionalCost(x_plus_A, x_plus_B);
- infinity_cost = std::max(infinity_cost, getOneDimensionalCost(x_minus_A, x_minus_B));
- infinity_cost = std::max(infinity_cost, getOneDimensionalCost(y_plus_A, y_plus_B));
- infinity_cost = std::max(infinity_cost, getOneDimensionalCost(y_minus_A, y_minus_B));
+ CostEdgePairR result = getOneDimensionalCost(x_plus_A, x_plus_B);
- return infinity_cost;
+ CostEdgePairR next_cost_edge = getOneDimensionalCost(x_minus_A, x_minus_B);
+ if (next_cost_edge.cost > result.cost) {
+ result = next_cost_edge;
+ }
+
+ next_cost_edge = getOneDimensionalCost(y_plus_A, y_plus_B);
+ if (next_cost_edge.cost > result.cost) {
+ result = next_cost_edge;
+ }
+
+ next_cost_edge = getOneDimensionalCost(y_minus_A, y_minus_B);
+ if (next_cost_edge.cost > result.cost) {
+ result = next_cost_edge;
+ }
+
+ return result;
}
-// return the interval (distMin, distMax) such that:
-// a) actual bottleneck distance between A and B is contained in the interval
-// b) if the interval is not (0,0), then (distMax - distMin) / distMin < epsilon
+ // return the interval (distMin, distMax) such that:
+ // a) actual bottleneck distance between A and B is contained in the interval
+ // b) if the interval is not (0,0), then (distMax - distMin) / distMin < epsilon
template<class Real>
inline std::pair<Real, Real>
- bottleneckDistApproxInterval(DiagramPointSet <Real>& A, DiagramPointSet <Real>& B, const Real epsilon,
- MatchingEdge <Real>& edge, bool compute_longest_edge)
+ bottleneckDistApproxInterval(DiagramPointSet<Real>& A, DiagramPointSet<Real>& B, const Real epsilon,
+ MatchingEdge<Real>& edge, bool compute_longest_edge)
{
+ using MatchingEdgeR = MatchingEdge<Real>;
+ using CostEdgePairR = CostEdgePair<Real>;
+
+ edge = MatchingEdgeR();
// empty diagrams are not considered as error
if (A.empty() and B.empty()) {
return std::make_pair(0.0, 0.0);
}
- if (compute_longest_edge) {
- auto inf_cost_edge = getInfinityCost(A, B, true);
- } else {
- }
+ CostEdgePairR inf_cost_edge = getInfinityCost(A, B, true);
- Real infinity_cost = getInfinityCost(A, B);
+ Real infinity_cost = inf_cost_edge.cost;
if (infinity_cost == std::numeric_limits<Real>::infinity()) {
return std::make_pair(infinity_cost, infinity_cost);
+ } else {
+ edge = inf_cost_edge.edge;
}
// link diagrams A and B by adding projections
@@ -254,15 +281,20 @@ namespace hera {
BoundMatchOracle<Real> oracle(A, B, epsThreshold, useRangeSearch);
// check for distance = 0
if (oracle.isMatchLess(2 * epsThreshold)) {
- result.first = std::max(result.first, infinity_cost);
- result.second = std::max(result.first, infinity_cost);
+ if (infinity_cost > epsThreshold) {
+ result.first = infinity_cost;
+ result.second = infinity_cost;
+ edge = inf_cost_edge.edge;
+ }
return result;
}
// get a 3-approximation of maximal distance between A and B
// as a starting value for probe distance
Real distProbe { getFurthestDistance3Approx<Real, DiagramPointSet<Real>>(A, B) };
binarySearch(epsilon, result, oracle, infinity_cost, false, distProbe);
- if (compute_longest_edge) {
+ // to compute longest edge a perfect matching is needed
+ if (compute_longest_edge and result.first > infinity_cost) {
+ oracle.isMatchLess(result.second);
edge = oracle.get_longest_edge();
}
return result;
@@ -318,9 +350,9 @@ namespace hera {
}
-// return the interval (distMin, distMax) such that:
-// a) actual bottleneck distance between A and B is contained in the interval
-// b) if the interval is not (0,0), then (distMax - distMin) / distMin < epsilon
+ // return the interval (distMin, distMax) such that:
+ // a) actual bottleneck distance between A and B is contained in the interval
+ // b) if the interval is not (0,0), then (distMax - distMin) / distMin < epsilon
template<class Real>
std::pair<Real, Real>
bottleneckDistApproxIntervalWithInitial(DiagramPointSet <Real>& A, DiagramPointSet <Real>& B,
@@ -378,10 +410,10 @@ namespace hera {
return result;
}
-// return the interval (distMin, distMax) such that:
-// a) actual bottleneck distance between A and B is contained in the interval
-// b) if the interval is not (0,0), then (distMax - distMin) / distMin < epsilon
-// use heuristic: initial estimate on sampled diagrams
+ // return the interval (distMin, distMax) such that:
+ // a) actual bottleneck distance between A and B is contained in the interval
+ // b) if the interval is not (0,0), then (distMax - distMin) / distMin < epsilon
+ // use heuristic: initial estimate on sampled diagrams
template<class Real>
std::pair<Real, Real>
bottleneckDistApproxIntervalHeur(DiagramPointSet <Real>& A, DiagramPointSet <Real>& B, const Real epsilon,
@@ -410,13 +442,13 @@ namespace hera {
}
-// get approximate distance,
-// see bottleneckDistApproxInterval
+ // get approximate distance,
+ // see bottleneckDistApproxInterval
template<class Real>
Real bottleneckDistApprox(DiagramPointSet <Real>& A, DiagramPointSet <Real>& B, const Real epsilon,
MatchingEdge <Real>& longest_edge, bool compute_longest_edge)
{
- auto interval = bottleneckDistApproxInterval<Real>(A, B, epsilon, longest_edge);
+ auto interval = bottleneckDistApproxInterval<Real>(A, B, epsilon, longest_edge, compute_longest_edge);
return interval.second;
}
@@ -444,7 +476,7 @@ namespace hera {
distEpsilon = diff;
}
}
- distEpsilon /= 3.0;
+ distEpsilon = std::min(diffThreshold, distEpsilon / 3.0);
BoundMatchOracle<Real> oracle(A, B, distEpsilon, useRangeSearch);
// binary search
@@ -462,16 +494,19 @@ namespace hera {
}
}
idxMid = static_cast<size_t>(floor(idxMin + idxMax) / 2.0);
+ Real result = pairwiseDist[idxMid];
if (compute_longest_edge) {
+ oracle.isMatchLess(result + distEpsilon / 2.0);
longest_edge = oracle.get_longest_edge();
}
- return pairwiseDist[idxMid];
+ return result;
}
template<class Real>
- Real bottleneckDistExact(DiagramPointSet <Real>& A, DiagramPointSet <Real>& B, MatchingEdge <Real>& longest_edge,
- bool compute_longest_edge)
+ Real
+ bottleneckDistExact(DiagramPointSet <Real>& A, DiagramPointSet <Real>& B, MatchingEdge <Real>& longest_edge,
+ bool compute_longest_edge)
{
return bottleneckDistExact(A, B, 14, longest_edge, compute_longest_edge);
}
@@ -483,7 +518,10 @@ namespace hera {
using DgmPoint = DiagramPoint<Real>;
constexpr Real epsilon = 0.001;
- auto interval = bottleneckDistApproxInterval(A, B, epsilon, longest_edge);
+ auto interval = bottleneckDistApproxInterval(A, B, epsilon, longest_edge, true);
+ // if the longest edge is on infinity, the answer is already exact
+ // this will be detected here and all the code after if
+ // may assume that the longest edge is on finite points
if (interval.first == interval.second) {
return interval.first;
}
@@ -504,7 +542,7 @@ namespace hera {
// in this vector we store the distances between the points
// that are candidates to realize
- std::vector<Real> pairwiseDist;
+ std::set<Real> pairwiseDist;
{
// vector to store centers of vertical stripes
// two for each point in A and the id of the corresponding point
@@ -540,7 +578,7 @@ namespace hera {
// check if distance fits into the interval we've found
Real pwDist = distLInf(iterA->second, ptB);
if (pwDist >= minDist and pwDist <= maxDist) {
- pairwiseDist.push_back(pwDist);
+ pairwiseDist.insert(pwDist);
}
}
}
@@ -577,15 +615,19 @@ namespace hera {
}
Real pwDist = distLInf(iterA->second, ptB);
if (pwDist >= minDist and pwDist <= maxDist) {
- pairwiseDist.push_back(pwDist);
+ pairwiseDist.insert(pwDist);
}
}
}
}
- std::sort(pairwiseDist.begin(), pairwiseDist.end());
+ std::vector<Real> pw_dists;
+ pw_dists.reserve(pairwiseDist.size());
+ for(Real d : pairwiseDist) {
+ pw_dists.push_back(d);
+ }
- return bottleneckDistExactFromSortedPwDist(A, B, pairwiseDist, decPrecision, longest_edge,
+ return bottleneckDistExactFromSortedPwDist(A, B, pw_dists, decPrecision, longest_edge,
compute_longest_edge);
}
diff --git a/geom_bottleneck/include/bound_match.hpp b/geom_bottleneck/include/bound_match.hpp
index bb7dead..b95628f 100644
--- a/geom_bottleneck/include/bound_match.hpp
+++ b/geom_bottleneck/include/bound_match.hpp
@@ -45,442 +45,467 @@ derivative works thereof, in binary and source code form.
