nmatrix 0.1.0 → 0.2.0
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- checksums.yaml +4 -4
- data/ext/nmatrix/data/complex.h +20 -55
- data/ext/nmatrix/data/data.cpp +11 -44
- data/ext/nmatrix/data/data.h +174 -311
- data/ext/nmatrix/data/meta.h +1 -7
- data/ext/nmatrix/data/ruby_object.h +3 -85
- data/ext/nmatrix/extconf.rb +2 -73
- data/ext/nmatrix/math.cpp +170 -813
- data/ext/nmatrix/math/asum.h +2 -25
- data/ext/nmatrix/math/{inc.h → cblas_enums.h} +11 -22
- data/ext/nmatrix/math/cblas_templates_core.h +507 -0
- data/ext/nmatrix/math/gemm.h +2 -32
- data/ext/nmatrix/math/gemv.h +1 -35
- data/ext/nmatrix/math/getrf.h +21 -6
- data/ext/nmatrix/math/getrs.h +0 -8
- data/ext/nmatrix/math/imax.h +0 -22
- data/ext/nmatrix/math/long_dtype.h +0 -3
- data/ext/nmatrix/math/math.h +11 -337
- data/ext/nmatrix/math/nrm2.h +2 -23
- data/ext/nmatrix/math/rot.h +1 -25
- data/ext/nmatrix/math/rotg.h +4 -13
- data/ext/nmatrix/math/scal.h +0 -22
- data/ext/nmatrix/math/trsm.h +0 -55
- data/ext/nmatrix/math/util.h +148 -0
- data/ext/nmatrix/nmatrix.cpp +0 -14
- data/ext/nmatrix/nmatrix.h +92 -84
- data/ext/nmatrix/ruby_constants.cpp +0 -2
- data/ext/nmatrix/ruby_constants.h +0 -2
- data/ext/nmatrix/ruby_nmatrix.c +86 -45
- data/ext/nmatrix/storage/dense/dense.cpp +1 -7
- data/ext/nmatrix/storage/storage.h +0 -1
- data/ext/nmatrix/ttable_helper.rb +0 -6
- data/ext/nmatrix/util/io.cpp +1 -1
- data/lib/nmatrix.rb +1 -19
- data/lib/nmatrix/blas.rb +33 -11
- data/lib/nmatrix/io/market.rb +3 -3
- data/lib/nmatrix/lapack_core.rb +181 -0
- data/lib/nmatrix/lapack_plugin.rb +44 -0
- data/lib/nmatrix/math.rb +382 -131
- data/lib/nmatrix/monkeys.rb +2 -3
- data/lib/nmatrix/nmatrix.rb +166 -13
- data/lib/nmatrix/shortcuts.rb +72 -7
- data/lib/nmatrix/version.rb +2 -2
- data/spec/00_nmatrix_spec.rb +154 -5
- data/spec/02_slice_spec.rb +2 -6
- data/spec/03_nmatrix_monkeys_spec.rb +7 -1
- data/spec/blas_spec.rb +60 -33
- data/spec/homogeneous_spec.rb +10 -10
- data/spec/lapack_core_spec.rb +482 -0
- data/spec/math_spec.rb +436 -52
- data/spec/shortcuts_spec.rb +28 -4
- data/spec/spec_helper.rb +14 -2
- data/spec/utm5940.mtx +83844 -0
- metadata +49 -76
- data/.gitignore +0 -27
- data/.rspec +0 -2
- data/.travis.yml +0 -15
- data/CONTRIBUTING.md +0 -82
- data/Gemfile +0 -2
- data/History.txt +0 -677
- data/LICENSE.txt +0 -23
- data/Manifest.txt +0 -92
- data/README.rdoc +0 -150
- data/Rakefile +0 -216
- data/ext/nmatrix/data/rational.h +0 -440
- data/ext/nmatrix/math/geev.h +0 -82
- data/ext/nmatrix/math/ger.h +0 -96
- data/ext/nmatrix/math/gesdd.h +0 -80
- data/ext/nmatrix/math/gesvd.h +0 -78
- data/ext/nmatrix/math/getf2.h +0 -86
- data/ext/nmatrix/math/getri.h +0 -108
- data/ext/nmatrix/math/potrs.h +0 -129
- data/ext/nmatrix/math/swap.h +0 -52
- data/lib/nmatrix/lapack.rb +0 -240
- data/nmatrix.gemspec +0 -55
- data/scripts/mac-brew-gcc.sh +0 -50
- data/scripts/mac-mavericks-brew-gcc.sh +0 -22
- data/spec/lapack_spec.rb +0 -459
data/spec/02_slice_spec.rb
CHANGED
@@ -258,8 +258,8 @@ describe "Slice operation" do
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end
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260
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if stype == :dense
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261
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-
[:byte,:int8,:int16,:int32,:int64,:float32,:float64
|
262
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-
[:byte,:int8,:int16,:int32,:int64,:float32,:float64
|
261
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+
[:byte,:int8,:int16,:int32,:int64,:float32,:float64].each do |left_dtype|
|
262
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+
[:byte,:int8,:int16,:int32,:int64,:float32,:float64].each do |right_dtype|
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263
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# Won't work if they're both 1-byte, due to overflow.
