faiss 0.2.0 → 0.2.4
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- checksums.yaml +4 -4
- data/CHANGELOG.md +16 -0
- data/LICENSE.txt +1 -1
- data/README.md +7 -7
- data/ext/faiss/extconf.rb +6 -3
- data/ext/faiss/numo.hpp +4 -4
- data/ext/faiss/utils.cpp +1 -1
- data/ext/faiss/utils.h +1 -1
- data/lib/faiss/version.rb +1 -1
- data/vendor/faiss/faiss/AutoTune.cpp +292 -291
- data/vendor/faiss/faiss/AutoTune.h +55 -56
- data/vendor/faiss/faiss/Clustering.cpp +365 -194
- data/vendor/faiss/faiss/Clustering.h +102 -35
- data/vendor/faiss/faiss/IVFlib.cpp +171 -195
- data/vendor/faiss/faiss/IVFlib.h +48 -51
- data/vendor/faiss/faiss/Index.cpp +85 -103
- data/vendor/faiss/faiss/Index.h +54 -48
- data/vendor/faiss/faiss/Index2Layer.cpp +126 -224
- data/vendor/faiss/faiss/Index2Layer.h +22 -36
- data/vendor/faiss/faiss/IndexAdditiveQuantizer.cpp +407 -0
- data/vendor/faiss/faiss/IndexAdditiveQuantizer.h +195 -0
- data/vendor/faiss/faiss/IndexBinary.cpp +45 -37
- data/vendor/faiss/faiss/IndexBinary.h +140 -132
- data/vendor/faiss/faiss/IndexBinaryFlat.cpp +73 -53
- data/vendor/faiss/faiss/IndexBinaryFlat.h +29 -24
- data/vendor/faiss/faiss/IndexBinaryFromFloat.cpp +46 -43
- data/vendor/faiss/faiss/IndexBinaryFromFloat.h +16 -15
- data/vendor/faiss/faiss/IndexBinaryHNSW.cpp +215 -232
- data/vendor/faiss/faiss/IndexBinaryHNSW.h +25 -24
- data/vendor/faiss/faiss/IndexBinaryHash.cpp +182 -177
- data/vendor/faiss/faiss/IndexBinaryHash.h +41 -34
- data/vendor/faiss/faiss/IndexBinaryIVF.cpp +489 -461
- data/vendor/faiss/faiss/IndexBinaryIVF.h +97 -68
- data/vendor/faiss/faiss/IndexFlat.cpp +115 -176
- data/vendor/faiss/faiss/IndexFlat.h +42 -59
- data/vendor/faiss/faiss/IndexFlatCodes.cpp +67 -0
- data/vendor/faiss/faiss/IndexFlatCodes.h +47 -0
- data/vendor/faiss/faiss/IndexHNSW.cpp +372 -348
- data/vendor/faiss/faiss/IndexHNSW.h +57 -41
- data/vendor/faiss/faiss/IndexIVF.cpp +545 -453
- data/vendor/faiss/faiss/IndexIVF.h +169 -118
- data/vendor/faiss/faiss/IndexIVFAdditiveQuantizer.cpp +316 -0
- data/vendor/faiss/faiss/IndexIVFAdditiveQuantizer.h +121 -0
- data/vendor/faiss/faiss/IndexIVFFlat.cpp +247 -252
- data/vendor/faiss/faiss/IndexIVFFlat.h +48 -51
- data/vendor/faiss/faiss/IndexIVFPQ.cpp +459 -517
- data/vendor/faiss/faiss/IndexIVFPQ.h +75 -67
- data/vendor/faiss/faiss/IndexIVFPQFastScan.cpp +406 -372
- data/vendor/faiss/faiss/IndexIVFPQFastScan.h +82 -57
- data/vendor/faiss/faiss/IndexIVFPQR.cpp +104 -102
- data/vendor/faiss/faiss/IndexIVFPQR.h +33 -28
- data/vendor/faiss/faiss/IndexIVFSpectralHash.cpp +163 -150
- data/vendor/faiss/faiss/IndexIVFSpectralHash.h +38 -25
- data/vendor/faiss/faiss/IndexLSH.cpp +66 -113
- data/vendor/faiss/faiss/IndexLSH.h +20 -38
- data/vendor/faiss/faiss/IndexLattice.cpp +42 -56
- data/vendor/faiss/faiss/IndexLattice.h +11 -16
- data/vendor/faiss/faiss/IndexNNDescent.cpp +229 -0
- data/vendor/faiss/faiss/IndexNNDescent.h +72 -0
- data/vendor/faiss/faiss/IndexNSG.cpp +301 -0
- data/vendor/faiss/faiss/IndexNSG.h +85 -0
- data/vendor/faiss/faiss/IndexPQ.cpp +387 -495
- data/vendor/faiss/faiss/IndexPQ.h +64 -82
- data/vendor/faiss/faiss/IndexPQFastScan.cpp +143 -170
- data/vendor/faiss/faiss/IndexPQFastScan.h +46 -32
- data/vendor/faiss/faiss/IndexPreTransform.cpp +120 -150
- data/vendor/faiss/faiss/IndexPreTransform.h +33 -36
- data/vendor/faiss/faiss/IndexRefine.cpp +139 -127
- data/vendor/faiss/faiss/IndexRefine.h +32 -23
- data/vendor/faiss/faiss/IndexReplicas.cpp +147 -153
- data/vendor/faiss/faiss/IndexReplicas.h +62 -56
- data/vendor/faiss/faiss/IndexScalarQuantizer.cpp +111 -172
- data/vendor/faiss/faiss/IndexScalarQuantizer.h +41 -59
- data/vendor/faiss/faiss/IndexShards.cpp +256 -240
- data/vendor/faiss/faiss/IndexShards.h +85 -73
- data/vendor/faiss/faiss/MatrixStats.cpp +112 -97
- data/vendor/faiss/faiss/MatrixStats.h +7 -10
- data/vendor/faiss/faiss/MetaIndexes.cpp +135 -157
- data/vendor/faiss/faiss/MetaIndexes.h +40 -34
- data/vendor/faiss/faiss/MetricType.h +7 -7
- data/vendor/faiss/faiss/VectorTransform.cpp +654 -475
- data/vendor/faiss/faiss/VectorTransform.h +64 -89
- data/vendor/faiss/faiss/clone_index.cpp +78 -73
- data/vendor/faiss/faiss/clone_index.h +4 -9
- data/vendor/faiss/faiss/gpu/GpuAutoTune.cpp +33 -38
- data/vendor/faiss/faiss/gpu/GpuAutoTune.h +11 -9
- data/vendor/faiss/faiss/gpu/GpuCloner.cpp +198 -171
- data/vendor/faiss/faiss/gpu/GpuCloner.h +53 -35
- data/vendor/faiss/faiss/gpu/GpuClonerOptions.cpp +12 -14
- data/vendor/faiss/faiss/gpu/GpuClonerOptions.h +27 -25
- data/vendor/faiss/faiss/gpu/GpuDistance.h +116 -112
- data/vendor/faiss/faiss/gpu/GpuFaissAssert.h +1 -2
- data/vendor/faiss/faiss/gpu/GpuIcmEncoder.h +60 -0
- data/vendor/faiss/faiss/gpu/GpuIndex.h +134 -137
- data/vendor/faiss/faiss/gpu/GpuIndexBinaryFlat.h +76 -73
- data/vendor/faiss/faiss/gpu/GpuIndexFlat.h +173 -162
- data/vendor/faiss/faiss/gpu/GpuIndexIVF.h +67 -64
- data/vendor/faiss/faiss/gpu/GpuIndexIVFFlat.h +89 -86
- data/vendor/faiss/faiss/gpu/GpuIndexIVFPQ.h +150 -141
- data/vendor/faiss/faiss/gpu/GpuIndexIVFScalarQuantizer.h +101 -103
- data/vendor/faiss/faiss/gpu/GpuIndicesOptions.h +17 -16
- data/vendor/faiss/faiss/gpu/GpuResources.cpp +116 -128
- data/vendor/faiss/faiss/gpu/GpuResources.h +182 -186
- data/vendor/faiss/faiss/gpu/StandardGpuResources.cpp +433 -422
- data/vendor/faiss/faiss/gpu/StandardGpuResources.h +131 -130
- data/vendor/faiss/faiss/gpu/impl/InterleavedCodes.cpp +468 -456
- data/vendor/faiss/faiss/gpu/impl/InterleavedCodes.h +25 -19
- data/vendor/faiss/faiss/gpu/impl/RemapIndices.cpp +22 -20
- data/vendor/faiss/faiss/gpu/impl/RemapIndices.h +9 -8
- data/vendor/faiss/faiss/gpu/perf/IndexWrapper-inl.h +39 -44
- data/vendor/faiss/faiss/gpu/perf/IndexWrapper.h +16 -14
- data/vendor/faiss/faiss/gpu/perf/PerfClustering.cpp +77 -71
- data/vendor/faiss/faiss/gpu/perf/PerfIVFPQAdd.cpp +109 -88
- data/vendor/faiss/faiss/gpu/perf/WriteIndex.cpp +75 -64
- data/vendor/faiss/faiss/gpu/test/TestCodePacking.cpp +230 -215
- data/vendor/faiss/faiss/gpu/test/TestGpuIndexBinaryFlat.cpp +80 -86
- data/vendor/faiss/faiss/gpu/test/TestGpuIndexFlat.cpp +284 -277
- data/vendor/faiss/faiss/gpu/test/TestGpuIndexIVFFlat.cpp +416 -416
- data/vendor/faiss/faiss/gpu/test/TestGpuIndexIVFPQ.cpp +611 -517
- data/vendor/faiss/faiss/gpu/test/TestGpuIndexIVFScalarQuantizer.cpp +166 -164
- data/vendor/faiss/faiss/gpu/test/TestGpuMemoryException.cpp +61 -53
- data/vendor/faiss/faiss/gpu/test/TestUtils.cpp +274 -238