#endif
#ifndef FOR_R_TDA
+
#include <iostream>
+
#endif
-namespace hera{
-namespace bt {
+namespace hera {
+ namespace bt {
#ifndef FOR_R_TDA
-template<class Real>
-std::ostream& operator<<(std::ostream& output, const Matching<Real>& m)
-{
- output << "Matching: " << m.AToB.size() << " pairs (";
- if (!m.isPerfect()) {
- output << "not";
- }
- output << " perfect)" << std::endl;
- for(auto atob : m.AToB) {
- output << atob.first << " <-> " << atob.second << " distance: " << distLInf(atob.first, atob.second) << std::endl;
- }
- return output;
-}
+
+ template<class Real>
+ std::ostream& operator<<(std::ostream& output, const Matching <Real>& m)
+ {
+ output << "Matching: " << m.AToB.size() << " pairs (";
+ if (!m.isPerfect()) {
+ output << "not";
+ }
+ output << " perfect)" << std::endl;
+ for (auto atob : m.AToB) {
+ output << atob.first << " <-> " << atob.second << " distance: " << distLInf(atob.first, atob.second)
+ << std::endl;
+ }
+ return output;
+ }
+
#endif
-template<class R>
-void Matching<R>::sanityCheck() const
-{
+ template<class R>
+ void Matching<R>::sanityCheck() const
+ {
#ifdef DEBUG_MATCHING
- assert( AToB.size() == BToA.size() );
- for(auto aToBPair : AToB) {
- auto bToAPair = BToA.find(aToBPair.second);
- assert(bToAPair != BToA.end());
- assert( aToBPair.first == bToAPair->second);
- }
+ assert( AToB.size() == BToA.size() );
+ for(auto aToBPair : AToB) {
+ auto bToAPair = BToA.find(aToBPair.second);
+ assert(bToAPair != BToA.end());
+ assert( aToBPair.first == bToAPair->second);
+ }
#endif
-}
-
-template<class R>
-bool Matching<R>::isPerfect() const
-{
- return AToB.size() == A.size();
-}
-
-template<class R>
-void Matching<R>::matchVertices(const DgmPoint& pA, const DgmPoint& pB)
-{
- assert(A.hasElement(pA));
- assert(B.hasElement(pB));
- AToB.erase(pA);
- AToB.insert( {{ pA, pB }} );
- BToA.erase(pB);
- BToA.insert( {{ pB, pA }} );
-}
-
-template<class R>
-bool Matching<R>::getMatchedVertex(const DgmPoint& p, DgmPoint& result) const
-{
- sanityCheck();
- auto inA = AToB.find(p);
- if (inA != AToB.end()) {
- result = inA->second;
- return true;
- } else {
- auto inB = BToA.find(p);
- if (inB != BToA.end()) {
- result = inB->second;
- return true;
}
- }
- return false;
-}
-
-
-template<class R>
-void Matching<R>::checkAugPath(const Path& augPath) const
-{
- assert(augPath.size() % 2 == 0);
- for(size_t idx = 0; idx < augPath.size(); ++idx) {
- bool mustBeExposed { idx == 0 or idx == augPath.size() - 1 };
- if (isExposed(augPath[idx]) != mustBeExposed) {
+
+ template<class R>
+ bool Matching<R>::isPerfect() const
+ {
+ return AToB.size() == A.size();
+ }
+
+ template<class R>
+ void Matching<R>::matchVertices(const DgmPoint& pA, const DgmPoint& pB)
+ {
+ assert(A.hasElement(pA));
+ assert(B.hasElement(pB));
+ AToB.erase(pA);
+ AToB.insert({{ pA, pB }});
+ BToA.erase(pB);
+ BToA.insert({{ pB, pA }});
+ }
+
+ template<class R>
+ bool Matching<R>::getMatchedVertex(const DgmPoint& p, DgmPoint& result) const
+ {
+ sanityCheck();
+ auto inA = AToB.find(p);
+ if (inA != AToB.end()) {
+ result = inA->second;
+ return true;
+ } else {
+ auto inB = BToA.find(p);
+ if (inB != BToA.end()) {
+ result = inB->second;
+ return true;
+ }
+ }
+ return false;
+ }
+
+
+ template<class R>
+ void Matching<R>::checkAugPath(const Path& augPath) const
+ {
+ assert(augPath.size() % 2 == 0);
+ for (size_t idx = 0; idx < augPath.size(); ++idx) {
+ bool mustBeExposed { idx == 0 or idx == augPath.size() - 1 };
+ if (isExposed(augPath[idx]) != mustBeExposed) {
#ifndef FOR_R_TDA
- std::cerr << "mustBeExposed = " << mustBeExposed << ", idx = " << idx << ", point " << augPath[idx] << std::endl;
+ std::cerr << "mustBeExposed = " << mustBeExposed << ", idx = " << idx << ", point " << augPath[idx]
+ << std::endl;
#endif
+ }
+ assert(isExposed(augPath[idx]) == mustBeExposed);
+ DgmPoint matchedVertex;
+ if (idx % 2 == 0) {
+ assert(A.hasElement(augPath[idx]));
+ if (not mustBeExposed) {
+ getMatchedVertex(augPath[idx], matchedVertex);
+ assert(matchedVertex == augPath[idx - 1]);
+ }
+ } else {
+ assert(B.hasElement(augPath[idx]));
+ if (not mustBeExposed) {
+ getMatchedVertex(augPath[idx], matchedVertex);
+ assert(matchedVertex == augPath[idx + 1]);
+ }
+ }
+ }
}
- assert( isExposed(augPath[idx]) == mustBeExposed );
- DgmPoint matchedVertex {0.0, 0.0, DgmPoint::DIAG, 1};
- if ( idx % 2 == 0 ) {
- assert( A.hasElement(augPath[idx]));
- if (not mustBeExposed) {
- getMatchedVertex(augPath[idx], matchedVertex);
- assert(matchedVertex == augPath[idx - 1]);
+
+ // use augmenting path to increase
+ // the size of the matching
+ template<class R>
+ void Matching<R>::increase(const Path& augPath)
+ {
+ sanityCheck();
+ // check that augPath is an augmenting path
+ checkAugPath(augPath);
+ for (size_t idx = 0; idx < augPath.size() - 1; idx += 2) {
+ matchVertices(augPath[idx], augPath[idx + 1]);
}
- } else {
- assert( B.hasElement(augPath[idx]));
- if (not mustBeExposed) {
- getMatchedVertex(augPath[idx], matchedVertex);
- assert(matchedVertex == augPath[idx + 1]);
+ sanityCheck();
+ }
+
+ template<class R>
+ DiagramPointSet <R> Matching<R>::getExposedVertices(bool forA) const
+ {
+ sanityCheck();
+ DgmPointSet result;
+ const DgmPointSet* setToSearch { forA ? &A : &B };
+ const std::unordered_map<DgmPoint, DgmPoint, DgmPointHash>* mapToSearch { forA ? &AToB : &BToA };
+ for (auto it = setToSearch->cbegin(); it != setToSearch->cend(); ++it) {
+ if (mapToSearch->find((*it)) == mapToSearch->cend()) {
+ result.insert((*it));
+ }
}
+ return result;
}
- }
-}
-
-// use augmenting path to increase
-// the size of the matching
-template<class R>
-void Matching<R>::increase(const Path& augPath)
-{
- sanityCheck();
- // check that augPath is an augmenting path
- checkAugPath(augPath);
- for(size_t idx = 0; idx < augPath.size() - 1; idx += 2) {
- matchVertices( augPath[idx], augPath[idx + 1]);
- }
- sanityCheck();
-}
-
-template<class R>
-DiagramPointSet<R> Matching<R>::getExposedVertices(bool forA) const
-{
- sanityCheck();
- DgmPointSet result;
- const DgmPointSet* setToSearch { forA ? &A : &B };
- const std::unordered_map<DgmPoint, DgmPoint, DgmPointHash>* mapToSearch { forA ? &AToB : &BToA };
- for(auto it = setToSearch->cbegin(); it != setToSearch->cend(); ++it) {
- if (mapToSearch->find((*it)) == mapToSearch->cend()) {
- result.insert((*it));
+
+ template<class R>
+ void Matching<R>::getAllAdjacentVertices(const DgmPointSet& setIn,
+ DgmPointSet& setOut,
+ bool forA) const
+ {
+ sanityCheck();
+ //bool isDebug {false};
+ setOut.clear();
+ const std::unordered_map<DgmPoint, DgmPoint, DgmPointHash>* m;
+ m = (forA) ? &BToA : &AToB;
+ for (auto pit = setIn.cbegin(); pit != setIn.cend(); ++pit) {
+ auto findRes = m->find(*pit);