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next if [:byte,:int8].include?(left_dtype) && [:byte,:int8].include?(right_dtype)
|
@@ -272,16 +272,12 @@ describe "Slice operation" do
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nary = if left_dtype.to_s =~ /complex/
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COMPLEX_MATRIX43A_ARRAY
|
275
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-
elsif left_dtype.to_s =~ /rational/
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-
RATIONAL_MATRIX43A_ARRAY
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else
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MATRIX43A_ARRAY
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end
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mary = if right_dtype.to_s =~ /complex/
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COMPLEX_MATRIX32A_ARRAY
|
283
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-
elsif right_dtype.to_s =~ /rational/
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-
RATIONAL_MATRIX32A_ARRAY
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else
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MATRIX32A_ARRAY
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end
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@@ -59,7 +59,7 @@ describe Array do
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it "intuits shape of Array into multiple dimensions" do
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a = [[[0], [1]], [[2], [3]], [[4], [5]]]
|
62
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-
expect(a.to_nm).to eq(NMatrix.new([3,1
|
62
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+
expect(a.to_nm).to eq(NMatrix.new([3,2,1], a.flatten))
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expect(a).to eq(a.to_nm.to_a)
|
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end
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65
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@@ -67,6 +67,12 @@ describe Array do
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a = [[0, 1, 2], [3], [4, 5]]
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expect(a).to eq(a.to_nm.to_a)
|
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69
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end
|
70
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+
|
71
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+
it "does not permanently alter the Array" do
|
72
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+
a = [[0, 1], [2, 3], [4, 5]]
|
73
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+
expect(a.to_nm).to eq(NMatrix.new([3,2], a.flatten))
|
74
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+
expect(a).to eq([[0, 1], [2, 3], [4, 5]])
|
75
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+
end
|
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end
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end
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78
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data/spec/blas_spec.rb
CHANGED
@@ -30,7 +30,6 @@ require 'spec_helper'
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30
30
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describe NMatrix::BLAS do
|
31
31
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[:byte, :int8, :int16, :int32, :int64,
|
32
32
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:float32, :float64, :complex64, :complex128,
|
33
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-
:rational32, :rational64, :rational128,
|
34
33
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:object
|
35
34
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].each do |dtype|
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context dtype do
|
@@ -48,49 +47,56 @@ describe NMatrix::BLAS do
|
|
48
47
|
end
|
49
48
|
end
|
50
49
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|
51
|
-
[:
|
50
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+
[:float32, :float64, :complex64, :complex128].each do |dtype|
|
52
51
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context dtype do
|
53
52
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# This is not the same as "exposes cblas trsm", which would be for a version defined in blas.rb (which
|
54
53
|
# would greatly simplify the calling of cblas_trsm in terms of arguments, and which would be accessible
|
55
54
|
# as NMatrix::BLAS::trsm)
|
56
55
|
it "exposes unfriendly cblas_trsm" do
|
57
|
-
a = NMatrix.new(3, [4,-1.
|
56
|
+
a = NMatrix.new(3, [4,-1.0/2, -3.0/4, -2, 2, -1.0/4, -4, -2, -1.0/2], dtype: dtype)
|
58
57
|
b = NMatrix.new([3,1], [-1, 17, -9], dtype: dtype)
|
59
58
|
NMatrix::BLAS::cblas_trsm(:row, :right, :lower, :transpose, :nonunit, 1, 3, 1.0, a, 3, b, 3)
|
60
59
|
|
61
60
|
# These test results all come from actually running a matrix through BLAS. We use them to ensure that NMatrix's
|
62
|
-
# version of these functions
|
61
|
+
# version of these functions give similar results.
|
63
62
|
|
64
|
-
expect(b[0]).to eq(-1.
|
65
|
-
expect(b[1]).to eq(33.
|
63
|
+
expect(b[0]).to eq(-1.0/4)
|
64
|
+
expect(b[1]).to eq(33.0/4)
|
66
65
|
expect(b[2]).to eq(-13)
|
67
66
|
|
68
67
|
NMatrix::BLAS::cblas_trsm(:row, :right, :upper, :transpose, :unit, 1, 3, 1.0, a, 3, b, 3)
|
69
68
|
|
70
|
-
expect(b[0]).to eq(-15.
|
69
|
+
expect(b[0]).to eq(-15.0/2)
|
71
70
|
expect(b[1]).to eq(5)
|
72
71
|
expect(b[2]).to eq(-13)
|
73
72
|
end
|
74
|
-
end
|
75
|
-
end
|
76
73
|
|
77
|
-
|
78
|
-
|
79
|
-
it "exposes
|
80
|
-
|
74
|
+
# trmm multiplies two matrices, where one of the two is required to be
|
75
|
+
# triangular
|
76
|
+
it "exposes cblas_trmm" do
|
77
|
+
a = NMatrix.new([3,3], [1,1,1, 0,1,2, 0,0,-1], dtype: dtype)
|
78
|
+
b = NMatrix.new([3,3], [1,2,3, 4,5,6, 7,8,9], dtype: dtype)
|
81
79
|
|
82
|
-
|
83
|
-
|
80
|
+
begin
|
81
|
+
NMatrix::BLAS.cblas_trmm(:row, :left, :upper, false, :not_unit, 3, 3, 1, a, 3, b, 3)
|
82
|
+
rescue NotImplementedError => e
|
83
|
+
pending e.to_s
|
84
|
+
end
|
85
|
+
|
86
|
+
product = NMatrix.new([3,3], [12,15,18, 18,21,24, -7,-8,-9], dtype: dtype)
|
87
|
+
expect(b).to eq(product)
|
88
|
+
end
|
84
89
|
end
|
85
90
|
end
|
86
91
|
|
92
|
+
#should have a separate test for complex
|
87
93
|
[:float32, :float64, :complex64, :complex128, :object].each do |dtype|
|
88
94
|
context dtype do
|
89
95
|
|
90
96
|
it "exposes cblas rot" do
|
91
97
|
x = NMatrix.new([5,1], [1,2,3,4,5], dtype: dtype)
|
92
98
|
y = NMatrix.new([5,1], [-5,-4,-3,-2,-1], dtype: dtype)
|
93
|
-
x, y = NMatrix::BLAS::rot(x, y, 1.
|
99
|
+
x, y = NMatrix::BLAS::rot(x, y, 1.0/2, Math.sqrt(3)/2, -1)
|
94
100
|
|
95
101
|
expect(x).to be_within(1e-4).of(
|
96
102
|
NMatrix.new([5,1], [-0.3660254037844386, -0.7320508075688772, -1.098076211353316, -1.4641016151377544, -1.8301270189221928], dtype: dtype)
|
@@ -111,19 +117,23 @@ describe NMatrix::BLAS do
|
|
111
117
|
pending("broken for :object") if dtype == :object
|
112
118
|
|
113
119
|
ab = NMatrix.new([2,1], [6,-8], dtype: dtype)
|
114
|
-
|
120
|
+
begin
|
121
|
+
c,s = NMatrix::BLAS::rotg(ab)
|
122
|
+
rescue NotImplementedError => e
|
123
|
+
pending e.to_s
|
124
|
+
end
|
115
125
|
|
116
126
|
if [:float32, :float64].include?(dtype)
|
117
127
|
expect(ab[0]).to be_within(1e-6).of(-10)
|
118
|
-
expect(ab[1]).to be_within(1e-6).of(-5.