- data/vendor/faiss/faiss/gpu/test/TestUtils.h +73 -57
- data/vendor/faiss/faiss/gpu/test/demo_ivfpq_indexing_gpu.cpp +47 -50
- data/vendor/faiss/faiss/gpu/utils/DeviceUtils.h +79 -72
- data/vendor/faiss/faiss/gpu/utils/StackDeviceMemory.cpp +140 -146
- data/vendor/faiss/faiss/gpu/utils/StackDeviceMemory.h +69 -71
- data/vendor/faiss/faiss/gpu/utils/StaticUtils.h +21 -16
- data/vendor/faiss/faiss/gpu/utils/Timer.cpp +25 -29
- data/vendor/faiss/faiss/gpu/utils/Timer.h +30 -29
- data/vendor/faiss/faiss/impl/AdditiveQuantizer.cpp +503 -0
- data/vendor/faiss/faiss/impl/AdditiveQuantizer.h +175 -0
- data/vendor/faiss/faiss/impl/AuxIndexStructures.cpp +90 -120
- data/vendor/faiss/faiss/impl/AuxIndexStructures.h +81 -65
- data/vendor/faiss/faiss/impl/FaissAssert.h +73 -58
- data/vendor/faiss/faiss/impl/FaissException.cpp +56 -48
- data/vendor/faiss/faiss/impl/FaissException.h +41 -29
- data/vendor/faiss/faiss/impl/HNSW.cpp +606 -617
- data/vendor/faiss/faiss/impl/HNSW.h +179 -200
- data/vendor/faiss/faiss/impl/LocalSearchQuantizer.cpp +855 -0
- data/vendor/faiss/faiss/impl/LocalSearchQuantizer.h +244 -0
- data/vendor/faiss/faiss/impl/NNDescent.cpp +487 -0
- data/vendor/faiss/faiss/impl/NNDescent.h +154 -0
- data/vendor/faiss/faiss/impl/NSG.cpp +679 -0
- data/vendor/faiss/faiss/impl/NSG.h +199 -0
- data/vendor/faiss/faiss/impl/PolysemousTraining.cpp +484 -454
- data/vendor/faiss/faiss/impl/PolysemousTraining.h +52 -55
- data/vendor/faiss/faiss/impl/ProductQuantizer-inl.h +26 -47
- data/vendor/faiss/faiss/impl/ProductQuantizer.cpp +469 -459
- data/vendor/faiss/faiss/impl/ProductQuantizer.h +76 -87
- data/vendor/faiss/faiss/impl/ResidualQuantizer.cpp +758 -0
- data/vendor/faiss/faiss/impl/ResidualQuantizer.h +188 -0
- data/vendor/faiss/faiss/impl/ResultHandler.h +96 -132
- data/vendor/faiss/faiss/impl/ScalarQuantizer.cpp +647 -707
- data/vendor/faiss/faiss/impl/ScalarQuantizer.h +48 -46
- data/vendor/faiss/faiss/impl/ThreadedIndex-inl.h +129 -131
- data/vendor/faiss/faiss/impl/ThreadedIndex.h +61 -55
- data/vendor/faiss/faiss/impl/index_read.cpp +631 -480
- data/vendor/faiss/faiss/impl/index_write.cpp +547 -407
- data/vendor/faiss/faiss/impl/io.cpp +76 -95
- data/vendor/faiss/faiss/impl/io.h +31 -41
- data/vendor/faiss/faiss/impl/io_macros.h +60 -29
- data/vendor/faiss/faiss/impl/kmeans1d.cpp +301 -0
- data/vendor/faiss/faiss/impl/kmeans1d.h +48 -0
- data/vendor/faiss/faiss/impl/lattice_Zn.cpp +137 -186
- data/vendor/faiss/faiss/impl/lattice_Zn.h +40 -51
- data/vendor/faiss/faiss/impl/platform_macros.h +29 -8
- data/vendor/faiss/faiss/impl/pq4_fast_scan.cpp +77 -124
- data/vendor/faiss/faiss/impl/pq4_fast_scan.h +39 -48
- data/vendor/faiss/faiss/impl/pq4_fast_scan_search_1.cpp +41 -52
- data/vendor/faiss/faiss/impl/pq4_fast_scan_search_qbs.cpp +80 -117
- data/vendor/faiss/faiss/impl/simd_result_handlers.h +109 -137
- data/vendor/faiss/faiss/index_factory.cpp +619 -397
- data/vendor/faiss/faiss/index_factory.h +8 -6
- data/vendor/faiss/faiss/index_io.h +23 -26
- data/vendor/faiss/faiss/invlists/BlockInvertedLists.cpp +67 -75
- data/vendor/faiss/faiss/invlists/BlockInvertedLists.h +22 -24
- data/vendor/faiss/faiss/invlists/DirectMap.cpp +96 -112
- data/vendor/faiss/faiss/invlists/DirectMap.h +29 -33
- data/vendor/faiss/faiss/invlists/InvertedLists.cpp +307 -364
- data/vendor/faiss/faiss/invlists/InvertedLists.h +151 -151
- data/vendor/faiss/faiss/invlists/InvertedListsIOHook.cpp +29 -34
- data/vendor/faiss/faiss/invlists/InvertedListsIOHook.h +17 -18
- data/vendor/faiss/faiss/invlists/OnDiskInvertedLists.cpp +257 -293
- data/vendor/faiss/faiss/invlists/OnDiskInvertedLists.h +50 -45
- data/vendor/faiss/faiss/python/python_callbacks.cpp +23 -26
- data/vendor/faiss/faiss/python/python_callbacks.h +9 -16
- data/vendor/faiss/faiss/utils/AlignedTable.h +79 -44
- data/vendor/faiss/faiss/utils/Heap.cpp +40 -48
- data/vendor/faiss/faiss/utils/Heap.h +186 -209
- data/vendor/faiss/faiss/utils/WorkerThread.cpp +67 -76
- data/vendor/faiss/faiss/utils/WorkerThread.h +32 -33
- data/vendor/faiss/faiss/utils/distances.cpp +305 -312
- data/vendor/faiss/faiss/utils/distances.h +170 -122
- data/vendor/faiss/faiss/utils/distances_simd.cpp +498 -508
- data/vendor/faiss/faiss/utils/extra_distances-inl.h +117 -0
- data/vendor/faiss/faiss/utils/extra_distances.cpp +113 -232
- data/vendor/faiss/faiss/utils/extra_distances.h +30 -29
- data/vendor/faiss/faiss/utils/hamming-inl.h +260 -209
- data/vendor/faiss/faiss/utils/hamming.cpp +375 -469
- data/vendor/faiss/faiss/utils/hamming.h +62 -85
- data/vendor/faiss/faiss/utils/ordered_key_value.h +16 -18
- data/vendor/faiss/faiss/utils/partitioning.cpp +393 -318
- data/vendor/faiss/faiss/utils/partitioning.h +26 -21
- data/vendor/faiss/faiss/utils/quantize_lut.cpp +78 -66
- data/vendor/faiss/faiss/utils/quantize_lut.h +22 -20
- data/vendor/faiss/faiss/utils/random.cpp +39 -63
- data/vendor/faiss/faiss/utils/random.h +13 -16
- data/vendor/faiss/faiss/utils/simdlib.h +4 -2
- data/vendor/faiss/faiss/utils/simdlib_avx2.h +88 -85
- data/vendor/faiss/faiss/utils/simdlib_emulated.h +226 -165
- data/vendor/faiss/faiss/utils/simdlib_neon.h +832 -0
- data/vendor/faiss/faiss/utils/utils.cpp +304 -287
- data/vendor/faiss/faiss/utils/utils.h +54 -49
- metadata +29 -4
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// -*- c++ -*-
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#include <faiss/Clustering.h>
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#include <faiss/VectorTransform.h>
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#include <faiss/impl/AuxIndexStructures.h>
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#include <cinttypes>
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#include <omp.h>
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#include <faiss/utils/utils.h>
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#include <faiss/utils/random.h>
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#include <faiss/utils/distances.h>
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#include <faiss/impl/FaissAssert.h>
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#include <faiss/IndexFlat.h>
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#include <faiss/impl/FaissAssert.h>
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#include <faiss/impl/kmeans1d.h>
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#include <faiss/utils/distances.h>
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#include <faiss/utils/random.h>