+ if (findRes != m->cend()) {
+ setOut.insert((*findRes).second);
+ }
+ }
+ sanityCheck();
}
- }
- return result;
-}
-
-template<class R>
-void Matching<R>::getAllAdjacentVertices(const DgmPointSet& setIn,
- DgmPointSet& setOut,
- bool forA) const
-{
- sanityCheck();
- //bool isDebug {false};
- setOut.clear();
- const std::unordered_map<DgmPoint, DgmPoint, DgmPointHash>* m;
- m = ( forA ) ? &BToA : &AToB;
- for(auto pit = setIn.cbegin(); pit != setIn.cend(); ++pit) {
- auto findRes = m->find(*pit);
- if (findRes != m->cend()) {
- setOut.insert((*findRes).second);
+
+ template<class R>
+ bool Matching<R>::isExposed(const DgmPoint& p) const
+ {
+ return (AToB.find(p) == AToB.end()) && (BToA.find(p) == BToA.end());
}
- }
- sanityCheck();
-}
-
-template<class R>
-bool Matching<R>::isExposed(const DgmPoint& p) const
-{
- return ( AToB.find(p) == AToB.end() ) && ( BToA.find(p) == BToA.end() );
-}
-
-// remove all edges whose length is > newThreshold
-template<class R>
-void Matching<R>::trimMatching(const R newThreshold)
-{
- //bool isDebug { false };
- sanityCheck();
- for(auto aToBIter = AToB.begin(); aToBIter != AToB.end(); ) {
- if ( distLInf(aToBIter->first, aToBIter->second) > newThreshold ) {
- // remove edge from AToB and BToA
- BToA.erase(aToBIter->second);
- aToBIter = AToB.erase(aToBIter);
- } else {
- aToBIter++;
+
+ // remove all edges whose length is > newThreshold
+ template<class R>
+ void Matching<R>::trimMatching(const R newThreshold)
+ {
+ //bool isDebug { false };
+ sanityCheck();
+ for (auto aToBIter = AToB.begin(); aToBIter != AToB.end();) {
+ if (distLInf(aToBIter->first, aToBIter->second) > newThreshold) {
+ // remove edge from AToB and BToA
+ BToA.erase(aToBIter->second);
+ aToBIter = AToB.erase(aToBIter);
+ } else {
+ aToBIter++;
+ }
+ }
+ sanityCheck();
}
- }
- sanityCheck();
-}
-
-template<class R>
-MatchingEdge<R> Matching<R>::get_longest_edge() const
-{
- R max_dist = -1.0;
- MatchingEdge<R> edge;
- for(const auto& x : AToB) {
- if (max_dist < distLInf(x.first, x.second)) {
- edge = x;
+
+ template<class R>
+ MatchingEdge <R> Matching<R>::get_longest_edge() const
+ {
+ R max_dist = -1.0;
+ MatchingEdge<R> edge;
+ for (const auto& x : AToB) {
+ //std::cout << "max_dist = " << max_dist << std::endl;
+ //std::cout << "distance = " << distLInf(x.first, x.second) << std::endl;
+
+ // for now skew edges may appear in the matching
+ // but they should not be returned to user
+ // if currrent edge is a skew edge, there must another edge
+ // with the same cost
+ R curr_dist;
+ if (x.first.isDiagonal() and x.second.isNormal()) {
+ curr_dist = x.second.get_persistence(hera::get_infinity());
+ } else if (x.first.isNormal() and x.second.isDiagonal()) {
+ curr_dist = x.first.get_persistence(hera::get_infinity());
+ } else {
+ curr_dist = distLInf(x.first, x.second);
+ }
+ if (max_dist < curr_dist) {
+ max_dist = curr_dist;
+ edge = x;
+ //std::cout << "updated max_dist = " << max_dist << std::endl;
+ //std::cout << "updated edge = " << x.first << " <-> " << x.second << std::endl;
+ }
+ }
+ return edge;
+ }
+
+ // ------- BoundMatchOracle --------------
+
+ template<class R, class NO>
+ BoundMatchOracle<R, NO>::BoundMatchOracle(DgmPointSet psA, DgmPointSet psB,
+ Real dEps, bool useRS) :
+ A(psA), B(psB), M(A, B), distEpsilon(dEps), useRangeSearch(useRS), prevQueryValue(0.0)
+ {
+ neighbOracle = std::unique_ptr<NeighbOracle>(new NeighbOracle(psB, 0, distEpsilon));
}
- }
- return edge;
-}
-
-// ------- BoundMatchOracle --------------
-
-template<class R, class NO>
-BoundMatchOracle<R, NO>::BoundMatchOracle(DgmPointSet psA, DgmPointSet psB,
- Real dEps, bool useRS) :
- A(psA), B(psB), M(A, B), distEpsilon(dEps), useRangeSearch(useRS), prevQueryValue(0.0)
-{
- neighbOracle = std::unique_ptr<NeighbOracle>(new NeighbOracle(psB, 0, distEpsilon));
-}
-
-template<class R, class NO>
-bool BoundMatchOracle<R, NO>::isMatchLess(Real r)
-{
+
+ template<class R, class NO>
+ bool BoundMatchOracle<R, NO>::isMatchLess(Real r)
+ {
#ifdef VERBOSE_BOTTLENECK
- std::chrono::high_resolution_clock hrClock;
- std::chrono::time_point<std::chrono::high_resolution_clock> startMoment;
- startMoment = hrClock.now();
+ std::chrono::high_resolution_clock hrClock;
+ std::chrono::time_point<std::chrono::high_resolution_clock> startMoment;
+ startMoment = hrClock.now();
#endif
- bool result = buildMatchingForThreshold(r);
+ bool result = buildMatchingForThreshold(r);
#ifdef VERBOSE_BOTTLENECK
- auto endMoment = hrClock.now();
- std::chrono::duration<double, std::milli> iterTime = endMoment - startMoment;
- std::cout << "isMatchLess for r = " << r << " finished in " << std::chrono::duration<double, std::milli>(iterTime).count() << " ms." << std::endl;
+ auto endMoment = hrClock.now();
+ std::chrono::duration<double, std::milli> iterTime = endMoment - startMoment;
+ std::cout << "isMatchLess for r = " << r << " finished in " << std::chrono::duration<double, std::milli>(iterTime).count() << " ms." << std::endl;
#endif
- return result;
-
-}
-
-
-template<class R, class NO>
-void BoundMatchOracle<R, NO>::removeFromLayer(const DgmPoint& p, const int layerIdx) {
- //bool isDebug {false};
- layerGraph[layerIdx].erase(p);
- if (layerOracles[layerIdx]) {
- layerOracles[layerIdx]->deletePoint(p);
- }
-}
-
-// return true, if there exists an augmenting path from startVertex
-// in this case the path is returned in result.
-// startVertex must be an exposed vertex from L_1 (layer[0])
-template<class R, class NO>
-bool BoundMatchOracle<R, NO>::buildAugmentingPath(const DgmPoint startVertex, Path& result)
-{
- //bool isDebug {false};
- DgmPoint prevVertexA = startVertex;
- result.clear();
- result.push_back(startVertex);
- size_t evenLayerIdx {1};
- while ( evenLayerIdx < layerGraph.size() ) {
- //for(size_t evenLayerIdx = 1; evenLayerIdx < layerGraph.size(); evenLayerIdx += 2) {
- DgmPoint nextVertexB{0.0, 0.0, DgmPoint::DIAG, 1}; // next vertex from even layer
- bool neighbFound = layerOracles[evenLayerIdx]->getNeighbour(prevVertexA, nextVertexB);
- if (neighbFound) {
- result.push_back(nextVertexB);
- if ( layerGraph.size() == evenLayerIdx + 1) {
- break;
- } else {
- // nextVertexB must be matched with some vertex from the next odd
- // layer
- DgmPoint nextVertexA {0.0, 0.0, DgmPoint::DIAG, 1};
- if (!M.getMatchedVertex(nextVertexB, nextVertexA)) {
+ return result;
+
+ }
+
+
+ template<class R, class NO>
+ void BoundMatchOracle<R, NO>::removeFromLayer(const DgmPoint& p, const int layerIdx)
+ {
+ //bool isDebug {false};
+ layerGraph[layerIdx].erase(p);
+ if (layerOracles[layerIdx]) {
+ layerOracles[layerIdx]->deletePoint(p);
+ }
+ }
+
+ // return true, if there exists an augmenting path from startVertex
+ // in this case the path is returned in result.