|
119
|
-
expect(c).to be_within(1e-6).of(-3.
|
128
|
+
expect(ab[1]).to be_within(1e-6).of(-5.0/3)
|
129
|
+
expect(c).to be_within(1e-6).of(-3.0/5)
|
120
130
|
else
|
121
131
|
pending "need correct test cases"
|
122
132
|
expect(ab[0]).to be_within(1e-6).of(10)
|
123
|
-
expect(ab[1]).to be_within(1e-6).of(5.
|
124
|
-
expect(c).to be_within(1e-6).of(3.
|
133
|
+
expect(ab[1]).to be_within(1e-6).of(5.0/3)
|
134
|
+
expect(c).to be_within(1e-6).of(3.0/5)
|
125
135
|
end
|
126
|
-
expect(s).to be_within(1e-6).of(4.
|
136
|
+
expect(s).to be_within(1e-6).of(4.0/5)
|
127
137
|
end
|
128
138
|
|
129
139
|
# Note: this exposes gemm, not cblas_gemm (which is the unfriendly CBLAS no-error-checking version)
|
@@ -138,27 +148,44 @@ describe NMatrix::BLAS do
|
|
138
148
|
expect(r).to eq(NMatrix.new([4,2], [273,455,243,235,244,205,102,160], dtype: dtype))
|
139
149
|
end
|
140
150
|
|
141
|
-
|
142
151
|
it "exposes gemv" do
|
143
|
-
a = NMatrix.new([4,3], [1.0, 2.0, 3.0, 4.0, 5.0, 6.0, 7.0, 8.0, 9.0, 10.0, 11.0, 12.0], dtype:
|
144
|
-
x = NMatrix.new([3,1], [2.0, 1.0, 0.0], dtype:
|
145
|
-
|
146
|
-
NMatrix
|
152
|
+
a = NMatrix.new([4,3], [1.0, 2.0, 3.0, 4.0, 5.0, 6.0, 7.0, 8.0, 9.0, 10.0, 11.0, 12.0], dtype: dtype)
|
153
|
+
x = NMatrix.new([3,1], [2.0, 1.0, 0.0], dtype: dtype)
|
154
|
+
y = NMatrix::BLAS.gemv(a, x)
|
155
|
+
expect(y).to eq(NMatrix.new([4,1],[4.0,13.0,22.0,31.0],dtype: dtype))
|
147
156
|
end
|
148
157
|
|
149
158
|
it "exposes asum" do
|
150
|
-
|
151
|
-
|
159
|
+
pending("broken for :object") if dtype == :object
|
160
|
+
|
161
|
+
x = NMatrix.new([4,1], [-1,2,3,4], dtype: dtype)
|
162
|
+
expect(NMatrix::BLAS.asum(x)).to eq(10)
|
152
163
|
end
|
153
164
|
|
154
165
|
it "exposes asum for single element" do
|
155
|
-
|
156
|
-
|
166
|
+
if [:complex64,:complex128].include?(dtype)
|
167
|
+
x = NMatrix.new([1], [Complex(-3,2)], dtype: dtype)
|
168
|
+
expect(x.asum).to eq(5.0)
|
169
|
+
else
|
170
|
+
x = NMatrix.new([1], [-1], dtype: dtype)
|
171
|
+
expect(x.asum).to eq(1.0)
|
172
|
+
end
|
157
173
|
end
|
158
174
|
|
159
175
|
it "exposes nrm2" do
|
160
|
-
|
161
|
-
|
176
|
+
pending("broken for :object") if dtype == :object
|
177
|
+
pending("Temporarily disable because the internal implementation of nrm2 is broken -WL 2015-05-17") if dtype == :complex64 || dtype == :complex128
|
178
|
+
|
179
|
+
x = NMatrix.new([4,1], [2,-4,3,5], dtype: dtype)
|
180
|
+
err = case dtype
|
181
|
+
when :float32, :complex64
|
182
|
+
1e-6
|
183
|
+
when :float64, :complex128
|
184
|
+
1e-14
|
185
|
+
else
|
186
|
+
1e-14
|
187
|
+
end
|
188
|
+
expect(NMatrix::BLAS.nrm2(x, 1, 3)).to be_within(err).of(5.385164807134504)
|
162
189
|
end
|
163
190
|
|
164
191
|
end
|
data/spec/homogeneous_spec.rb
CHANGED
@@ -33,10 +33,10 @@ require 'pry'
|
|
33
33
|
describe 'NMatrix' do
|
34
34
|
context ".x_rotation" do
|
35
35
|
it "should generate a matrix representing a rotation about the x axis" do
|
36
|
-
x = NMatrix.x_rotation(Math::PI
|
36
|
+
x = NMatrix.x_rotation(Math::PI/6)
|
37
37
|
expect(x).to be_within(1e-8).of(NMatrix.new([4,4], [1.0, 0.0, 0.0, 0.0,
|
38
|
-
0.0, Math.cos(Math::PI
|
39
|
-
0.0, 0.5, Math.cos(Math::PI
|
38
|
+
0.0, Math.cos(Math::PI/6), -0.5, 0.0,
|
39
|
+
0.0, 0.5, Math.cos(Math::PI/6), 0.0,
|
40
40
|
0.0, 0.0, 0.0, 1.0] ))
|
41
41
|
end
|
42
42
|
end
|
@@ -44,19 +44,19 @@ describe 'NMatrix' do
|
|
44
44
|
|
45
45
|
context ".y_rotation" do
|
46
46
|
it "should generate a matrix representing a rotation about the y axis" do
|
47
|
-
y = NMatrix.y_rotation(Math::PI
|
48
|
-
expect(y).to be_within(1e-8).of(NMatrix.new([4,4], [Math.cos(Math::PI
|
47
|
+
y = NMatrix.y_rotation(Math::PI/6)
|
48
|
+
expect(y).to be_within(1e-8).of(NMatrix.new([4,4], [Math.cos(Math::PI/6), 0.0, 0.5, 0.0,
|
49
49
|
0.0, 1.0, 0.0, 0.0,
|
50
|
-
-0.5, 0.0, Math.cos(Math::PI
|
50
|
+
-0.5, 0.0, Math.cos(Math::PI/6), 0.0,
|
51
51
|
0.0, 0.0, 0.0, 1.0] ))
|
52
52
|
end
|
53
53
|
end
|
54
54
|
|
55
55
|
context ".z_rotation" do
|
56
56
|
it "should generate a matrix representing a rotation about the z axis" do
|
57
|
-
z = NMatrix.z_rotation(Math::PI
|
58
|
-
expect(z).to be_within(1e-8).of(NMatrix.new([4,4], [Math.cos(Math::PI
|
59
|
-
0.5, Math.cos(Math::PI
|
57
|
+
z = NMatrix.z_rotation(Math::PI/6)
