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[matrix] Annotation of /pkg/tests/indexing.R
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Annotation of /pkg/tests/indexing.R

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1 : maechler 687 #### For both 'Extract' ("[") and 'Replace' ("[<-") Method testing
2 :    
3 :     library(Matrix)
4 :    
5 : maechler 907 source(system.file("test-tools.R", package = "Matrix"))# identical3() etc
6 : maechler 687
7 : maechler 873 ### Dense Matrices
8 :    
9 : maechler 687 m <- Matrix(1:28, nrow = 7)
10 : maechler 873 validObject(m) ; m@x <- as.double(m@x) ; validObject(m)
11 :     stopifnot(identical(m, m[]),
12 :     identical(m[2, 3], 16), # simple number
13 :     identical(m[2, 3:4], c(16,23))) # simple numeric of length 2
14 : maechler 687
15 : maechler 873 m[2, 3:4, drop=FALSE] # sub matrix of class 'dgeMatrix'
16 :     m[-(4:7), 3:4] # dito; the upper right corner of 'm'
17 : maechler 687
18 : maechler 873 ## rows or columns only:
19 :     m[1,] # first row, as simple numeric vector
20 :     m[,2] # 2nd column
21 :     m[,1:2] # sub matrix of first two columns
22 :     m[-(1:6),, drop=FALSE] # not the first 6 rows, i.e. only the 7th
23 : maechler 1331 m[integer(0),] #-> 0 x 4 Matrix
24 :     m[2:4, numeric(0)] #-> 3 x 0 Matrix
25 : maechler 687
26 : maechler 873 ## logical indexing
27 :     stopifnot(identical(m[2,3], m[(1:nrow(m)) == 2, (1:ncol(m)) == 3]),
28 :     identical(m[2,], m[(1:nrow(m)) == 2, ]),
29 :     identical(m[,3:4], m[, (1:4) >= 3]))
30 :    
31 : maechler 886 ## dimnames indexing:
32 :     mn <- m
33 :     dimnames(mn) <- list(paste("r",letters[1:nrow(mn)],sep=""),
34 :     LETTERS[1:ncol(mn)])
35 :     mn["rd", "D"]
36 : maechler 1226 stopifnot(identical(mn["rc", "D"], mn[3,4]), mn[3,4] == 24,
37 :     identical(mn[, "A"], mn[,1]), mn[,1] == 1:7,
38 : maechler 886 identical(mn[c("re", "rb"), "B"], mn[c(5,2), 2])
39 :     )
40 : maechler 873
41 : maechler 886 mo <- m
42 :     m[2,3] <- 100
43 :     m[1:2, 4] <- 200
44 :     m[, 1] <- -1
45 :     m[1:3,]
46 :    
47 : maechler 1226 g10 <- m [ m > 10 ]
48 :     stopifnot(18 == length(g10))
49 : maechler 1362 ## needs R >= 2.3.0 [Buglet in R(<= 2.2.1)'s possibleExtends()]:
50 :     stopifnot(10 == length(m[ m <= 10 ]))
51 : maechler 873
52 :    
53 : maechler 1226 ### Sparse Matrices --------------------------------------
54 : maechler 687
55 :     m <- 1:800
56 :     set.seed(101) ; m[sample(800, 600)] <- 0
57 :     m <- Matrix(m, nrow = 40)
58 :     mm <- as(m, "matrix")
59 :     dimnames(mm) <- NULL ## << workaround: as(<sparse>, "matrix") has NULL dimnames
60 :     str(mC <- as(m, "dgCMatrix"))
61 :     str(mT <- as(m, "dgTMatrix"))
62 :     stopifnot(identical(mT, as(mC, "dgTMatrix")),