+ // startVertex must be an exposed vertex from L_1 (layer[0])
+ template<class R, class NO>
+ bool BoundMatchOracle<R, NO>::buildAugmentingPath(const DgmPoint startVertex, Path& result)
+ {
+ //bool isDebug {false};
+ DgmPoint prevVertexA = startVertex;
+ result.clear();
+ result.push_back(startVertex);
+ size_t evenLayerIdx { 1 };
+ while (evenLayerIdx < layerGraph.size()) {
+ //for(size_t evenLayerIdx = 1; evenLayerIdx < layerGraph.size(); evenLayerIdx += 2) {
+ DgmPoint nextVertexB; // next vertex from even layer
+ bool neighbFound = layerOracles[evenLayerIdx]->getNeighbour(prevVertexA, nextVertexB);
+ if (neighbFound) {
+ result.push_back(nextVertexB);
+ if (layerGraph.size() == evenLayerIdx + 1) {
+ break;
+ } else {
+ // nextVertexB must be matched with some vertex from the next odd
+ // layer
+ DgmPoint nextVertexA;
+ if (!M.getMatchedVertex(nextVertexB, nextVertexA)) {
#ifndef FOR_R_TDA
- std::cerr << "Vertices in even layers must be matched! Unmatched: ";
- std::cerr << nextVertexB << std::endl;
- std::cerr << evenLayerIdx << "; " << layerGraph.size() << std::endl;
+ std::cerr << "Vertices in even layers must be matched! Unmatched: ";
+ std::cerr << nextVertexB << std::endl;
+ std::cerr << evenLayerIdx << "; " << layerGraph.size() << std::endl;
#endif
- throw std::runtime_error("Unmatched vertex in even layer");
+ throw std::runtime_error("Unmatched vertex in even layer");
+ } else {
+ assert(!(nextVertexA.getRealX() == 0 and nextVertexA.getRealY() == 0));
+ result.push_back(nextVertexA);
+ prevVertexA = nextVertexA;
+ evenLayerIdx += 2;
+ continue;
+ }
+ }
} else {
- assert( ! (nextVertexA.getRealX() == 0 and nextVertexA.getRealY() == 0) );
- result.push_back(nextVertexA);
- prevVertexA = nextVertexA;
- evenLayerIdx += 2;
- continue;
+ // prevVertexA has no neighbours in the next layer,
+ // backtrack
+ if (evenLayerIdx == 1) {
+ // startVertex is not connected to any vertices
+ // in the next layer, augm. path doesn't exist
+ removeFromLayer(startVertex, 0);
+ return false;
+ } else {
+ assert(evenLayerIdx >= 3);
+ assert(result.size() % 2 == 1);
+ result.pop_back();
+ DgmPoint prevVertexB = result.back();
+ result.pop_back();
+ removeFromLayer(prevVertexA, evenLayerIdx - 1);
+ removeFromLayer(prevVertexB, evenLayerIdx - 2);
+ // we should proceed from the previous odd layer
+ assert(result.size() >= 1);
+ prevVertexA = result.back();
+ evenLayerIdx -= 2;
+ continue;
+ }
}
+ } // finished iterating over all layers
+ // remove all vertices in the augmenting paths
+ // the corresponding layers
+ for (size_t layerIdx = 0; layerIdx < result.size(); ++layerIdx) {
+ removeFromLayer(result[layerIdx], layerIdx);
}
- } else {
- // prevVertexA has no neighbours in the next layer,
- // backtrack
- if (evenLayerIdx == 1) {
- // startVertex is not connected to any vertices
- // in the next layer, augm. path doesn't exist
- removeFromLayer(startVertex, 0);
- return false;
- } else {
- assert(evenLayerIdx >= 3);
- assert(result.size() % 2 == 1);
- result.pop_back();
- DgmPoint prevVertexB = result.back();
- result.pop_back();
- removeFromLayer(prevVertexA, evenLayerIdx-1);
- removeFromLayer(prevVertexB, evenLayerIdx-2);
- // we should proceed from the previous odd layer
- assert(result.size() >= 1);
- prevVertexA = result.back();
- evenLayerIdx -= 2;
- continue;
- }
+ return true;
}
- } // finished iterating over all layers
- // remove all vertices in the augmenting paths
- // the corresponding layers
- for(size_t layerIdx = 0; layerIdx < result.size(); ++layerIdx) {
- removeFromLayer(result[layerIdx], layerIdx);
- }
- return true;
-}
-
-
-
-
-template<class R, class NO>
-bool BoundMatchOracle<R, NO>::buildMatchingForThreshold(const Real r)
-{
- //bool isDebug {false};
- if (prevQueryValue > r) {
- M.trimMatching(r);
- }
- prevQueryValue = r;
- while(true) {
- buildLayerGraph(r);
- if (augPathExist) {
- std::vector<Path> augmentingPaths;
- DgmPointSet copyLG0;
- for(DgmPoint p : layerGraph[0]) {
- copyLG0.insert(p);
- }
- for(DgmPoint exposedVertex : copyLG0) {
- Path augPath;
- if (buildAugmentingPath(exposedVertex, augPath)) {
- augmentingPaths.push_back(augPath);
- }
+
+
+ template<class R, class NO>
+ bool BoundMatchOracle<R, NO>::buildMatchingForThreshold(const Real r)
+ {
+ //bool isDebug {false};
+ if (prevQueryValue > r) {
+ M.trimMatching(r);
}
- if (augmentingPaths.empty()) {
+ prevQueryValue = r;
+ while (true) {
+ buildLayerGraph(r);
+ if (augPathExist) {
+ std::vector<Path> augmentingPaths;
+ DgmPointSet copyLG0;
+ for (DgmPoint p : layerGraph[0]) {
+ copyLG0.insert(p);
+ }
+ for (DgmPoint exposedVertex : copyLG0) {
+ Path augPath;
+ if (buildAugmentingPath(exposedVertex, augPath)) {
+ augmentingPaths.push_back(augPath);
+ }
+ }
+ if (augmentingPaths.empty()) {
#ifndef FOR_R_TDA
- std::cerr << "augmenting paths must exist, but were not found!" << std::endl;
+ std::cerr << "augmenting paths must exist, but were not found!" << std::endl;
#endif
- throw std::runtime_error("bad epsilon?");
- }
- // swap all augmenting paths with matching to increase it
- for(auto& augPath : augmentingPaths ) {
- M.increase(augPath);
+ throw std::runtime_error("bad epsilon?");
+ }
+ // swap all augmenting paths with matching to increase it
+ for (auto& augPath : augmentingPaths) {
+ M.increase(augPath);
+ }
+ } else {
+ return M.isPerfect();
+ }
}
- } else {
- return M.isPerfect();
}
- }
-}
-template<class R, class NO>
-void BoundMatchOracle<R, NO>::printLayerGraph(void)
-{
+ template<class R, class NO>
+ void BoundMatchOracle<R, NO>::printLayerGraph(void)
+ {
#ifdef DEBUG_BOUND_MATCH
- for(auto& layer : layerGraph) {
- std::cout << "{ ";
- for(auto& p : layer) {
- std::cout << p << "; ";
- }
- std::cout << "\b\b }" << std::endl;
- }
+ for(auto& layer : layerGraph) {
+ std::cout << "{ ";
+ for(auto& p : layer) {
+ std::cout << p << "; ";
+ }
+ std::cout << "\b\b }" << std::endl;
+ }
#endif
-}
+ }
-template<class R, class NO>
-void BoundMatchOracle<R, NO>::buildLayerGraph(Real r)
-{
+ template<class R, class NO>
+ void BoundMatchOracle<R, NO>::buildLayerGraph(Real r)
+ {
#ifdef VERBOSE_BOTTLENECK
- std::cout << "Entered buildLayerGraph, r = " << r << std::endl;
+ std::cout << "Entered buildLayerGraph, r = " << r << std::endl;
#endif
- layerGraph.clear();
- DgmPointSet L1 = M.getExposedVertices();
- layerGraph.push_back(L1);
- neighbOracle->rebuild(B, r);
- size_t k = 0;
- DgmPointSet layerNextEven;
- DgmPointSet layerNextOdd;
- bool exposedVerticesFound {false};
- while(true) {
- layerNextEven.clear();
- for( auto p : layerGraph[k]) {
- bool neighbFound;
- DgmPoint neighbour {0.0, 0.0, DgmPoint::DIAG, 1};
- if (useRangeSearch) {
- std::vector<DgmPoint> neighbVec;
- neighbOracle->getAllNeighbours(p, neighbVec);
- neighbFound = !neighbVec.empty();
- for(auto& neighbPt : neighbVec) {
- layerNextEven.insert(neighbPt);
- if (!exposedVerticesFound and M.isExposed(neighbPt))
- exposedVerticesFound = true;
- }
- } else {
- while(true) {
- neighbFound = neighbOracle->getNeighbour(p, neighbour);
- if (neighbFound) {
- layerNextEven.insert(neighbour);
- neighbOracle->deletePoint(neighbour);
- if ((!exposedVerticesFound) && M.isExposed(neighbour)) {
- exposedVerticesFound = true;
+ layerGraph.clear();
+ DgmPointSet L1 = M.getExposedVertices();
+ layerGraph.push_back(L1);
+ neighbOracle->rebuild(B, r);
+ size_t k = 0;
+ DgmPointSet layerNextEven;
+ DgmPointSet layerNextOdd;
+ bool exposedVerticesFound { false };
+ while (true) {
+ layerNextEven.clear();
+ for (auto p : layerGraph[k]) {
+ bool neighbFound;
+ //DgmPoint neighbour {0.0, 0.0, DgmPoint::DIAG, 1};
+ DgmPoint neighbour;
+ if (useRangeSearch) {
+ std::vector<DgmPoint> neighbVec;
+ neighbOracle->getAllNeighbours(p, neighbVec);
+ neighbFound = !neighbVec.empty();
+ for (auto& neighbPt : neighbVec) {
+ layerNextEven.insert(neighbPt);
+ if (!exposedVerticesFound and M.isExposed(neighbPt)) {
+ exposedVerticesFound = true;
+ }
}
} else {
- break;
+ while (true) {
+ neighbFound = neighbOracle->getNeighbour(p, neighbour);
+ if (neighbFound) {
+ layerNextEven.insert(neighbour);
+ neighbOracle->deletePoint(neighbour);
+ if ((!exposedVerticesFound) && M.isExposed(neighbour)) {
+ exposedVerticesFound = true;
+ }
+ } else {
+ break;
+ }
+ }
+ } // without range search
+ } // all vertices from previous odd layer processed
+ if (layerNextEven.empty()) {
+ augPathExist = false;
+ break;
+ }
+ if (exposedVerticesFound) {
+ for (auto it = layerNextEven.cbegin(); it != layerNextEven.cend();) {
+ if (!M.isExposed(*it)) {
+ layerNextEven.erase(it++);
+ } else {
+ ++it;
+ }
+
}
+ layerGraph.push_back(layerNextEven);
+ augPathExist = true;
+ break;
}
- } // without range search
- } // all vertices from previous odd layer processed
- if (layerNextEven.empty()) {
- augPathExist = false;
- break;
+ layerGraph.push_back(layerNextEven);
+ M.getAllAdjacentVertices(layerNextEven, layerNextOdd);
+ layerGraph.push_back(layerNextOdd);
+ k += 2;
+ }
+ buildLayerOracles(r);
+ printLayerGraph();
}
- if (exposedVerticesFound) {
- for(auto it = layerNextEven.cbegin(); it != layerNextEven.cend(); ) {
- if ( ! M.isExposed(*it) ) {
- layerNextEven.erase(it++);
+
+ // create geometric oracles for each even layer
+ // odd layers have NULL in layerOracles
+ template<class R, class NO>
+ void BoundMatchOracle<R, NO>::buildLayerOracles(Real r)
+ {
+ //bool isDebug {false};
+ // free previously constructed oracles
+ layerOracles.clear();
+ for (size_t layerIdx = 0; layerIdx < layerGraph.size(); ++layerIdx) {
+ if (layerIdx % 2 == 1) {
+ // even layer, build actual oracle
+ layerOracles.emplace_back(new NeighbOracle(layerGraph[layerIdx], r, distEpsilon));
} else {
- ++it;
+ // odd layer
+ layerOracles.emplace_back(nullptr);
}
-
}
- layerGraph.push_back(layerNextEven);
- augPathExist = true;
- break;
- }
- layerGraph.push_back(layerNextEven);
- M.getAllAdjacentVertices(layerNextEven, layerNextOdd);
- layerGraph.push_back(layerNextOdd);
- k += 2;
- }
- buildLayerOracles(r);
- printLayerGraph();
- }
-
-// create geometric oracles for each even layer
-// odd layers have NULL in layerOracles
-template<class R, class NO>
-void BoundMatchOracle<R, NO>::buildLayerOracles(Real r)
-{
- //bool isDebug {false};
- // free previously constructed oracles
- layerOracles.clear();
- for(size_t layerIdx = 0; layerIdx < layerGraph.size(); ++layerIdx) {
- if (layerIdx % 2 == 1) {
- // even layer, build actual oracle
- layerOracles.emplace_back(new NeighbOracle(layerGraph[layerIdx], r, distEpsilon));
- } else {
- // odd layer
- layerOracles.emplace_back(nullptr);
}
- }
-}
-} // end namespace bt
+ } // end namespace bt
} // end namespace hera
#endif // HERA_BOUND_MATCH_HPP
diff --git a/geom_bottleneck/include/dnn/local/kd-tree.hpp b/geom_bottleneck/include/dnn/local/kd-tree.hpp
index 249fa55..5b84eb0 100644
--- a/geom_bottleneck/include/dnn/local/kd-tree.hpp
+++ b/geom_bottleneck/include/dnn/local/kd-tree.hpp
@@ -106,11 +106,11 @@ hera::bt::dnn::KDTree<T>::OrderTree
size_t next_i = (i + 1) % traits.dimension();
// Replace with a size condition instead?