|
58
|
+
expect(z).to be_within(1e-8).of(NMatrix.new([4,4], [Math.cos(Math::PI/6), -0.5, 0.0, 0.0,
|
59
|
+
0.5, Math.cos(Math::PI/6), 0.0, 0.0,
|
60
60
|
0.0, 0.0, 1.0, 0.0,
|
61
61
|
0.0, 0.0, 0.0, 1.0] ))
|
62
62
|
end
|
@@ -96,4 +96,4 @@ describe 'NMatrix' do
|
|
96
96
|
expect(Math.sqrt(q[0]**2 + q[1]**2 + q[2]**2 + q[3]**2)).to be_within(1e-6).of(1.0)
|
97
97
|
end
|
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98
|
end
|
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-
end
|
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+
end
|
@@ -0,0 +1,482 @@
|
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1
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+
# = NMatrix
|
2
|
+
#
|
3
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+
# A linear algebra library for scientific computation in Ruby.
|
4
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# NMatrix is part of SciRuby.
|
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#
|
6
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# NMatrix was originally inspired by and derived from NArray, by
|
7
|
+
# Masahiro Tanaka: http://narray.rubyforge.org
|
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|
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#
|
9
|
+
# == Copyright Information
|
10
|
+
#
|
11
|
+
# SciRuby is Copyright (c) 2010 - 2014, Ruby Science Foundation
|
12
|
+
# NMatrix is Copyright (c) 2012 - 2014, John Woods and the Ruby Science Foundation
|
13
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+
#
|
14
|
+
# Please see LICENSE.txt for additional copyright notices.
|
15
|
+
#
|
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+
# == Contributing
|
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+
#
|
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+
# By contributing source code to SciRuby, you agree to be bound by
|
19
|
+
# our Contributor Agreement:
|
20
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+
#
|
21
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+
# * https://github.com/SciRuby/sciruby/wiki/Contributor-Agreement
|
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+
#
|
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+
# == lapack_core_spec.rb
|
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+
#
|
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# Tests for LAPACK functions that have internal implementations (i.e. they
|
26
|
+
# don't rely on external libraries) and also functions that are implemented
|
27
|
+
# by both nmatrix-atlas and nmatrix-lapacke. These tests will also be run for the
|
28
|
+
# plugins that do use external libraries, since they will override the
|
29
|
+
# internal implmentations.
|
30
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+
#
|
31
|
+
|
32
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+
require 'spec_helper'
|
33
|
+
|
34
|
+
describe "NMatrix::LAPACK functions with internal implementations" do
|
35
|
+
# where integer math is allowed
|
36
|
+
[:byte, :int8, :int16, :int32, :int64, :float32, :float64, :complex64, :complex128].each do |dtype|
|
37
|
+
context dtype do
|
38
|
+
# This spec seems a little weird. It looks like laswp ignores the last
|
39
|
+
# element of piv, though maybe I misunderstand smth. It would make
|
40
|
+
# more sense if piv were [2,1,3,3]
|
41
|
+
it "exposes clapack laswp" do
|
42
|
+
a = NMatrix.new(:dense, [3,4], [1,2,3,4,5,6,7,8,9,10,11,12], dtype)
|
43
|
+
NMatrix::LAPACK::clapack_laswp(3, a, 4, 0, 3, [2,1,3,0], 1)
|
44
|
+
b = NMatrix.new(:dense, [3,4], [3,2,4,1,7,6,8,5,11,10,12,9], dtype)
|
45
|
+
expect(a).to eq(b)
|
46
|
+
end
|
47
|
+
|
48
|
+
# This spec is OK, because the default behavior for permute_columns
|
49
|
+
# is :intuitive, which is different from :lapack (default laswp behavior)
|
50
|
+
it "exposes NMatrix#permute_columns and #permute_columns! (user-friendly laswp)" do
|
51
|
+
a = NMatrix.new(:dense, [3,4], [1,2,3,4,5,6,7,8,9,10,11,12], dtype)
|
52
|
+
b = NMatrix.new(:dense, [3,4], [3,2,4,1,7,6,8,5,11,10,12,9], dtype)
|
53
|
+
piv = [2,1,3,0]
|
54
|
+
r = a.permute_columns(piv)
|
55
|
+
expect(r).not_to eq(a)
|
56
|
+
expect(r).to eq(b)
|
57
|
+
a.permute_columns!(piv)
|
58
|
+
expect(a).to eq(b)