63 :     identical(mC, as(mT, "dgCMatrix")))
64 :    
65 :     mC[,1]
66 :     mC[1:2,]
67 : maechler 925 mC[7, drop = FALSE]
68 : maechler 1226 assert.EQ.mat(mC[1:2,], mm[1:2,])
69 :     stopifnot(all.equal(mC[,3], mm[,3]))
70 :     assert.EQ.mat(mC[7, , drop=FALSE], mm[7, , drop=FALSE])
71 :    
72 : maechler 1331 stopifnot(dim(mC[numeric(0), ]) == c(0,20), # used to give warnings
73 :     dim(mC[, integer(0)]) == c(40,0),
74 :     identical(mC[, integer(0)], mC[, FALSE]),
75 :     identical(mC[7, drop = FALSE],
76 : maechler 925 mC[7,, drop = FALSE]))
77 : maechler 1269 validObject(print(mT[,c(2,4)]))
78 :     stopifnot(all.equal(mT[2,], mm[2,]),
79 :     ## row or column indexing in combination with t() :
80 :     identical(mT[2,], t(mT)[,2]),
81 :     identical(mT[-2,], t(t(mT)[,-2])),
82 :     identical(mT[c(2,5),], t(t(mT)[,c(2,5)]))
83 :     )
84 : maechler 1226 assert.EQ.mat(mT[4,, drop = FALSE], mm[4,, drop = FALSE])
85 : maechler 687 stopifnot(identical3(mm[,1], mC[,1], mT[,1]),
86 :     identical3(mm[3,], mC[3,], mT[3,]),
87 :     identical3(mT[2,3], mC[2,3], 0),
88 :     identical(mT[], mT),
89 : maechler 925 ## TODO: identical4() with m[c(3,7), 2:4] - fail because of 'dimnames'
90 : bates 1367 ## TODO: identical3() with as(mC[c(3,7), 2:4],"matrix"),
91 :     ## fails because of 'dimnames'
92 :     identical(mm[c(3,7), 2:4], as(mT[c(3,7), 2:4],"matrix"))
93 :     )
94 : maechler 687
95 : maechler 1331 x.x <- crossprod(mC)
96 :     stopifnot(class(x.x) == "dsCMatrix",
97 :     class(x.x. <- round(x.x / 10000)) == "dsCMatrix")
98 :     head(x.x.) # Note the *non*-structural 0's printed as "0"
99 : maechler 1362 ## FIXME (once we require 2.4.x or higher):
100 :     ## tail(x.x., -2) # the last two lines
101 : maechler 1331
102 :     lx.x <- as(x.x, "lsCMatrix") # FALSE only for "structural" 0
103 :     if(FALSE) { ## FIXME: needs coercion "lsCMatrix" to "lgTMatrix"
104 :     lx.x[1:10, 1:10]
105 :     lx.x[1:3, ]
106 :     }
107 :    
108 : maechler 925 ## --- negative indices ----------
109 :     mc <- mC[1:5, 1:7]
110 :     mt <- mT[1:5, 1:7]
111 :     ## sub matrix
112 : maechler 1226 assert.EQ.mat(mC[1:2, 0:3], mm[1:2, 0:3]) # test 0-index
113 : maechler 925 stopifnot(identical(mc[-(3:5), 0:2], mC[1:2, 0:2]),
114 : maechler 1226 identical(mt[-(3:5), 0:2], mT[1:2, 0:2]),
115 :     identical(mC[2:3, 4], mm[2:3, 4]))
116 :     assert.EQ.mat(mC[1:2,], mm[1:2,])
117 : maechler 925 ## sub vector
118 :     stopifnot(identical4(mc[-(1:4), ], mC[5, 1:7],
119 :     mt[-(1:4), ], mT[5, 1:7]))
120 :     stopifnot(identical4(mc[-(1:4), -(2:4)], mC[5, c(1,5:7)],
121 :     mt[-(1:4), -(2:4)], mT[5, c(1,5:7)]))
122 :    
123 :     ## mixing of negative and positive must give error
124 :     assertError(mT[-1:1,])
125 :    