- if (b < m - 1)
+ if (m - b > 1)
q.push(KDTreeNode(b, m, im, next_i));
else if (b < m)
tree->parents_[im - 1] = im;
- if (e > m + 2)
+ if (e - m > 2)
q.push(KDTreeNode(m+1, e, im, next_i));
else if (e > m + 1)
tree->parents_[im + 1] = im;
@@ -210,7 +210,7 @@ void hera::bt::dnn::KDTree<T>::search(PointHandle q, ResultsFunctor& rf) const
DistanceType diffToWasserPower = (diff > 0 ? 1.0 : -1.0) * fabs(diff);
size_t lm = m + 1 + (e - (m+1))/2 - tree_.begin();
- if ( subtree_n_elems[lm] > 0 ) {
+ if ( e > m + 1 and subtree_n_elems[lm] > 0 ) {
if (e > m + 1 && diffToWasserPower >= -D) {
nodes.push(KDTreeNode(m+1, e, i));
}
diff --git a/geom_bottleneck/include/neighb_oracle.h b/geom_bottleneck/include/neighb_oracle.h
index c3751b3..91ebc0e 100644
--- a/geom_bottleneck/include/neighb_oracle.h
+++ b/geom_bottleneck/include/neighb_oracle.h
@@ -179,7 +179,7 @@ public:
// store normal items in kd-tree
for(const auto& g : allPoints) {
if (true) {
- kdtreeItems[trueIdx] = dnnItemIdx;
+ kdtreeItems.push_back(dnnItemIdx);
// index of items is id of dnn-point
DnnPoint p(trueIdx);
p[0] = g.getRealX();
diff --git a/geom_bottleneck/tests/data/test_001_A b/geom_bottleneck/tests/data/test_001_A
new file mode 100644
index 0000000..8d04f96
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_001_A
@@ -0,0 +1 @@
+1 2
diff --git a/geom_bottleneck/tests/data/test_001_B b/geom_bottleneck/tests/data/test_001_B
new file mode 100644
index 0000000..9290688
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_001_B
@@ -0,0 +1 @@
+4 6
diff --git a/geom_bottleneck/tests/data/test_002_A b/geom_bottleneck/tests/data/test_002_A
new file mode 100644
index 0000000..8d04f96
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_002_A
@@ -0,0 +1 @@
+1 2
diff --git a/geom_bottleneck/tests/data/test_002_B b/geom_bottleneck/tests/data/test_002_B
new file mode 100644
index 0000000..a4cec9b
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_002_B
@@ -0,0 +1 @@
+1.1 2.2
diff --git a/geom_bottleneck/tests/data/test_003_A b/geom_bottleneck/tests/data/test_003_A
new file mode 100644
index 0000000..fdf0acd
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_003_A
@@ -0,0 +1,2 @@
+1 2
+2 inf
diff --git a/geom_bottleneck/tests/data/test_003_B b/geom_bottleneck/tests/data/test_003_B
new file mode 100644
index 0000000..ac429f9
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_003_B
@@ -0,0 +1,2 @@
+1.1 2.2
+4 inf
diff --git a/geom_bottleneck/tests/data/test_004_A b/geom_bottleneck/tests/data/test_004_A
new file mode 100644
index 0000000..fdf0acd
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_004_A
@@ -0,0 +1,2 @@
+1 2
+2 inf
diff --git a/geom_bottleneck/tests/data/test_004_B b/geom_bottleneck/tests/data/test_004_B
new file mode 100644
index 0000000..5769823
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_004_B
@@ -0,0 +1,3 @@
+1.1 2.2
+4 inf
+4 inf
diff --git a/geom_bottleneck/tests/data/test_005_A b/geom_bottleneck/tests/data/test_005_A
new file mode 100644
index 0000000..e28367d
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_005_A
@@ -0,0 +1,6 @@
+1 2
+2 inf
+3 inf
+10 inf
+inf 21
+inf 44
diff --git a/geom_bottleneck/tests/data/test_005_B b/geom_bottleneck/tests/data/test_005_B
new file mode 100644
index 0000000..7f6032b
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_005_B
@@ -0,0 +1,6 @@
+1.1 2.2
+4 inf
+4 inf
+12 inf
+inf 20
+inf 40
diff --git a/geom_bottleneck/tests/data/test_006_A b/geom_bottleneck/tests/data/test_006_A
new file mode 100644
index 0000000..b5184a5
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_006_A
@@ -0,0 +1,7 @@
+1 2
+2 inf
+3 inf
+10 inf
+inf 21
+inf 44
+1 34
diff --git a/geom_bottleneck/tests/data/test_006_B b/geom_bottleneck/tests/data/test_006_B
new file mode 100644
index 0000000..0d07369
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_006_B
@@ -0,0 +1,7 @@
+2 40
+1.1 2.2
+4 inf
+4 inf
+12 inf
+inf 20
+inf 40
diff --git a/geom_bottleneck/tests/data/test_007_A b/geom_bottleneck/tests/data/test_007_A
new file mode 100644
index 0000000..e69de29
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_007_A
diff --git a/geom_bottleneck/tests/data/test_007_B b/geom_bottleneck/tests/data/test_007_B
new file mode 100644
index 0000000..e69de29
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_007_B
diff --git a/geom_bottleneck/tests/data/test_008_A b/geom_bottleneck/tests/data/test_008_A
new file mode 100644
index 0000000..e69de29
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_008_A
diff --git a/geom_bottleneck/tests/data/test_008_B b/geom_bottleneck/tests/data/test_008_B
new file mode 100644
index 0000000..e69de29
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_008_B
diff --git a/geom_bottleneck/tests/data/test_009_A b/geom_bottleneck/tests/data/test_009_A
new file mode 100644
index 0000000..e69de29
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_009_A
diff --git a/geom_bottleneck/tests/data/test_009_B b/geom_bottleneck/tests/data/test_009_B
new file mode 100644
index 0000000..e69de29
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_009_B
diff --git a/geom_bottleneck/tests/data/test_010_A b/geom_bottleneck/tests/data/test_010_A
new file mode 100644
index 0000000..8d126f0
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_010_A
@@ -0,0 +1,100 @@
+7.50638 7.78005
+0.991758 2.12178
+5.18481 6.61702
+6.14703 7.08581
+4.09936 4.83024
+3.79915 4.51283
+3.17645 3.75321
+0.61305 0.998622
+0.445643 1.13781
+6.38205 6.53669
+5.96392 6.44093
+7.21047 7.26005
+0.6703 1.26593
+0.529933 1.7027
+7.92495 8.83023
+2.1382 2.71695
+3.79209 4.5197
+5.23354 5.82214
+-0.395097 2.18831
+3.22028 3.88648
+5.56262 5.79949
+8.39623 9.37185
+2.7452 3.84539
+9.5022 10.2414
+1.01374 1.40504
+3.2029 3.89559
+7.61236 8.28485
+6.4371 6.909
+4.45616 5.35067
+1.57802 1.77895
+6.5991 7.76339
+6.66729 6.71714
+6.11898 6.57121
+2.60663 4.36396
+-0.259613 1.17683
+7.72857 9.48862
+4.68398 5.51521
+4.87447 5.4233
+6.86301 6.88244
+4.17814 4.25886
+8.70558 9.72902
+4.40873 4.57389
+6.1824 7.05049
+7.97557 8.79739
+8.52591 8.6985
+5.15336 5.27796
+9.70144 9.77031
+0.561778 1.39045
+9.32553 10.2456
+7.01495 7.74521
+6.83355 7.28255
+1.96721 3.01504
+5.78411 7.59464
+5.64012 6.10721
+3.7249 5.17086
+4.33297 5.91657
+7.11793 7.2545
+5.109 6.76878
+3.02787 3.04077
+0.999365 2.05566
+8.81392 8.9086
+6.20106 6.78943
+6.7987 7.05794
+0.438805 0.449602
+8.71793 9.79853
+-0.150282 0.51997
+5.72257 5.93156
+5.71098 6.09535
+9.0378 9.45942
+0.534987 0.872885
+7.72276 8.57754
+9.26069 9.40289
+4.148 4.80519
+1.04579 3.18109
+0.259767 0.93215
+0.250608 0.511569
+4.88108 5.62239
+4.6731 5.3348
+7.84979 7.93545
+0.912521 1.48142
+4.82553 5.38108
+6.02179 7.61665
+3.85848 6.39418
+5.10754 6.02118
+1.71956 1.86238
+6.47336 6.74034
+-0.0371018 0.212738
+3.97259 4.15465
+2.17413 3.20188
+4.49098 6.09812
+6.62445 7.84196
+6.57541 7.432
+6.81052 9.6653
+3.67502 4.69734
+3.92378 4.14743
+5.93127 6.46154
+0.63424 0.705454
+7.60129 9.23263
+4.23064 4.74575
+0.397705 1.24458
diff --git a/geom_bottleneck/tests/data/test_010_B b/geom_bottleneck/tests/data/test_010_B
new file mode 100644
index 0000000..852799d
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_010_B
@@ -0,0 +1,100 @@
+5.8232 6.36308
+2.16066 2.48668
+2.38754 4.91418
+4.77403 5.43982
+0.291412 1.11147
+3.77337 5.2686
+8.31344 9.05384
+0.734064 1.14844
+7.57606 7.8521
+3.16719 3.86953
+2.55072 2.64932
+9.51707 9.6071
+0.304643 2.41784
+2.79925 3.28234
+5.32901 7.7576
+5.19903 6.30449
+1.87819 2.99454
+8.92272 9.67105
+4.62414 5.05592
+4.0079 4.64148
+2.26369 3.44573
+2.69335 3.13426
+1.90706 2.42652
+2.68113 2.79133
+1.41065 1.56018
+6.55282 7.18725
+5.72986 6.37151
+7.26968 8.22623
+3.32643 3.73606
+3.77325 4.63115
+1.05457 1.83651
+8.6815 8.85251
+3.91285 4.17139
+0.380936 0.842109
+7.33227 7.69334
+8.45635 8.923
+4.1769 5.08373
+0.501374 2.23328
+-0.161782 1.28908
+3.44716 3.4662
+3.15394 4.30243
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+6.3034 8.62893
+6.53824 7.04611
+0.6386 1.35269
+0.862088 0.960371
+5.12963 5.20203
+1.58695 2.0452
+6.57698 6.63228
+3.87747 4.45669
+1.51273 3.25669
+-0.0992804 0.667302
+4.7489 4.80059
+0.0280559 1.90471
+6.7462 8.27612
+0.915652 1.30007
+2.79556 3.77404
+9.87989 10.0722
+9.39105 9.84229
+7.57235 9.37122
+5.09426 6.44266
+6.3994 6.72037
+5.73441 6.99341
+6.9079 7.88049
+4.2003 4.41933
+-1.72447 2.25877
+9.04907 9.64323
+4.40473 5.3593
+9.31201 9.96079
+7.28343 8.74163
+3.0172 6.23779
+8.08422 8.56069
+6.83038 6.99863
+2.32038 3.1289
+7.42302 8.26286
+6.66905 7.18496
+0.730748 1.61335
+4.00564 5.73993
+2.81231 3.67489
+2.33178 2.37845
+9.03302 9.68681
+0.567816 0.755485
+7.89783 8.7621
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diff --git a/geom_bottleneck/tests/data/test_011_A b/geom_bottleneck/tests/data/test_011_A
new file mode 100644
index 0000000..164b71d
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_011_A
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diff --git a/geom_bottleneck/tests/data/test_011_B b/geom_bottleneck/tests/data/test_011_B
new file mode 100644
index 0000000..761943d
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_011_B
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diff --git a/geom_bottleneck/tests/data/test_012_A b/geom_bottleneck/tests/data/test_012_A