|
59
|
+
end
|
60
|
+
end
|
61
|
+
end
|
62
|
+
|
63
|
+
# where integer math is not allowed
|
64
|
+
[:float32, :float64, :complex64, :complex128].each do |dtype|
|
65
|
+
context dtype do
|
66
|
+
|
67
|
+
# clapack_getrf performs a LU decomposition, but unlike the
|
68
|
+
# standard LAPACK getrf, it's the upper matrix that has unit diagonals
|
69
|
+
# and the permutation is done in columns not rows. See the code for
|
70
|
+
# details.
|
71
|
+
# Also the rows in the pivot vector are indexed starting from 0,
|
72
|
+
# rather than 1 as in LAPACK
|
73
|
+
it "calculates LU decomposition using clapack_getrf (row-major, square)" do
|
74
|
+
a = NMatrix.new(3, [4,9,2,3,5,7,8,1,6], dtype: dtype)
|
75
|
+
ipiv = NMatrix::LAPACK::clapack_getrf(:row, a.shape[0], a.shape[1], a, a.shape[1])
|
76
|
+
b = NMatrix.new(3,[9, 2.0/9, 4.0/9,
|
77
|
+
5, 53.0/9, 7.0/53,
|
78
|
+
1, 52.0/9, 360.0/53], dtype: dtype)
|
79
|
+
ipiv_true = [1,2,2]
|
80
|
+
|
81
|
+
# delta varies for different dtypes
|
82
|
+
err = case dtype
|
83
|
+
when :float32, :complex64
|
84
|
+
1e-6
|
85
|
+
when :float64, :complex128
|
86
|
+
1e-15
|
87
|
+
end
|
88
|
+
|
89
|
+
expect(a).to be_within(err).of(b)
|
90
|
+
expect(ipiv).to eq(ipiv_true)
|
91
|
+
end
|
92
|
+
|
93
|
+
it "calculates LU decomposition using clapack_getrf (row-major, rectangular)" do
|
94
|
+
a = NMatrix.new([3,4], GETRF_EXAMPLE_ARRAY, dtype: dtype)
|
95
|
+
ipiv = NMatrix::LAPACK::clapack_getrf(:row, a.shape[0], a.shape[1], a, a.shape[1])
|
96
|
+
#we can't use GETRF_SOLUTION_ARRAY here, because of the different
|
97
|
+
#conventions of clapack_getrf
|
98
|
+
b = NMatrix.new([3,4],[10.0, -0.1, 0.0, 0.4,
|
99
|
+
3.0, 9.3, 20.0/93, 38.0/93,
|
100
|
+
1.0, 7.1, 602.0/93, 251.0/602], dtype: dtype)
|
101
|
+
ipiv_true = [2,2,2]
|
102
|
+
|
103
|
+
# delta varies for different dtypes
|
104
|
+
err = case dtype
|
105
|
+
when :float32, :complex64
|
106
|
+
1e-6
|
107
|
+
when :float64, :complex128
|
108
|
+
1e-15
|
109
|
+
end
|
110
|
+
|
111
|
+
expect(a).to be_within(err).of(b)
|
112
|
+
expect(ipiv).to eq(ipiv_true)
|
113
|
+
end
|
114
|
+
|
115
|
+
#Normally we wouldn't check column-major routines, since all our matrices
|
116
|
+
#are row-major, but we use the column-major version in #getrf!, so we
|
117
|
+
#want to test it here.
|
118
|
+
it "calculates LU decomposition using clapack_getrf (col-major, rectangular)" do
|
119
|
+
#this is supposed to represent the 3x2 matrix
|
120
|
+
# -1 2
|
121
|
+
# 0 3
|
122
|
+
# 1 -2
|
123
|
+
a = NMatrix.new([1,6], [-1,0,1,2,3,-2], dtype: dtype)
|
124
|
+
ipiv = NMatrix::LAPACK::clapack_getrf(:col, 3, 2, a, 3)
|
125
|
+
b = NMatrix.new([1,6], [-1,0,-1,2,3,0], dtype: dtype)
|
126
|
+
ipiv_true = [0,1]
|
127
|
+
|
128
|
+
# delta varies for different dtypes
|
129
|
+
err = case dtype
|
130
|
+
when :float32, :complex64
|
131
|
+
1e-6
|
132
|
+
when :float64, :complex128
|
133
|
+
1e-15
|
134
|
+
end
|
135
|
+
|
136
|
+
expect(a).to be_within(err).of(b)
|
137
|
+
expect(ipiv).to eq(ipiv_true)
|
138
|
+
end
|
139
|
+
|
140
|
+
it "calculates LU decomposition using #getrf! (rectangular)" do
|
141
|
+
a = NMatrix.new([3,4], GETRF_EXAMPLE_ARRAY, dtype: dtype)
|
142
|
+
ipiv = a.getrf!
|
143
|
+
b = NMatrix.new([3,4], GETRF_SOLUTION_ARRAY, dtype: dtype)
|
144
|
+
ipiv_true = [2,3,3]
|
145
|
+
|
146
|
+
# delta varies for different dtypes
|
147
|
+
err = case dtype
|
148
|
+
when :float32, :complex64
|
149
|
+
1e-6
|
150
|
+
when :float64, :complex128
|
151
|
+
1e-14
|
152
|
+
end
|
153
|
+
|
154
|
+
expect(a).to be_within(err).of(b)
|
155
|
+
expect(ipiv).to eq(ipiv_true)
|
156
|
+
end
|
157
|
+
|
158
|
+
it "calculates LU decomposition using #getrf! (square)" do
|
159
|
+
a = NMatrix.new([4,4], [0,1,2,3, 1,1,1,1, 0,-1,-2,0, 0,2,0,2], dtype: dtype)
|
160
|
+
ipiv = a.getrf!