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#include <faiss/utils/utils.h>
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namespace faiss {
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ClusteringParameters::ClusteringParameters
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{}
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ClusteringParameters::ClusteringParameters()
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: niter(25),
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nredo(1),
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verbose(false),
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spherical(false),
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int_centroids(false),
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update_index(false),
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frozen_centroids(false),
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min_points_per_centroid(39),
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max_points_per_centroid(256),
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seed(1234),
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decode_block_size(32768) {}
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// 39 corresponds to 10000 / 256 -> to avoid warnings on PQ tests with randu10k
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Clustering::Clustering(int d, int k) : d(d), k(k) {}
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Clustering::Clustering
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Clustering::Clustering (int d, int k, const ClusteringParameters &cp):
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ClusteringParameters (cp), d(d), k(k) {}
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Clustering::Clustering(int d, int k, const ClusteringParameters& cp)
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: ClusteringParameters(cp), d(d), k(k) {}
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static double imbalance_factor (int n, int k, int64_t *assign) {
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static double imbalance_factor(int n, int k, int64_t* assign) {
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std::vector<int> hist(k, 0);
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for (int i = 0; i < n; i++)
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hist[assign[i]]++;
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double tot = 0, uf = 0;
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for (int i = 0
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for (int i = 0; i < k; i++) {
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tot += hist[i];
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uf += hist[i] * (double)
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uf += hist[i] * (double)hist[i];
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}
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return uf;
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}
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void Clustering::post_process_centroids
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{
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void Clustering::post_process_centroids() {
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fvec_renorm_L2
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fvec_renorm_L2(d, k, centroids.data());
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}
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if (int_centroids) {
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for (size_t i = 0; i < centroids.size(); i++)
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centroids[i] = roundf
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centroids[i] = roundf(centroids[i]);
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}
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void Clustering::train(
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idx_t nx,
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const float* x_in,
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Index& index,
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const float* weights) {
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train_encoded(
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nx,
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reinterpret_cast<const uint8_t*>(x_in),
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nullptr,
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index,
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weights);
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}
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namespace {
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using idx_t = Clustering::idx_t;
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idx_t subsample_training_set(
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const Clustering& clus,
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idx_t nx,
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const uint8_t* x,
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size_t line_size,
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const float* weights,
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uint8_t** x_out,
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float** weights_out) {
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if (clus.verbose) {
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printf("Sampling a subset of %zd / %" PRId64 " for training\n",
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clus.k * clus.max_points_per_centroid,
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clus.k * clus.max_points_per_centroid,
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nx);
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}
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std::vector<int> perm
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rand_perm
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std::vector<int> perm(nx);
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rand_perm(perm.data(), nx, clus.seed);
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nx = clus.k * clus.max_points_per_centroid;
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uint8_t
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uint8_t* x_new = new uint8_t[nx * line_size];