new file mode 100644
index 0000000..094c6e0
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_012_A
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diff --git a/geom_bottleneck/tests/data/test_012_B b/geom_bottleneck/tests/data/test_012_B
new file mode 100644
index 0000000..5f6e43c
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_012_B
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diff --git a/geom_bottleneck/tests/data/test_013_A b/geom_bottleneck/tests/data/test_013_A
new file mode 100644
index 0000000..51cff1c
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_013_A
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_016_B b/geom_bottleneck/tests/data/test_016_B
new file mode 100644
index 0000000..bb8655a
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index 0000000..cd31ead
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diff --git a/geom_bottleneck/tests/data/test_339_A b/geom_bottleneck/tests/data/test_339_A
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index 0000000..9148a9c
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diff --git a/geom_bottleneck/tests/data/test_339_B b/geom_bottleneck/tests/data/test_339_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_340_A b/geom_bottleneck/tests/data/test_340_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_340_B b/geom_bottleneck/tests/data/test_340_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_341_A b/geom_bottleneck/tests/data/test_341_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_341_B b/geom_bottleneck/tests/data/test_341_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_342_A b/geom_bottleneck/tests/data/test_342_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_342_B b/geom_bottleneck/tests/data/test_342_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_343_A b/geom_bottleneck/tests/data/test_343_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_343_B b/geom_bottleneck/tests/data/test_343_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_344_A b/geom_bottleneck/tests/data/test_344_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_344_B b/geom_bottleneck/tests/data/test_344_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_345_A b/geom_bottleneck/tests/data/test_345_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_345_B b/geom_bottleneck/tests/data/test_345_B
new file mode 100644
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_346_B b/geom_bottleneck/tests/data/test_346_B
new file mode 100644
index 0000000..5e30972
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_347_A b/geom_bottleneck/tests/data/test_347_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_347_B b/geom_bottleneck/tests/data/test_347_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_348_A b/geom_bottleneck/tests/data/test_348_A
new file mode 100644
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_349_A b/geom_bottleneck/tests/data/test_349_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_349_B b/geom_bottleneck/tests/data/test_349_B
new file mode 100644
index 0000000..d66b5eb
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diff --git a/geom_bottleneck/tests/data/test_350_A b/geom_bottleneck/tests/data/test_350_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_350_B b/geom_bottleneck/tests/data/test_350_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_351_A b/geom_bottleneck/tests/data/test_351_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_351_B b/geom_bottleneck/tests/data/test_351_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_352_A b/geom_bottleneck/tests/data/test_352_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_352_B b/geom_bottleneck/tests/data/test_352_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_353_A b/geom_bottleneck/tests/data/test_353_A
new file mode 100644
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new file mode 100644
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_355_B b/geom_bottleneck/tests/data/test_355_B
new file mode 100644
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new file mode 100644
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_357_A b/geom_bottleneck/tests/data/test_357_A
new file mode 100644
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_358_A b/geom_bottleneck/tests/data/test_358_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_358_B b/geom_bottleneck/tests/data/test_358_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_359_A b/geom_bottleneck/tests/data/test_359_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_359_B b/geom_bottleneck/tests/data/test_359_B
new file mode 100644
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index 0000000..d271aaa
--- /dev/null
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new file mode 100644
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new file mode 100644
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--- /dev/null
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
index 0000000..fb19e1c
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
index 0000000..574351a
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
index 0000000..d1b55eb
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new file mode 100644
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new file mode 100644
index 0000000..2b99b87
--- /dev/null
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
index 0000000..8fbcf93
--- /dev/null
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new file mode 100644
index 0000000..10fe424
--- /dev/null
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new file mode 100644
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new file mode 100644
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--- /dev/null
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--- /dev/null
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
index 0000000..9106904
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new file mode 100644
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--- /dev/null
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_840_B b/geom_bottleneck/tests/data/test_840_B
new file mode 100644
index 0000000..4bd5737
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_841_A b/geom_bottleneck/tests/data/test_841_A
new file mode 100644
index 0000000..d6b2c08
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_841_B b/geom_bottleneck/tests/data/test_841_B
new file mode 100644
index 0000000..9775dd8
--- /dev/null
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new file mode 100644
index 0000000..49124dc
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_842_B b/geom_bottleneck/tests/data/test_842_B
new file mode 100644
index 0000000..36715f2
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_843_A b/geom_bottleneck/tests/data/test_843_A
new file mode 100644
index 0000000..aa5cea9
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_843_B b/geom_bottleneck/tests/data/test_843_B
new file mode 100644
index 0000000..b14eed6
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_844_A b/geom_bottleneck/tests/data/test_844_A
new file mode 100644
index 0000000..753b2fc
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_844_B b/geom_bottleneck/tests/data/test_844_B
new file mode 100644
index 0000000..373d26c
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_845_A b/geom_bottleneck/tests/data/test_845_A
new file mode 100644
index 0000000..2015fbb
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_845_B b/geom_bottleneck/tests/data/test_845_B
new file mode 100644
index 0000000..b053f52
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_846_A b/geom_bottleneck/tests/data/test_846_A
new file mode 100644
index 0000000..520c6d4
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_846_B b/geom_bottleneck/tests/data/test_846_B
new file mode 100644
index 0000000..3046f20
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_847_A b/geom_bottleneck/tests/data/test_847_A
new file mode 100644
index 0000000..ee5c8c1
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diff --git a/geom_bottleneck/tests/data/test_847_B b/geom_bottleneck/tests/data/test_847_B
new file mode 100644
index 0000000..de6f45a
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diff --git a/geom_bottleneck/tests/data/test_848_A b/geom_bottleneck/tests/data/test_848_A
new file mode 100644
index 0000000..e9e603b
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diff --git a/geom_bottleneck/tests/data/test_848_B b/geom_bottleneck/tests/data/test_848_B
new file mode 100644
index 0000000..00005be
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new file mode 100644
index 0000000..7938a96
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_849_B b/geom_bottleneck/tests/data/test_849_B
new file mode 100644
index 0000000..21da75d
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_850_A b/geom_bottleneck/tests/data/test_850_A
new file mode 100644
index 0000000..dfb2165
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_850_B b/geom_bottleneck/tests/data/test_850_B
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_851_A b/geom_bottleneck/tests/data/test_851_A