|
161
|
+
|
162
|
+
b = NMatrix.new([4,4], [1,1,1,1, 0,2,0,2, 0,-0.5,-2,1, 0,0.5,-1,3], dtype: dtype)
|
163
|
+
ipiv_true = [2,4,3,4]
|
164
|
+
|
165
|
+
expect(a).to eq(b)
|
166
|
+
expect(ipiv).to eq(ipiv_true)
|
167
|
+
end
|
168
|
+
|
169
|
+
# Together, these calls are basically xGESV from LAPACK: http://www.netlib.org/lapack/double/dgesv.f
|
170
|
+
it "exposes clapack_getrs" do
|
171
|
+
a = NMatrix.new(3, [-2,4,-3, 3,-2,1, 0,-4,3], dtype: dtype)
|
172
|
+
ipiv = NMatrix::LAPACK::clapack_getrf(:row, 3, 3, a, 3)
|
173
|
+
b = NMatrix.new([3,1], [-1, 17, -9], dtype: dtype)
|
174
|
+
|
175
|
+
NMatrix::LAPACK::clapack_getrs(:row, false, 3, 1, a, 3, ipiv, b, 3)
|
176
|
+
|
177
|
+
expect(b[0]).to eq(5)
|
178
|
+
expect(b[1]).to eq(-15.0/2)
|
179
|
+
expect(b[2]).to eq(-13)
|
180
|
+
end
|
181
|
+
|
182
|
+
it "solves matrix equation (non-vector rhs) using clapack_getrs" do
|
183
|
+
a = NMatrix.new(3, [-2,4,-3, 3,-2,1, 0,-4,3], dtype: dtype)
|
184
|
+
b = NMatrix.new([3,2], [-1,2, 17,1, -9,-4], dtype: dtype)
|
185
|
+
|
186
|
+
n = a.shape[0]
|
187
|
+
nrhs = b.shape[1]
|
188
|
+
|
189
|
+
ipiv = NMatrix::LAPACK::clapack_getrf(:row, n, n, a, n)
|
190
|
+
# Even though we pass :row to clapack_getrs, it still interprets b as
|
191
|
+
# column-major, so need to transpose b before and after:
|
192
|
+
b = b.transpose
|
193
|
+
NMatrix::LAPACK::clapack_getrs(:row, false, n, nrhs, a, n, ipiv, b, n)
|
194
|
+
b = b.transpose
|
195
|
+
|
196
|
+
b_true = NMatrix.new([3,2], [5,1, -7.5,1, -13,0], dtype: dtype)
|
197
|
+
expect(b).to eq(b_true)
|
198
|
+
end
|
199
|
+
|
200
|
+
#posv is like potrf+potrs
|
201
|
+
#posv is implemented in both nmatrix-atlas and nmatrix-lapacke, so the spec
|
202
|
+
#needs to be shared here
|
203
|
+
it "solves a (symmetric positive-definite) matrix equation using posv (vector rhs)" do
|
204
|
+
a = NMatrix.new(3, [4, 0,-1,
|
205
|
+
0, 2, 1,
|
206
|
+
0, 0, 1], dtype: dtype)
|
207
|
+
b = NMatrix.new([3,1], [4,2,0], dtype: dtype)
|
208
|
+
|
209
|
+
begin
|
210
|
+
x = NMatrix::LAPACK::posv(:upper, a, b)
|
211
|
+
rescue NotImplementedError => e
|
212
|
+
pending e.to_s
|
213
|
+
end
|
214
|
+
|
215
|
+
x_true = NMatrix.new([3,1], [1, 1, 0], dtype: dtype)
|
216
|
+
|
217
|
+
err = case dtype
|
218
|
+
when :float32, :complex64
|
219
|
+
1e-5
|
220
|
+
when :float64, :complex128
|
221
|
+
1e-14
|
222
|
+
end
|
223
|
+
|
224
|
+
expect(x).to be_within(err).of(x_true)
|
225
|
+
end
|
226
|
+
|
227
|
+
it "solves a (symmetric positive-definite) matrix equation using posv (non-vector rhs)" do
|
228
|
+
a = NMatrix.new(3, [4, 0,-1,
|
229
|
+
0, 2, 1,
|
230
|
+
0, 0, 1], dtype: dtype)
|
231
|
+
b = NMatrix.new([3,2], [4,-1, 2,-1, 0,0], dtype: dtype)
|
232
|
+
|
233
|
+
begin
|
234
|
+
x = NMatrix::LAPACK::posv(:upper, a, b)
|
235
|
+
rescue NotImplementedError => e
|
236
|
+
pending e.to_s
|
237
|
+
end
|
238
|
+
|
239
|
+
x_true = NMatrix.new([3,2], [1,0, 1,-1, 0,1], dtype: dtype)
|
240
|
+
|
241
|
+
err = case dtype
|
242
|
+
when :float32, :complex64
|
243
|
+
1e-5
|
244
|
+
when :float64, :complex128
|
245
|
+
1e-14
|
246
|
+
end
|
247
|
+
|
248
|
+
expect(x).to be_within(err).of(x_true)
|
249
|
+
end
|
250
|
+
|
251
|
+
it "calculates the singular value decomposition with NMatrix#gesvd" do
|
252
|
+
#example from Wikipedia
|
253
|
+
m = 4
|
254
|
+
n = 5
|
255
|
+
mn_min = [m,n].min
|
256
|
+
a = NMatrix.new([m,n],[1,0,0,0,2, 0,0,3,0,0, 0,0,0,0,0, 0,4,0,0,0], dtype: dtype)
|
257
|
+
|
258
|
+
begin
|
259
|
+
u, s, vt = a.gesvd
|
260
|
+
rescue NotImplementedError => e
|
261
|
+
pending e.to_s
|
262
|
+
end
|
263
|
+
|
264
|
+
s_true = NMatrix.new([mn_min,1], [4,3,Math.sqrt(5),0], dtype: a.abs_dtype)
|
265
|
+
u_true = NMatrix.new([m,m], [0,0,1,0, 0,1,0,0, 0,0,0,-1, 1,0,0,0], dtype: dtype)
|
266
|
+