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*x_out = x_new;
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for (idx_t i = 0; i < nx; i++) {
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memcpy
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memcpy(x_new + i * line_size, x + perm[i] * line_size, line_size);
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}
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if (weights) {
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float
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float* weights_new = new float[nx];
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for (idx_t i = 0; i < nx; i++) {
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weights_new[i] = weights[perm[i]];
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}
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*
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*/
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void compute_centroids
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void compute_centroids(
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size_t d,
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size_t k,
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size_t n,
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size_t k_frozen,
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const uint8_t* x,
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const Index* codec,
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const int64_t* assign,
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const float* weights,
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float* hassign,
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float* centroids) {
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k -= k_frozen;
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centroids += k_frozen * d;
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memset
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+
memset(centroids, 0, sizeof(*centroids) * d * k);
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-
size_t line_size = codec ? codec->sa_code_size() : d * sizeof
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+
size_t line_size = codec ? codec->sa_code_size() : d * sizeof(float);
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#pragma omp parallel
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{
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@@ -157,20 +162,20 @@ void compute_centroids (size_t d, size_t k, size_t n,
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// this thread is taking care of centroids c0:c1
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size_t c0 = (k * rank) / nt;
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size_t c1 = (k * (rank + 1)) / nt;
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std::vector<float> decode_buffer
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+
std::vector<float> decode_buffer(d);
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for (size_t i = 0; i < n; i++) {
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int64_t ci = assign[i];
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assert
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+
assert(ci >= 0 && ci < k + k_frozen);
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ci -= k_frozen;
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if (ci >= c0 && ci < c1)
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float
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const float
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if (ci >= c0 && ci < c1) {
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float* c = centroids + ci * d;
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const float* xi;
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if (!codec) {
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xi = reinterpret_cast<const float*>(x + i * line_size);
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} else {
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float
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codec->sa_decode
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float* xif = decode_buffer.data();
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codec->sa_decode(1, x + i * line_size, xif);
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xi = xif;
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}
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if (weights) {
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@@ -187,7 +192,6 @@ void compute_centroids (size_t d, size_t k, size_t n,
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}
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}
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}
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}
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#pragma omp parallel for
|
@@ -196,12 +200,11 @@ void compute_centroids (size_t d, size_t k, size_t n,
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continue;
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}
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float norm = 1 / hassign[ci];
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float
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+
float* c = centroids + ci * d;
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for (size_t j = 0; j < d; j++) {
|
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c[j] *= norm;
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}
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}
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-
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}
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// a bit above machine epsilon for float16
|
@@ -214,29 +217,33 @@ void compute_centroids (size_t d, size_t k, size_t n,
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*
|
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* @return nb of spliting operations (larger is worse)
|
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*/
|
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|
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int split_clusters
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|