new file mode 100644
index 0000000..0a2f88e
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_851_B b/geom_bottleneck/tests/data/test_851_B
new file mode 100644
index 0000000..8e4b97e
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_852_B b/geom_bottleneck/tests/data/test_852_B
new file mode 100644
index 0000000..9de826f
--- /dev/null
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new file mode 100644
index 0000000..bcf5afe
--- /dev/null
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_854_A b/geom_bottleneck/tests/data/test_854_A
new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_854_B b/geom_bottleneck/tests/data/test_854_B
new file mode 100644
index 0000000..aa949eb
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_855_A b/geom_bottleneck/tests/data/test_855_A
new file mode 100644
index 0000000..ab7ec0b
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diff --git a/geom_bottleneck/tests/data/test_855_B b/geom_bottleneck/tests/data/test_855_B
new file mode 100644
index 0000000..be6ff94
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_856_A b/geom_bottleneck/tests/data/test_856_A
new file mode 100644
index 0000000..3cbfae3
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new file mode 100644
index 0000000..ec34ae9
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new file mode 100644
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diff --git a/geom_bottleneck/tests/data/test_857_B b/geom_bottleneck/tests/data/test_857_B
new file mode 100644
index 0000000..2d0ac7d
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new file mode 100644
index 0000000..1d3b9ad
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new file mode 100644
index 0000000..a982114
--- /dev/null
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new file mode 100644
index 0000000..24bd533
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diff --git a/geom_bottleneck/tests/data/test_859_B b/geom_bottleneck/tests/data/test_859_B
new file mode 100644
index 0000000..ac8c3b7
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diff --git a/geom_bottleneck/tests/data/test_860_A b/geom_bottleneck/tests/data/test_860_A
new file mode 100644
index 0000000..bef7e26
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diff --git a/geom_bottleneck/tests/data/test_860_B b/geom_bottleneck/tests/data/test_860_B
new file mode 100644
index 0000000..36f7915
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_860_B
@@ -0,0 +1,100 @@
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diff --git a/geom_bottleneck/tests/data/test_861_A b/geom_bottleneck/tests/data/test_861_A
new file mode 100644
index 0000000..1058733
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_861_B b/geom_bottleneck/tests/data/test_861_B
new file mode 100644
index 0000000..a6a11d7
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_862_A b/geom_bottleneck/tests/data/test_862_A
new file mode 100644
index 0000000..d37d3ef
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_862_B b/geom_bottleneck/tests/data/test_862_B
new file mode 100644
index 0000000..a18168e
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_863_A b/geom_bottleneck/tests/data/test_863_A
new file mode 100644
index 0000000..011d452
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_863_B b/geom_bottleneck/tests/data/test_863_B
new file mode 100644
index 0000000..d9daaae
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_864_A b/geom_bottleneck/tests/data/test_864_A
new file mode 100644
index 0000000..f82ed50
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_864_B b/geom_bottleneck/tests/data/test_864_B
new file mode 100644
index 0000000..0b56a95
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_865_A b/geom_bottleneck/tests/data/test_865_A
new file mode 100644
index 0000000..7453ead
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_865_B b/geom_bottleneck/tests/data/test_865_B
new file mode 100644
index 0000000..265e3bd
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diff --git a/geom_bottleneck/tests/data/test_866_A b/geom_bottleneck/tests/data/test_866_A
new file mode 100644
index 0000000..a05ad71
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diff --git a/geom_bottleneck/tests/data/test_866_B b/geom_bottleneck/tests/data/test_866_B
new file mode 100644
index 0000000..c3e0b3a
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_867_A b/geom_bottleneck/tests/data/test_867_A
new file mode 100644
index 0000000..0e5ca13
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_867_B b/geom_bottleneck/tests/data/test_867_B
new file mode 100644
index 0000000..c8eb5e0
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_868_A b/geom_bottleneck/tests/data/test_868_A
new file mode 100644
index 0000000..0a0fad2
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_868_B b/geom_bottleneck/tests/data/test_868_B
new file mode 100644
index 0000000..00c87b2
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_869_A b/geom_bottleneck/tests/data/test_869_A
new file mode 100644
index 0000000..fa16527
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_869_B b/geom_bottleneck/tests/data/test_869_B
new file mode 100644
index 0000000..7ffd8c9
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_870_A b/geom_bottleneck/tests/data/test_870_A
new file mode 100644
index 0000000..72422f7
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_870_B b/geom_bottleneck/tests/data/test_870_B
new file mode 100644
index 0000000..db4847d
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_871_A b/geom_bottleneck/tests/data/test_871_A
new file mode 100644
index 0000000..08ce8b2
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_871_B b/geom_bottleneck/tests/data/test_871_B
new file mode 100644
index 0000000..23c1dd8
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_872_A b/geom_bottleneck/tests/data/test_872_A
new file mode 100644
index 0000000..9647bed
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_872_B b/geom_bottleneck/tests/data/test_872_B
new file mode 100644
index 0000000..1c58840
--- /dev/null
+++ b/geom_bottleneck/tests/data/test_872_B
@@ -0,0 +1,100 @@
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diff --git a/geom_bottleneck/tests/data/test_873_A b/geom_bottleneck/tests/data/test_873_A
new file mode 100644
index 0000000..d9e1da9
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_873_B b/geom_bottleneck/tests/data/test_873_B
new file mode 100644
index 0000000..a9f3ea1
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_874_A b/geom_bottleneck/tests/data/test_874_A
new file mode 100644
index 0000000..4d66819
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_874_B b/geom_bottleneck/tests/data/test_874_B
new file mode 100644
index 0000000..2142cbc
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_875_A b/geom_bottleneck/tests/data/test_875_A
new file mode 100644
index 0000000..1748357
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_875_B b/geom_bottleneck/tests/data/test_875_B
new file mode 100644
index 0000000..3a5860e
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_876_A b/geom_bottleneck/tests/data/test_876_A
new file mode 100644
index 0000000..1b65f8d
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_876_B b/geom_bottleneck/tests/data/test_876_B
new file mode 100644
index 0000000..62102e9
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_877_A b/geom_bottleneck/tests/data/test_877_A
new file mode 100644
index 0000000..c60479b
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_877_B b/geom_bottleneck/tests/data/test_877_B
new file mode 100644
index 0000000..728311d
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/test_878_A b/geom_bottleneck/tests/data/test_878_A
new file mode 100644
index 0000000..c8d0724
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/ws_tests/test_100_B.pd.dipha b/geom_bottleneck/tests/data/ws_tests/test_100_B.pd.dipha
new file mode 100644
index 0000000..25d6734
--- /dev/null
+++ b/geom_bottleneck/tests/data/ws_tests/test_100_B.pd.dipha
Binary files differ
diff --git a/geom_bottleneck/tests/data/ws_tests/test_200_A b/geom_bottleneck/tests/data/ws_tests/test_200_A
new file mode 100644
index 0000000..164b71d
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/ws_tests/test_200_B b/geom_bottleneck/tests/data/ws_tests/test_200_B
new file mode 100644
index 0000000..761943d
--- /dev/null
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diff --git a/geom_bottleneck/tests/data/ws_tests/test_5000_A b/geom_bottleneck/tests/data/ws_tests/test_5000_A
new file mode 100644
index 0000000..094c6e0
--- /dev/null
+++ b/geom_bottleneck/tests/data/ws_tests/test_5000_A
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diff --git a/geom_bottleneck/tests/data/ws_tests/test_5000_B b/geom_bottleneck/tests/data/ws_tests/test_5000_B
new file mode 100644
index 0000000..5f6e43c
--- /dev/null
+++ b/geom_bottleneck/tests/data/ws_tests/test_5000_B
@@ -0,0 +1,5000 @@
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diff --git a/geom_bottleneck/tests/data/ws_tests/test_diag3_A.pd.dipha b/geom_bottleneck/tests/data/ws_tests/test_diag3_A.pd.dipha
new file mode 100644
index 0000000..0dbfb89