vt_true = NMatrix.new([n,n], [0,1,0,0,0, 0,0,1,0,0, Math.sqrt(0.2),0,0,0,Math.sqrt(0.8), 0,0,0,1,0, -Math.sqrt(0.8),0,0,0,Math.sqrt(0.2)], dtype: dtype)
|
267
|
+
|
268
|
+
err = case dtype
|
269
|
+
when :float32, :complex64
|
270
|
+
1e-5
|
271
|
+
when :float64, :complex128
|
272
|
+
1e-14
|
273
|
+
end
|
274
|
+
|
275
|
+
expect(s).to be_within(err).of(s_true)
|
276
|
+
expect(u).to be_within(err).of(u_true)
|
277
|
+
expect(vt).to be_within(err).of(vt_true)
|
278
|
+
|
279
|
+
expect(s.dtype).to eq(a.abs_dtype)
|
280
|
+
expect(u.dtype).to eq(dtype)
|
281
|
+
expect(vt.dtype).to eq(dtype)
|
282
|
+
end
|
283
|
+
|
284
|
+
it "calculates the singular value decomposition with NMatrix#gesdd" do
|
285
|
+
#example from Wikipedia
|
286
|
+
m = 4
|
287
|
+
n = 5
|
288
|
+
mn_min = [m,n].min
|
289
|
+
a = NMatrix.new([m,n],[1,0,0,0,2, 0,0,3,0,0, 0,0,0,0,0, 0,4,0,0,0], dtype: dtype)
|
290
|
+
|
291
|
+
begin
|
292
|
+
u, s, vt = a.gesdd
|
293
|
+
rescue NotImplementedError => e
|
294
|
+
pending e.to_s
|
295
|
+
end
|
296
|
+
|
297
|
+
s_true = NMatrix.new([mn_min,1], [4,3,Math.sqrt(5),0], dtype: a.abs_dtype)
|
298
|
+
u_true = NMatrix.new([m,m], [0,0,1,0, 0,1,0,0, 0,0,0,-1, 1,0,0,0], dtype: dtype)
|
299
|
+
vt_true = NMatrix.new([n,n], [0,1,0,0,0, 0,0,1,0,0, Math.sqrt(0.2),0,0,0,Math.sqrt(0.8), 0,0,0,1,0, -Math.sqrt(0.8),0,0,0,Math.sqrt(0.2)], dtype: dtype)
|
300
|
+
|
301
|
+
err = case dtype
|
302
|
+
when :float32, :complex64
|
303
|
+
1e-5
|
304
|
+
when :float64, :complex128
|
305
|
+
1e-14
|
306
|
+
end
|
307
|
+
|
308
|
+
expect(s).to be_within(err).of(s_true)
|
309
|
+
expect(u).to be_within(err).of(u_true)
|
310
|
+
expect(vt).to be_within(err).of(vt_true)
|
311
|
+
end
|
312
|
+
|
313
|
+
|
314
|
+
it "calculates eigenvalues and eigenvectors NMatrix::LAPACK.geev (real matrix, complex eigenvalues)" do
|
315
|
+
n = 3
|
316
|
+
a = NMatrix.new([n,n], [-1,0,0, 0,1,-2, 0,1,-1], dtype: dtype)
|
317
|
+
|
318
|
+
begin
|
319
|
+
eigenvalues, vl, vr = NMatrix::LAPACK.geev(a)
|
320
|
+
rescue NotImplementedError => e
|
321
|
+
pending e.to_s
|
322
|
+
end
|
323
|
+
|
324
|
+
eigenvalues_true = NMatrix.new([n,1], [Complex(0,1), -Complex(0,1), -1], dtype: NMatrix.upcast(dtype, :complex64))
|
325
|
+
vr_true = NMatrix.new([n,n],[0,0,1,
|
326
|
+
2/Math.sqrt(6),2/Math.sqrt(6),0,
|
327
|
+
Complex(1,-1)/Math.sqrt(6),Complex(1,1)/Math.sqrt(6),0], dtype: NMatrix.upcast(dtype, :complex64))
|
328
|
+
vl_true = NMatrix.new([n,n],[0,0,1,
|
329
|
+
Complex(-1,1)/Math.sqrt(6),Complex(-1,-1)/Math.sqrt(6),0,
|
330
|
+
2/Math.sqrt(6),2/Math.sqrt(6),0], dtype: NMatrix.upcast(dtype, :complex64))
|
331
|
+
|
332
|
+
err = case dtype
|
333
|
+
when :float32, :complex64
|
334
|
+
1e-6
|
335
|
+
when :float64, :complex128
|
336
|
+
1e-15
|
337
|
+
end
|
338
|
+
|
339
|
+
expect(eigenvalues).to be_within(err).of(eigenvalues_true)
|
340
|
+
expect(vr).to be_within(err).of(vr_true)
|
341
|
+
expect(vl).to be_within(err).of(vl_true)
|
342
|
+
|
343
|
+
expect(eigenvalues.dtype).to eq(NMatrix.upcast(dtype, :complex64))
|
344
|
+
expect(vr.dtype).to eq(NMatrix.upcast(dtype, :complex64))
|
345
|
+
expect(vl.dtype).to eq(NMatrix.upcast(dtype, :complex64))
|
346
|
+
end
|
347
|
+
|
348
|
+
it "calculates eigenvalues and eigenvectors NMatrix::LAPACK.geev (real matrix, real eigenvalues)" do
|
349
|
+
n = 3
|
350
|
+
a = NMatrix.new([n,n], [2,0,0, 0,3,2, 0,1,2], dtype: dtype)
|
351
|
+
|
352
|
+
begin
|
353
|
+
eigenvalues, vl, vr = NMatrix::LAPACK.geev(a)
|
354
|
+
rescue NotImplementedError => e
|
355
|
+
pending e.to_s
|
356
|
+
end
|
357
|
+
|
358
|
+
eigenvalues_true = NMatrix.new([n,1], [1, 4, 2], dtype: dtype)
|
359
|
+
|
360
|
+
# For some reason, some of the eigenvectors have different signs
|
361
|
+
# when we use the complex versions of geev. This is totally fine, since
|
362
|
+
# they are still normalized eigenvectors even with the sign flipped.
|
363
|
+
if a.complex_dtype?