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-
|
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-
|
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-
|
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+
int split_clusters(
|
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+
size_t d,
|
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+
size_t k,
|
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+
size_t n,
|
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+
size_t k_frozen,
|
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+
float* hassign,
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+
float* centroids) {
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k -= k_frozen;
|
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centroids += k_frozen * d;
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/* Take care of void clusters */
|
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size_t nsplit = 0;
|
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-
RandomGenerator rng
|
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+
RandomGenerator rng(1234);
|
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for (size_t ci = 0; ci < k; ci++) {
|
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|
if (hassign[ci] == 0) { /* need to redefine a centroid */
|
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|
size_t cj;
|
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236
|
for (cj = 0; 1; cj = (cj + 1) % k) {
|
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/* probability to pick this cluster for split */
|
233
|
-
float p = (hassign[cj] - 1.0) / (float)
|
234
|
-
float r = rng.rand_float
|
238
|
+
float p = (hassign[cj] - 1.0) / (float)(n - k);
|
239
|
+
float r = rng.rand_float();
|
235
240
|
if (r < p) {
|
236
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|
break; /* found our cluster to be split */
|
237
242
|
}
|
238
243
|
}
|
239
|
-
memcpy
|
244
|
+
memcpy(centroids + ci * d,
|
245
|
+
centroids + cj * d,
|
246
|
+
sizeof(*centroids) * d);
|
240
247
|
|
241
248
|
/* small symmetric pertubation */
|
242
249
|
for (size_t j = 0; j < d; j++) {
|
@@ -257,30 +264,35 @@ int split_clusters (size_t d, size_t k, size_t n,
|
|
257
264
|
}
|
258
265
|
|
259
266
|
return nsplit;
|
260
|
-
|
261
267
|
}
|
262
268
|
|
263
|
-
|
264
|
-
|
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|
-
|
266
|
-
|
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|
-
|
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|
-
|
269
|
-
|
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|
-
|
271
|
-
|
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|
-
|
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|
-
|
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|
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|
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|
-
|
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|
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|
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|
-
|
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|
-
|
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|
-
|
280
|
-
|
281
|
-
|
269
|
+
}; // namespace
|
270
|
+
|
271
|
+
void Clustering::train_encoded(
|
272
|
+
idx_t nx,
|
273
|
+
const uint8_t* x_in,
|
274
|
+
const Index* codec,
|
275
|
+
Index& index,
|
276
|
+
const float* weights) {
|
277
|
+
FAISS_THROW_IF_NOT_FMT(
|
278
|
+
nx >= k,
|
279
|
+
"Number of training points (%" PRId64
|
280
|
+
") should be at least "
|
281
|
+
"as large as number of clusters (%zd)",
|
282
|
+
nx,
|
283
|
+
k);
|
284
|
+
|
285
|
+
FAISS_THROW_IF_NOT_FMT(
|
286
|
+
(!codec || codec->d == d),
|
287
|
+
"Codec dimension %d not the same as data dimension %d",
|
288
|
+
int(codec->d),
|
289
|
+
int(d));
|
290
|
+
|
291
|
+
FAISS_THROW_IF_NOT_FMT(
|
292
|
+
index.d == d,
|
282
293
|
"Index dimension %d not the same as data dimension %d",
|
283
|
-
int(index.d),
|
294
|
+
int(index.d),
|
295
|
+
int(d));
|
284
296
|
|
285
297
|
double t0 = getmillisecs();
|
286
298
|
|
@@ -288,67 +300,78 @@ void Clustering::train_encoded (idx_t nx, const uint8_t *x_in,
|
|
288
300
|
// Check for NaNs in input data. Normally it is the user's
|
289
301
|
// responsibility, but it may spare us some hard-to-debug
|
290
302
|
// reports.
|
291
|
-
const float
|
303
|
+
const float* x = reinterpret_cast<const float*>(x_in);
|
292
304
|
for (size_t i = 0; i < nx * d; i++) {
|
293
|
-
FAISS_THROW_IF_NOT_MSG
|
294
|
-
|
305
|
+
FAISS_THROW_IF_NOT_MSG(
|
306
|
+
std::isfinite(x[i]), "input contains NaN's or Inf's");
|
295
307
|
}
|
296
308
|
}
|
297
309
|
|
298
|
-
const uint8_t
|
299
|
-
std::unique_ptr<uint8_t
|
300
|
-
std::unique_ptr<float
|
310
|
+
const uint8_t* x = x_in;
|
311
|
+
std::unique_ptr<uint8_t[]> del1;
|
312
|
+
std::unique_ptr<float[]> del3;
|
301
313
|
size_t line_size = codec ? codec->sa_code_size() : sizeof(float) * d;
|
302
314
|
|
303
315
|
if (nx > k * max_points_per_centroid) {
|
304
|
-
uint8_t
|
305
|
-
float
|
306
|
-
nx = subsample_training_set
|
307
|
-
|
308
|
-
del1.reset
|
309
|
-
|
316
|
+
uint8_t* x_new;
|
317
|
+
float* weights_new;
|
318
|
+
nx = subsample_training_set(
|
319
|
+
*this, nx, x, line_size, weights, &x_new, &weights_new);
|
320
|
+
del1.reset(x_new);
|
321
|
+
x = x_new;
|
322
|
+
del3.reset(weights_new);
|
323
|
+
weights = weights_new;
|
310
324
|
} else if (nx < k * min_points_per_centroid) {
|
311
|
-
fprintf
|
312
|
-
|
313
|
-
|
314
|
-
|
325
|
+
fprintf(stderr,
|
326
|
+
"WARNING clustering %" PRId64
|
327
|
+
" points to %zd centroids: "
|
328
|
+
"please provide at least %" PRId64 " training points\n",
|
329
|
+
nx,
|
330
|
+
k,
|
331
|
+
idx_t(k) * min_points_per_centroid);
|
315
332
|
}
|
316
333
|
|
317
334
|
if (nx == k) {
|
318
335
|
// this is a corner case, just copy training set to clusters
|
319
336
|
if (verbose) {
|
320
|
-
printf("Number of training points (%" PRId64
|
321
|
-
"
|
337
|
+
printf("Number of training points (%" PRId64
|
338
|
+
") same as number of "
|
339
|
+
"clusters, just copying\n",
|
340
|
+
nx);
|
322
341
|
}
|
323
|
-
centroids.resize
|
342
|
+
centroids.resize(d * k);
|
324
343
|
if (!codec) {
|
325
|
-
memcpy
|
344
|
+
memcpy(centroids.data(), x_in, sizeof(float) * d * k);
|
326
345
|
} else {
|
327
|
-
codec->sa_decode
|
346
|
+
codec->sa_decode(nx, x_in, centroids.data());
|
328
347
|
}
|
329
348
|
|
330
349
|
// one fake iteration...