--- /dev/null
+++ b/geom_bottleneck/tests/data/ws_tests/test_diag3_A.pd.dipha
Binary files differ
diff --git a/geom_bottleneck/tests/data/ws_tests/test_diag3_B b/geom_bottleneck/tests/data/ws_tests/test_diag3_B
new file mode 100644
index 0000000..bb8655a
--- /dev/null
+++ b/geom_bottleneck/tests/data/ws_tests/test_diag3_B
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diff --git a/geom_bottleneck/tests/data/ws_tests/test_diag3_B.pd.dipha b/geom_bottleneck/tests/data/ws_tests/test_diag3_B.pd.dipha
new file mode 100644
index 0000000..3fbfd90
--- /dev/null
+++ b/geom_bottleneck/tests/data/ws_tests/test_diag3_B.pd.dipha
Binary files differ
diff --git a/geom_bottleneck/tests/data/ws_tests/test_list.txt b/geom_bottleneck/tests/data/ws_tests/test_list.txt
new file mode 100644
index 0000000..27340d8
--- /dev/null
+++ b/geom_bottleneck/tests/data/ws_tests/test_list.txt
@@ -0,0 +1,21 @@
+test_5_A test_5_B 1.0 -1.0 4.320655
+test_5_A test_5_B 2.0 -1.0 1.7323016335246
+test_5_A test_5_B 3.0 -1.0 1.396199948
+test_5_A test_5_B 1.0 1.0 6.603006
+test_5_A test_5_B 2.0 1.0 2.73426775794691
+test_5_A test_5_B 3.0 1.0 2.13072755216204
+test_5_A test_5_B 1.0 2.0 5.1888795679967
+test_5_A test_5_B 2.0 2.0 2.26649677575857
+test_5_A test_5_B 3.0 2.0 1.86434961396614
+test_100_A test_100_B 1.0 -1.0 27.5573259
+test_100_A test_100_B 2.0 -1.0 3.38004972483238
+test_100_A test_100_B 3.0 -1.0 1.9045814702967
+test_100_A test_100_B 1.0 1.0 40.4375855
+test_100_A test_100_B 2.0 1.0 4.75252460986668
+test_100_A test_100_B 3.0 1.0 2.556594741819
+test_100_A test_100_B 1.0 2.0 31.7187555735287
+test_100_A test_100_B 2.0 2.0 3.81132239777023
+test_100_A test_100_B 3.0 2.0 2.09695346034248
+test_diag1_A test_diag1_B 1.0 -1.0 0.0
+test_diag2_A test_diag2_B 1.0 -1.0 0.0
+test_diag3_A test_diag3_B 1.0 -1.0 0.0
diff --git a/geom_bottleneck/tests/test_hera_bottleneck.cpp b/geom_bottleneck/tests/test_hera_bottleneck.cpp
index f3b160b..922a4b0 100644
--- a/geom_bottleneck/tests/test_hera_bottleneck.cpp
+++ b/geom_bottleneck/tests/test_hera_bottleneck.cpp
@@ -24,37 +24,43 @@ struct TestFromFileCase {
std::string file_1;
std::string file_2;
- double q;
- double internal_p;
+ double delta;
double answer;
+ std::vector<std::pair<int, int>> longest_edges;
+ double internal_p { hera::get_infinity<double>() };
- TestFromFileCase(std::string s)
+ TestFromFileCase(const std::string& s)
{
auto tokens = split_on_delim(s, ' ');
- assert(tokens.size() == 5);
-
- file_1 = tokens.at(0);
- file_2 = tokens.at(1);
- q = std::stod(tokens.at(2));
- internal_p = std::stod(tokens.at(3));
- answer = std::stod(tokens.at(4));
-
- if ( q < 1.0 or std::isinf(q) or
- (internal_p != hera::get_infinity<double>() and internal_p < 1.0)) {
- throw std::runtime_error("Bad line in test_list.txt");
+// assert(tokens.size() > 5);
+ assert(tokens.size() % 2 == 0);
+
+ size_t token_idx = 0;
+ file_1 = tokens.at(token_idx++);
+ file_2 = tokens.at(token_idx++);
+ delta = std::stod(tokens.at(token_idx++));
+ answer = std::stod(tokens.at(token_idx++));
+ while(token_idx < tokens.size() - 1) {
+ int v1 = std::stoi(tokens[token_idx++]);
+ int v2 = std::stoi(tokens[token_idx++]);
+ longest_edges.emplace_back(v1, v2);
}
}
};
std::ostream& operator<<(std::ostream& out, const TestFromFileCase& s)
{
- out << "[" << s.file_1 << ", " << s.file_2 << ", q = " << s.q << ", norm = ";
+ out << "[" << s.file_1 << ", " << s.file_2 << ", norm = ";
if (s.internal_p != hera::get_infinity()) {
out << s.internal_p;
} else {
out << "infinity";
}
- out << ", answer = " << s.answer << "]";
+ out << ", answer = " << s.answer << ", edges { ";
+ for(auto e : s.longest_edges) {
+ out << e.first << " <-> " << e.second << ", ";
+ }
+ out << "} ]";
return out;
}
@@ -444,3 +450,134 @@ TEST_CASE("infinity points", "bottleneckDistApprox")
}
+TEST_CASE("longest edge", "bottleneckDistApprox")
+{
+ PairVector diagram_A, diagram_B;
+ hera::bt::MatchingEdge<double> longest_edge_1;
+ hera::bt::MatchingEdge<double> longest_edge_2;
+ double delta = 0.01;
+
+ SECTION("trivial: two empty diagrams") {
+ // should not fail
+ REQUIRE( 0.0 == hera::bottleneckDistApprox<>(diagram_A, diagram_B, delta, longest_edge_1, true));
+ }
+
+ SECTION("trivial: one empty diagram, one single-point diagram") {
+
+ diagram_A.emplace_back(1.0, 2.0);
+
+ double d1 = hera::bottleneckDistApprox<>(diagram_A, diagram_B, delta, longest_edge_1, true);
+ REQUIRE(longest_edge_1.first.getRealX() == 1.0);
+ REQUIRE(longest_edge_1.first.getRealY() == 2.0);
+
+ double d2 = hera::bottleneckDistApprox<>(diagram_B, diagram_A, delta, longest_edge_2, true);
+ REQUIRE(longest_edge_2.second.getRealX() == 1.0);
+ REQUIRE(longest_edge_2.second.getRealY() == 2.0);
+ }
+
+ SECTION("trivial: two single-point diagrams-1") {
+
+ diagram_A.emplace_back(10.0, 20.0);
+ diagram_B.emplace_back(11.0, 19.0);
+
+ double d1 = hera::bottleneckDistApprox<>(diagram_A, diagram_B, delta, longest_edge_1, true);
+
+ REQUIRE(longest_edge_1.first.getRealX() == 10.0);
+ REQUIRE(longest_edge_1.first.getRealY() == 20.0);
+
+ REQUIRE(longest_edge_1.second.getRealX() == 11.0);
+ REQUIRE(longest_edge_1.second.getRealY() == 19.0);
+
+// double d2 = hera::bottleneckDistApprox<>(diagram_B, diagram_A, delta, longest_edge_2, true);
+// REQUIRE(longest_edge_2.second.getRealX() == 1.0);
+// REQUIRE(longest_edge_2.second.getRealY() == 2.0);
+// double d1 = hera::bottleneckDistApprox<>(diagram_A, diagram_B, delta);
+// double d2 = hera::bottleneckDistApprox<>(diagram_B, diagram_A, delta);
+// double correct_answer = 3.0;
+// REQUIRE( fabs(d1 - correct_answer) <= delta * correct_answer);
+// REQUIRE( fabs(d2 - correct_answer) <= delta * correct_answer);
+ }
+//
+// SECTION("trivial: two single-point diagrams-2") {
+//
+// diagram_A.emplace_back(10.0, 20.0); // (5, 5)
+// diagram_B.emplace_back(130.0, 138.0); // (4, 4)
+//
+// double d1 = hera::bottleneckDistApprox<>(diagram_A, diagram_B, delta);
+// double d2 = hera::bottleneckDistApprox<>(diagram_B, diagram_A, delta);
+// double correct_answer = 5.0;
+// REQUIRE( fabs(d1 - correct_answer) <= delta * correct_answer );
+// REQUIRE( fabs(d2 - correct_answer) <= delta * correct_answer );
+//
+// }
+
+}
+
+TEST_CASE("file cases", "bottleneck_dist")
+{
+ PairVector diagram_A, diagram_B;
+ hera::bt::MatchingEdge<double> longest_edge;
+
+ const char* file_name = "../tests/data/test_list.txt";
+ std::string dir_prefix = "../tests/data/";
+ std::ifstream f;
+ f.open(file_name);
+ std::vector<TestFromFileCase> test_params;
+ std::string s;
+ while (std::getline(f, s)) {
+ test_params.emplace_back(s);
+ //std::cout << "read test params " << test_params.back() << std::endl;
+ }
+
+ SECTION("from file:") {
+
+ for (const auto& ts : test_params) {
+ bool read_file_A = hera::readDiagramPointSet(dir_prefix + ts.file_1, diagram_A);
+ bool read_file_B = hera::readDiagramPointSet(dir_prefix + ts.file_2, diagram_B);
+ REQUIRE(read_file_A);
+ REQUIRE(read_file_B);
+
+ double hera_answer = hera::bottleneckDistApprox(diagram_A, diagram_B, ts.delta, longest_edge, true);
+ std::pair<int, int> hera_le { longest_edge.first.get_user_id(), longest_edge.second.get_user_id() };
+
+ REQUIRE((hera_answer == ts.answer or fabs(hera_answer - ts.answer) <= ts.delta * hera_answer));
+ REQUIRE((ts.longest_edges.empty() or
+ std::find(ts.longest_edges.begin(), ts.longest_edges.end(), hera_le) != ts.longest_edges.end()));
+
+ double hera_answer_exact = hera::bottleneckDistExact(diagram_A, diagram_B, 14, longest_edge, true);
+ std::pair<int, int> hera_le_exact { longest_edge.first.get_user_id(), longest_edge.second.get_user_id() };
+
+ REQUIRE((hera_answer_exact == ts.answer or
+ fabs(hera_answer_exact - ts.answer) <= 0.0001 * ts.answer));
+
+ REQUIRE((ts.longest_edges.empty() or
+ std::find(ts.longest_edges.begin(), ts.longest_edges.end(), hera_le_exact) !=
+ ts.longest_edges.end()));
+
+ // check that longest_edge length matches the bottleneck distance
+
+ double hera_le_cost;
+ bool check_longest_edge_cost = true;
+ if (longest_edge.first.get_user_id() >= 0 and longest_edge.second.get_user_id() < 0) {
+ // longest edge: off-diagonal point of A connected to its diagonal projection
+ hera_le_cost = longest_edge.first.get_persistence(ts.internal_p);
+ } else if (longest_edge.first.get_user_id() < 0 and longest_edge.second.get_user_id() >= 0) {
+ // longest edge: off-diagonal point of B connected to its diagonal projection
+ hera_le_cost = longest_edge.second.get_persistence(ts.internal_p);
+ } else if (longest_edge.first.get_user_id() >= 0 and longest_edge.second.get_user_id() >= 0) {
+ // longest edge connects two off-diagonal points of A and B
+ hera_le_cost = hera::bt::dist_l_inf_slow(longest_edge.first, longest_edge.second);
+ } else {
+ check_longest_edge_cost = false;
+ }
+// if (check_longest_edge_cost and hera_le_cost != hera_answer_exact) {
+// std::cout << "PROBLEM HERE: " << ts << ", longest edge " << longest_edge.first << " - "
+// << longest_edge.second << ", hera_le_cost " << hera_le_cost << ", answwer "
+// << hera_answer_exact << std::endl;
+// }
+ REQUIRE( (not check_longest_edge_cost or fabs(hera_le_cost - hera_answer_exact) < 0.0001 * hera_answer_exact) );
+ std::cout << ts << " PASSED " << std::endl;
+ }
+ }
+
+}