|
364
|
+
vr_true = NMatrix.new([n,n],[0,0,1,
|
365
|
+
1/Math.sqrt(2),2/Math.sqrt(5),0,
|
366
|
+
-1/Math.sqrt(2),1/Math.sqrt(5),0], dtype: dtype)
|
367
|
+
vl_true = NMatrix.new([n,n],[0,0,1,
|
368
|
+
-1/Math.sqrt(5),1/Math.sqrt(2),0,
|
369
|
+
2/Math.sqrt(5),1/Math.sqrt(2),0], dtype: dtype)
|
370
|
+
else
|
371
|
+
vr_true = NMatrix.new([n,n],[0,0,1,
|
372
|
+
1/Math.sqrt(2),-2/Math.sqrt(5),0,
|
373
|
+
-1/Math.sqrt(2),-1/Math.sqrt(5),0], dtype: dtype)
|
374
|
+
vl_true = NMatrix.new([n,n],[0,0,1,
|
375
|
+
1/Math.sqrt(5),-1/Math.sqrt(2),0,
|
376
|
+
-2/Math.sqrt(5),-1/Math.sqrt(2),0], dtype: dtype)
|
377
|
+
end
|
378
|
+
|
379
|
+
err = case dtype
|
380
|
+
when :float32, :complex64
|
381
|
+
1e-6
|
382
|
+
when :float64, :complex128
|
383
|
+
1e-15
|
384
|
+
end
|
385
|
+
|
386
|
+
expect(eigenvalues).to be_within(err).of(eigenvalues_true)
|
387
|
+
expect(vr).to be_within(err).of(vr_true)
|
388
|
+
expect(vl).to be_within(err).of(vl_true)
|
389
|
+
|
390
|
+
expect(eigenvalues.dtype).to eq(dtype)
|
391
|
+
expect(vr.dtype).to eq(dtype)
|
392
|
+
expect(vl.dtype).to eq(dtype)
|
393
|
+
end
|
394
|
+
|
395
|
+
it "calculates eigenvalues and eigenvectors NMatrix::LAPACK.geev (left eigenvectors only)" do
|
396
|
+
n = 3
|
397
|
+
a = NMatrix.new([n,n], [-1,0,0, 0,1,-2, 0,1,-1], dtype: dtype)
|
398
|
+
|
399
|
+
begin
|
400
|
+
eigenvalues, vl = NMatrix::LAPACK.geev(a, :left)
|
401
|
+
rescue NotImplementedError => e
|
402
|
+
pending e.to_s
|
403
|
+
end
|
404
|
+
|
405
|
+
eigenvalues_true = NMatrix.new([n,1], [Complex(0,1), -Complex(0,1), -1], dtype: NMatrix.upcast(dtype, :complex64))
|
406
|
+
vl_true = NMatrix.new([n,n],[0,0,1,
|
407
|
+
Complex(-1,1)/Math.sqrt(6),Complex(-1,-1)/Math.sqrt(6),0,
|
408
|
+
2/Math.sqrt(6),2/Math.sqrt(6),0], dtype: NMatrix.upcast(dtype, :complex64))
|
409
|
+
|
410
|
+
err = case dtype
|
411
|
+
when :float32, :complex64
|
412
|
+
1e-6
|
413
|
+
when :float64, :complex128
|
414
|
+
1e-15
|
415
|
+
end
|
416
|
+
|
417
|
+
expect(eigenvalues).to be_within(err).of(eigenvalues_true)
|
418
|
+
expect(vl).to be_within(err).of(vl_true)
|
419
|
+
end
|
420
|
+
|
421
|
+
it "calculates eigenvalues and eigenvectors NMatrix::LAPACK.geev (right eigenvectors only)" do
|
422
|
+
n = 3
|
423
|
+
a = NMatrix.new([n,n], [-1,0,0, 0,1,-2, 0,1,-1], dtype: dtype)
|
424
|
+
|
425
|
+
begin
|
426
|
+
eigenvalues, vr = NMatrix::LAPACK.geev(a, :right)
|
427
|
+
rescue NotImplementedError => e
|
428
|
+
pending e.to_s
|
429
|
+
end
|
430
|
+
|
431
|
+
eigenvalues_true = NMatrix.new([n,1], [Complex(0,1), -Complex(0,1), -1], dtype: NMatrix.upcast(dtype, :complex64))
|
432
|
+
vr_true = NMatrix.new([n,n],[0,0,1,
|
433
|
+
2/Math.sqrt(6),2/Math.sqrt(6),0,
|
434
|
+
Complex(1,-1)/Math.sqrt(6),Complex(1,1)/Math.sqrt(6),0], dtype: NMatrix.upcast(dtype, :complex64))
|
435
|
+
|
436
|
+
err = case dtype
|
437
|
+
when :float32, :complex64
|
438
|
+
1e-6
|
439
|
+
when :float64, :complex128
|
440
|
+
1e-15
|
441
|
+
end
|
442
|
+
|
443
|
+
expect(eigenvalues).to be_within(err).of(eigenvalues_true)
|
444
|
+
expect(vr).to be_within(err).of(vr_true)
|
445
|
+
end
|
446
|
+
end
|
447
|
+
end
|
448
|
+
|
449
|
+
[:complex64, :complex128].each do |dtype|
|
450
|
+
context dtype do
|
451
|
+
it "calculates eigenvalues and eigenvectors NMatrix::LAPACK.geev (complex matrix)" do
|
452
|
+
n = 3
|
453
|
+
a = NMatrix.new([n,n], [Complex(0,1),0,0, 0,3,2, 0,1,2], dtype: dtype)
|
454
|
+
|
455
|
+
begin
|
456
|
+
eigenvalues, vl, vr = NMatrix::LAPACK.geev(a)
|
457
|
+
rescue NotImplementedError => e
|
458
|
+
pending e.to_s
|
459
|
+
end
|
460
|
+
|
461
|
+
eigenvalues_true = NMatrix.new([n,1], [1, 4, Complex(0,1)], dtype: dtype)
|
462
|
+
vr_true = NMatrix.new([n,n],[0,0,1,
|
463
|
+
1/Math.sqrt(2),2/Math.sqrt(5),0,
|
464
|
+
-1/Math.sqrt(2),1/Math.sqrt(5),0], dtype: dtype)
|
465
|
+
vl_true = NMatrix.new([n,n],[0,0,1,
|
466
|
+
-1/Math.sqrt(5),1/Math.sqrt(2),0,
|
467
|
+
2/Math.sqrt(5),1/Math.sqrt(2),0], dtype: dtype)
|
468
|
+
|
469
|
+
err = case dtype
|
470
|
+
when :float32, :complex64
|
471
|
+
1e-6
|
472
|
+
when :float64, :complex128
|
473
|
+
1e-15
|
474
|
+
end
|
475
|
+
|
476
|
+
expect(eigenvalues).to be_within(err).of(eigenvalues_true)
|
477
|
+
expect(vr).to be_within(err).of(vr_true)
|
478
|
+
expect(vl).to be_within(err).of(vl_true)
|
479
|
+
end
|
480
|
+
end
|
481
|
+
end
|
482
|
+
end
|