|
331
|
-
ClusteringIterationStats stats = {
|
332
|
-
iteration_stats.push_back
|
350
|
+
ClusteringIterationStats stats = {0.0, 0.0, 0.0, 1.0, 0};
|
351
|
+
iteration_stats.push_back(stats);
|
333
352
|
|
334
353
|
index.reset();
|
335
354
|
index.add(k, centroids.data());
|
336
355
|
return;
|
337
356
|
}
|
338
357
|
|
339
|
-
|
340
358
|
if (verbose) {
|
341
|
-
printf("Clustering %" PRId64
|
359
|
+
printf("Clustering %" PRId64
|
360
|
+
" points in %zdD to %zd clusters, "
|
342
361
|
"redo %d times, %d iterations\n",
|
343
|
-
nx,
|
362
|
+
nx,
|
363
|
+
d,
|
364
|
+
k,
|
365
|
+
nredo,
|
366
|
+
niter);
|
344
367
|
if (codec) {
|
345
368
|
printf("Input data encoded in %zd bytes per vector\n",
|
346
|
-
codec->sa_code_size
|
369
|
+
codec->sa_code_size());
|
347
370
|
}
|
348
371
|
}
|
349
372
|
|
350
|
-
std::unique_ptr<idx_t
|
351
|
-
std::unique_ptr<float
|
373
|
+
std::unique_ptr<idx_t[]> assign(new idx_t[nx]);
|
374
|
+
std::unique_ptr<float[]> dis(new float[nx]);
|
352
375
|
|
353
376
|
// remember best iteration for redo
|
354
377
|
bool lower_is_better = index.metric_type != METRIC_INNER_PRODUCT;
|
@@ -358,52 +381,49 @@ void Clustering::train_encoded (idx_t nx, const uint8_t *x_in,
|
|
358
381
|
|
359
382
|
// support input centroids
|
360
383
|
|
361
|
-
FAISS_THROW_IF_NOT_MSG
|
362
|
-
|
363
|
-
|
364
|
-
);
|
384
|
+
FAISS_THROW_IF_NOT_MSG(
|
385
|
+
centroids.size() % d == 0,
|
386
|
+
"size of provided input centroids not a multiple of dimension");
|
365
387
|
|
366
388
|
size_t n_input_centroids = centroids.size() / d;
|
367
389
|
|
368
390
|
if (verbose && n_input_centroids > 0) {
|
369
|
-
printf
|
370
|
-
|
391
|
+
printf(" Using %zd centroids provided as input (%sfrozen)\n",
|
392
|
+
n_input_centroids,
|
393
|
+
frozen_centroids ? "" : "not ");
|
371
394
|
}
|
372
395
|
|
373
396
|
double t_search_tot = 0;
|
374
397
|
if (verbose) {
|
375
|
-
printf(" Preprocessing in %.2f s\n",
|
376
|
-
(getmillisecs() - t0) / 1000.);
|
398
|
+
printf(" Preprocessing in %.2f s\n", (getmillisecs() - t0) / 1000.);
|
377
399
|
}
|
378
400
|
t0 = getmillisecs();
|
379
401
|
|
380
402
|
// temporary buffer to decode vectors during the optimization
|
381
|
-
std::vector<float> decode_buffer
|
382
|
-
(codec ? d * decode_block_size : 0);
|
403
|
+
std::vector<float> decode_buffer(codec ? d * decode_block_size : 0);
|
383
404
|
|
384
405
|
for (int redo = 0; redo < nredo; redo++) {
|
385
|
-
|
386
406
|
if (verbose && nredo > 1) {
|
387
407
|
printf("Outer iteration %d / %d\n", redo, nredo);
|
388
408
|
}
|
389
409
|
|
390
410
|
// initialize (remaining) centroids with random points from the dataset
|
391
|
-
centroids.resize
|
392
|
-
std::vector<int> perm
|
411
|
+
centroids.resize(d * k);
|
412
|
+
std::vector<int> perm(nx);
|
393
413
|
|
394
|
-
rand_perm
|
414
|
+
rand_perm(perm.data(), nx, seed + 1 + redo * 15486557L);
|
395
415
|
|
396
416
|
if (!codec) {
|
397
|
-
for (int i = n_input_centroids; i < k
|
398
|
-
memcpy
|
417
|
+
for (int i = n_input_centroids; i < k; i++) {
|
418
|
+
memcpy(¢roids[i * d], x + perm[i] * line_size, line_size);
|
399
419
|
}
|
400
420
|
} else {
|
401
|
-
for (int i = n_input_centroids; i < k
|
402
|
-
codec->sa_decode
|
421
|
+
for (int i = n_input_centroids; i < k; i++) {
|
422
|
+
codec->sa_decode(1, x + perm[i] * line_size, ¢roids[i * d]);
|
403
423
|
}
|
404
424
|
}
|
405
425
|
|
406
|
-
post_process_centroids
|
426
|
+
post_process_centroids();
|
407
427
|
|
408
428
|
// prepare the index
|
409
429
|
|
@@ -412,10 +432,10 @@ void Clustering::train_encoded (idx_t nx, const uint8_t *x_in,
|
|
412
432
|
}
|
413
433
|
|
414
434
|
if (!index.is_trained) {
|
415
|
-
index.train
|
435
|
+
index.train(k, centroids.data());
|
416
436
|
}
|
417
437
|
|
418
|
-
index.add
|
438
|
+
index.add(k, centroids.data());
|
419
439
|
|
420
440
|
// k-means iterations
|
421
441
|
|
@@ -424,18 +444,28 @@ void Clustering::train_encoded (idx_t nx, const uint8_t *x_in,
|
|
424
444
|
double t0s = getmillisecs();
|
425
445
|
|
426
446
|
if (!codec) {
|
427
|
-
index.search
|
428
|
-
|
447
|
+
index.search(
|
448
|
+
nx,
|
449
|
+
reinterpret_cast<const float*>(x),
|
450
|
+
1,
|
451
|
+
dis.get(),
|
452
|
+
assign.get());
|
429
453