126 : maechler 1226 ## Sub *Assignment* ---- now works (partially):
127 :     mt0 <- mt
128 :     mt[1, 4] <- -99
129 :     mt[2:3, 1:6] <- 0
130 :     mt
131 :     m2 <- mt+mt
132 :     m2[1,4] <- -200
133 :     m2[c(1,3), c(5:6,2)] <- 1:6
134 :     stopifnot(m2[1,4] == -200,
135 :     as.vector(m2[c(1,3), c(5:6,2)]) == 1:6)
136 :     mt[,3] <- 30
137 :     mt[2:3,] <- 250
138 :     mt[1:5 %% 2 == 1, 3] <- 0
139 :     mt[3:1, 1:7 > 5] <- 0
140 :     mt
141 : maechler 1215
142 : maechler 1226 tt <- as(mt,"matrix")
143 :     ii <- c(0,2,5)
144 :     jj <- c(2:3,5)
145 :     tt[ii, jj] <- 1:6 # 0 is just "dropped"
146 :     mt[ii, jj] <- 1:6
147 :     assert.EQ.mat(mt, tt)
148 : maechler 1215
149 : maechler 1226 mt[1:5, 2:6]
150 :     as((mt0 - mt)[1:5,], "dsparseMatrix")# [1,5] and lines 2:3
151 :    
152 : maechler 1315 mt[c(2,4), ] <- 0; stopifnot(as(mt[c(2,4), ],"matrix") == 0)
153 : maechler 1226 mt[2:3, 4:7] <- 33
154 :     validObject(mt)
155 :     mt
156 :    
157 : maechler 1315 mc[1,4] <- -99 ; stopifnot(mc[1,4] == -99)
158 :     mc[1,4] <- 00 ; stopifnot(mc[1,4] == 00)
159 :     mc[1,4] <- -99 ; stopifnot(mc[1,4] == -99)
160 :     mc[1:2,4:3] <- 4:1; stopifnot(as.matrix(mc[1:2,4:3]) == 4:1)
161 :    
162 :     ## Debugging: R bug -- debug(Matrix:::replCmat) has no effect
163 :    
164 : maechler 1226 mc[-1, 3] <- -2:1 # 0 should not be entered; 'value' recycled
165 :     mt[-1, 3] <- -2:1
166 : maechler 1315 stopifnot(mc@x != 0, mt@x != 0,
167 :     mc[-1,3] == -2:1, mt[-1,3] == -2:1) ##--> BUG -- fixed
168 :     ## source("~/R/Pkgs/Matrix/R/Tsparse.R")
169 :     ## Matrix_expand_pointers <- Matrix:::Matrix_expand_pointers
170 :     ## -> open ../R/dgCMatrix.R --> replCmat .. now eval-line by line ..
171 :    
172 :     ev <- 1:5 %% 2 == 0
173 :     mc[ev, 3] <- 0:1
174 :     ##FIXME stopifnot(mc[ev, 3] == 0:1) ##-> BUG {very peculiar; the 2nd time it works ...}
175 : maechler 1226 validObject(mc)
176 : maechler 1315 mc # now shows a non-structural zeros
177 : maechler 1226 mc[ii, jj] <- 1:6
178 :     mc[c(2,5), c(3,5)] <- 3.2
179 :     validObject(mc)
180 : maechler 1315 (m. <- mc)
181 :     ## FIXME: mc[4,] <- 0 # -> error -- another Bug
182 : maechler 1226
183 : maechler 1331 H <- Hilbert(9)
184 :     Hc <- as(round(H, 3), "dsCMatrix")
185 :     tril(Hc[1:5, 1:5])
186 :    
187 :     H[c(1:2, 4, 6:7), c(2:4,6)] <- 0
188 :     (H. <- round(as(H, "sparseMatrix"), 3)[ , 2:7])
189 :     Hc. <- Hc
190 : bates 1367 ## This assignment does not achieve the correct effect. replCmat should be changed.
191 : maechler 1331 Hc.[c(1:2, 4, 6:7), c(2:4,6)] <- 0
192 :     Hc.[, 1:6]
193 :    
194 : maechler 1226 cat('Time elapsed: ', proc.time(),'\n') # for ``statistical reasons''

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