|
} else {
|
430
454
|
// search by blocks of decode_block_size vectors
|
431
|
-
size_t code_size = codec->sa_code_size
|
455
|
+
size_t code_size = codec->sa_code_size();
|
432
456
|
for (size_t i0 = 0; i0 < nx; i0 += decode_block_size) {
|
433
457
|
size_t i1 = i0 + decode_block_size;
|
434
|
-
if (i1 > nx) {
|
435
|
-
|
436
|
-
|
437
|
-
|
438
|
-
|
458
|
+
if (i1 > nx) {
|
459
|
+
i1 = nx;
|
460
|
+
}
|
461
|
+
codec->sa_decode(
|
462
|
+
i1 - i0, x + code_size * i0, decode_buffer.data());
|
463
|
+
index.search(
|
464
|
+
i1 - i0,
|
465
|
+
decode_buffer.data(),
|
466
|
+
1,
|
467
|
+
dis.get() + i0,
|
468
|
+
assign.get() + i0);
|
439
469
|
}
|
440
470
|
}
|
441
471
|
|
@@ -449,61 +479,71 @@ void Clustering::train_encoded (idx_t nx, const uint8_t *x_in,
|
|
449
479
|
}
|
450
480
|
|
451
481
|
// update the centroids
|
452
|
-
std::vector<float> hassign
|
482
|
+
std::vector<float> hassign(k);
|
453
483
|
|
454
484
|
size_t k_frozen = frozen_centroids ? n_input_centroids : 0;
|
455
|
-
compute_centroids
|
456
|
-
|
457
|
-
|
458
|
-
|
459
|
-
|
460
|
-
|
461
|
-
|
462
|
-
|
463
|
-
|
464
|
-
|
485
|
+
compute_centroids(
|
486
|
+
d,
|
487
|
+
k,
|
488
|
+
nx,
|
489
|
+
k_frozen,
|
490
|
+
x,
|
491
|
+
codec,
|
492
|
+
assign.get(),
|
493
|
+
weights,
|
494
|
+
hassign.data(),
|
495
|
+
centroids.data());
|
496
|
+
|
497
|
+
int nsplit = split_clusters(
|
498
|
+
d, k, nx, k_frozen, hassign.data(), centroids.data());
|
465
499
|
|
466
500
|
// collect statistics
|
467
|
-
ClusteringIterationStats stats =
|
468
|
-
|
469
|
-
|
470
|
-
|
471
|
-
|
501
|
+
ClusteringIterationStats stats = {
|
502
|
+
obj,
|
503
|
+
(getmillisecs() - t0) / 1000.0,
|
504
|
+
t_search_tot / 1000,
|
505
|
+
imbalance_factor(nx, k, assign.get()),
|
506
|
+
nsplit};
|
472
507
|
iteration_stats.push_back(stats);
|
473
508
|
|
474
509
|
if (verbose) {
|
475
|
-
printf
|
476
|
-
|
477
|
-
|
478
|
-
|
479
|
-
|
510
|
+
printf(" Iteration %d (%.2f s, search %.2f s): "
|
511
|
+
"objective=%g imbalance=%.3f nsplit=%d \r",
|
512
|
+
i,
|
513
|
+
stats.time,
|
514
|
+
stats.time_search,
|
515
|
+
stats.obj,
|
516
|
+
stats.imbalance_factor,
|
517
|
+
nsplit);
|
518
|
+
fflush(stdout);
|
480
519
|
}
|
481
520
|
|
482
|
-
post_process_centroids
|
521
|
+
post_process_centroids();
|
483
522
|
|
484
523
|
// add centroids to index for the next iteration (or for output)
|
485
524
|
|
486
|
-
index.reset
|
525
|
+
index.reset();
|
487
526
|
if (update_index) {
|
488
|
-
index.train
|
527
|
+
index.train(k, centroids.data());
|
489
528
|
}
|
490
529
|
|
491
|
-
index.add
|
492
|
-
InterruptCallback::check
|
530
|
+
index.add(k, centroids.data());
|
531
|
+
InterruptCallback::check();
|
493
532
|
}
|
494
533
|
|
495
|
-
if (verbose)
|
534
|
+
if (verbose)
|
535
|
+
printf("\n");
|
496
536
|
if (nredo > 1) {
|
497
537
|
if ((lower_is_better && obj < best_obj) ||
|
498
538
|
(!lower_is_better && obj > best_obj)) {
|
499
539
|
if (verbose) {
|
500
|
-
printf
|
540
|
+
printf("Objective improved: keep new clusters\n");
|
501
541
|
}
|
502
542
|
best_centroids = centroids;
|
503
543
|
best_iteration_stats = iteration_stats;
|
504
544
|
best_obj = obj;
|
505
545
|
}
|
506
|
-
index.reset
|
546
|
+
index.reset();
|
507
547
|
}
|
508
548
|
}
|
509
549
|
if (nredo > 1) {
|
@@ -512,20 +552,151 @@ void Clustering::train_encoded (idx_t nx, const uint8_t *x_in,
|
|
512
552
|
index.reset();
|
513
553
|
index.add(k, best_centroids.data());
|
514
554
|
}
|
555
|
+
}
|
556
|
+
|
557
|
+
Clustering1D::Clustering1D(int k) : Clustering(1, k) {}
|
558
|
+
|
559
|
+
Clustering1D::Clustering1D(int k, const ClusteringParameters& cp)
|
560
|
+
: Clustering(1, k, cp) {}
|
561
|
+
|
562
|
+
void Clustering1D::train_exact(idx_t n, const float* x) {
|
563
|
+
const float* xt = x;
|
564
|
+
|
565
|
+
std::unique_ptr<uint8_t[]> del;
|
566
|
+
if (n > k * max_points_per_centroid) {
|
567
|
+
uint8_t* x_new;
|
568
|
+
float* weights_new;
|
569
|
+
n = subsample_training_set(
|
570
|
+
*this,
|
571
|
+
n,
|
572
|
+
(uint8_t*)x,
|
573
|
+
sizeof(float) * d,
|
574
|
+
nullptr,
|
575
|
+
&x_new,
|
576
|
+
&weights_new);
|
577
|
+
del.reset(x_new);
|
578
|
+
xt = (float*)x_new;
|
579
|
+
}
|
515
580
|
|
581
|
+
centroids.resize(k);
|
582
|
+
double uf = kmeans1d(xt, n, k, centroids.data());
|
583
|
+
|
584
|
+
ClusteringIterationStats stats = {0.0, 0.0, 0.0, uf, 0};
|
585
|
+
iteration_stats.push_back(stats);
|
516
586
|
}
|
517
587
|
|
518
|
-
float kmeans_clustering
|
519
|
-
|
520
|
-
|
521
|
-
|
522
|
-
|
588
|
+
float kmeans_clustering(
|
589
|
+
size_t d,
|
590
|
+
size_t n,
|
591
|
+
size_t k,
|
592
|
+
const float* x,
|
593
|
+
float* centroids) {
|
594
|
+
Clustering clus(d, k);
|
523
595
|
clus.verbose = d * n * k > (1L << 30);
|
524
596
|
// display logs if > 1Gflop per iteration
|
525
|
-
IndexFlatL2 index
|
526
|
-
clus.train
|
597
|
+
IndexFlatL2 index(d);
|
598
|
+
clus.train(n, x, index);
|
527
599
|
memcpy(centroids, clus.centroids.data(), sizeof(*centroids) * d * k);
|
528
600
|
return clus.iteration_stats.back().obj;
|
529
601
|
}
|
530
602
|
|
603
|
+
/******************************************************************************
|
604
|
+
* ProgressiveDimClustering implementation
|
605
|
+
******************************************************************************/
|
606
|
+
|
607
|
+
ProgressiveDimClusteringParameters::ProgressiveDimClusteringParameters() {
|
608
|
+
progressive_dim_steps = 10;
|
609
|
+
apply_pca = true; // seems a good idea to do this by default
|
610
|
+
niter = 10; // reduce nb of iterations per step
|
611
|
+
}
|
612
|
+
|
613
|
+
Index* ProgressiveDimIndexFactory::operator()(int dim) {
|
614
|
+
return new IndexFlatL2(dim);
|
615
|
+
}
|
616
|
+
|
617
|
+
ProgressiveDimClustering::ProgressiveDimClustering(int d, int k) : d(d), k(k) {}
|
618
|
+
|
619
|
+
ProgressiveDimClustering::ProgressiveDimClustering(
|
620
|
+
int d,
|
621
|
+
int k,
|
622
|
+
const ProgressiveDimClusteringParameters& cp)
|
623
|
+
: ProgressiveDimClusteringParameters(cp), d(d), k(k) {}
|
624
|
+
|
625
|
+
namespace {
|
626
|
+
|
627
|
+
using idx_t = Index::idx_t;
|
628
|
+
|
629
|
+
void copy_columns(idx_t n, idx_t d1, const float* src, idx_t d2, float* dest) {
|
630
|
+
idx_t d = std::min(d1, d2);
|
631
|
+
for (idx_t i = 0; i < n; i++) {
|
632
|
+
memcpy(dest, src, sizeof(float) * d);
|
633
|
+
src += d1;
|
634
|
+
dest += d2;
|
635
|
+
}
|
636
|
+
}
|
637
|
+
|
638
|
+
}; // namespace
|
639
|
+
|
640
|
+
void ProgressiveDimClustering::train(
|
641
|
+
idx_t n,
|
642
|
+
const float* x,
|
643
|
+
ProgressiveDimIndexFactory& factory) {
|
644
|
+
int d_prev = 0;
|
645
|
+
|
646
|
+
PCAMatrix pca(d, d);
|
647
|
+
|
648
|
+
std::vector<float> xbuf;
|
649
|
+
if (apply_pca) {
|
650
|
+
if (verbose) {
|
651
|
+
printf("Training PCA transform\n");
|
652
|
+
}
|
653
|
+
pca.train(n, x);
|
654
|
+
if (verbose) {
|
655
|
+
printf("Apply PCA\n");
|
656
|
+
}
|
657
|
+
xbuf.resize(n * d);
|
658
|
+
pca.apply_noalloc(n, x, xbuf.data());
|
659
|
+
x = xbuf.data();
|
660
|
+
}
|
661
|
+
|
662
|
+
for (int iter = 0; iter < progressive_dim_steps; iter++) {
|
663
|
+
int di = int(pow(d, (1. + iter) / progressive_dim_steps));
|
664
|
+
if (verbose) {
|
665
|
+
printf("Progressive dim step %d: cluster in dimension %d\n",
|
666
|
+
iter,
|
667
|
+
di);
|
668
|
+
}
|
669
|
+
std::unique_ptr<Index> clustering_index(factory(di));
|
670
|
+
|
671
|
+
Clustering clus(di, k, *this);
|
672
|
+
if (d_prev > 0) {
|
673
|
+
// copy warm-start centroids (padded with 0s)
|
674
|
+
clus.centroids.resize(k * di);
|
675
|
+
copy_columns(
|
676
|
+
k, d_prev, centroids.data(), di, clus.centroids.data());
|
677
|
+
}
|
678
|
+
std::vector<float> xsub(n * di);
|
679
|
+
copy_columns(n, d, x, di, xsub.data());
|
680
|
+
|
681
|
+
clus.train(n, xsub.data(), *clustering_index.get());
|
682
|
+
|
683
|
+
centroids = clus.centroids;
|
684
|
+
iteration_stats.insert(
|
685
|
+
iteration_stats.end(),
|
686
|
+
clus.iteration_stats.begin(),
|
687
|
+
clus.iteration_stats.end());
|
688
|
+
|
689
|
+
d_prev = di;
|
690
|
+
}
|
691
|
+
|
692
|
+
if (apply_pca) {
|
693
|
+
if (verbose) {
|
694
|
+
printf("Revert PCA transform on centroids\n");
|
695
|
+
}
|
696
|
+
std::vector<float> cent_transformed(d * k);
|
697
|
+
pca.reverse_transform(k, centroids.data(), cent_transformed.data());
|
698
|
+
cent_transformed.swap(centroids);
|
699
|
+
}
|
700
|
+
}
|
701
|
+
|
531
702
|
} // namespace faiss
|