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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 stopifnot(10 == length(m[ m <= 10 ]))
50 : maechler 1575 sel <- (20 < m) & (m < 150)
51 :     (ssel <- as(sel, "sparseMatrix"))
52 :     stopifnot(is(sel, "lMatrix"), is(ssel, "lsparseMatrix"),
53 :     identical( m[ ssel], as.matrix(m)[as.matrix( ssel)]),
54 :     identical( m[!ssel], as.matrix(m)[as.matrix(!ssel)])
55 :     )
56 : maechler 873
57 : maechler 1575 ## more sparse Matrices --------------------------------------
58 : maechler 873
59 : maechler 687 m <- 1:800
60 :     set.seed(101) ; m[sample(800, 600)] <- 0
61 :     m <- Matrix(m, nrow = 40)
62 :     mm <- as(m, "matrix")
63 :     dimnames(mm) <- NULL ## << workaround: as(<sparse>, "matrix") has NULL dimnames
64 :     str(mC <- as(m, "dgCMatrix"))
65 :     str(mT <- as(m, "dgTMatrix"))
66 :     stopifnot(identical(mT, as(mC, "dgTMatrix")),
67 :     identical(mC, as(mT, "dgCMatrix")))
68 :    
69 :     mC[,1]
70 :     mC[1:2,]
71 : maechler 925 mC[7, drop = FALSE]
72 : maechler 1226 assert.EQ.mat(mC[1:2,], mm[1:2,])
73 :     stopifnot(all.equal(mC[,3], mm[,3]))
74 :     assert.EQ.mat(mC[7, , drop=FALSE], mm[7, , drop=FALSE])
75 :    
76 : maechler 1331 stopifnot(dim(mC[numeric(0), ]) == c(0,20), # used to give warnings
77 :     dim(mC[, integer(0)]) == c(40,0),
78 :     identical(mC[, integer(0)], mC[, FALSE]),
79 :     identical(mC[7, drop = FALSE],
80 : maechler 925 mC[7,, drop = FALSE]))
81 : maechler 1269 validObject(print(mT[,c(2,4)]))
82 :     stopifnot(all.equal(mT[2,], mm[2,]),
83 :     ## row or column indexing in combination with t() :
84 :     identical(mT[2,], t(mT)[,2]),
85 :     identical(mT[-2,], t(t(mT)[,-2])),
86 :     identical(mT[c(2,5),], t(t(mT)[,c(2,5)]))
87 :     )
88 : maechler 1226 assert.EQ.mat(mT[4,, drop = FALSE], mm[4,, drop = FALSE])
89 : maechler 687 stopifnot(identical3(mm[,1], mC[,1], mT[,1]),
90 :     identical3(mm[3,], mC[3,], mT[3,]),
91 :     identical3(mT[2,3], mC[2,3], 0),
92 :     identical(mT[], mT),
93 : maechler 925 ## TODO: identical4() with m[c(3,7), 2:4] - fail because of 'dimnames'
94 : maechler 1374 ## TODO: identical3() with as(mC[c(3,7), 2:4],"matrix"),
95 : bates 1367 ## fails because of 'dimnames'
96 :     identical(mm[c(3,7), 2:4], as(mT[c(3,7), 2:4],"matrix"))
97 :     )
98 : maechler 687
99 : maechler 1331 x.x <- crossprod(mC)
100 :     stopifnot(class(x.x) == "dsCMatrix",
101 :     class(x.x. <- round(x.x / 10000)) == "dsCMatrix")
102 :     head(x.x.) # Note the *non*-structural 0's printed as "0"
103 : maechler 1575 tail(x.x., -3) # all but the first three lines
104 : maechler 1331
105 :     lx.x <- as(x.x, "lsCMatrix") # FALSE only for "structural" 0
106 :     if(FALSE) { ## FIXME: needs coercion "lsCMatrix" to "lgTMatrix"
107 :     lx.x[1:10, 1:10]
108 :     lx.x[1:3, ]
109 :     }
110 :    
111 : maechler 925 ## --- negative indices ----------
112 :     mc <- mC[1:5, 1:7]
113 :     mt <- mT[1:5, 1:7]
114 :     ## sub matrix
115 : maechler 1226 assert.EQ.mat(mC[1:2, 0:3], mm[1:2, 0:3]) # test 0-index
116 : maechler 925 stopifnot(identical(mc[-(3:5), 0:2], mC[1:2, 0:2]),
117 : maechler 1226 identical(mt[-(3:5), 0:2], mT[1:2, 0:2]),
118 :     identical(mC[2:3, 4], mm[2:3, 4]))
119 :     assert.EQ.mat(mC[1:2,], mm[1:2,])
120 : maechler 925 ## sub vector
121 :     stopifnot(identical4(mc[-(1:4), ], mC[5, 1:7],
122 :     mt[-(1:4), ], mT[5, 1:7]))
123 :     stopifnot(identical4(mc[-(1:4), -(2:4)], mC[5, c(1,5:7)],
124 :     mt[-(1:4), -(2:4)], mT[5, c(1,5:7)]))
125 :    
126 :     ## mixing of negative and positive must give error
127 :     assertError(mT[-1:1,])
128 :    
129 : maechler 1226 ## Sub *Assignment* ---- now works (partially):
130 :     mt0 <- mt
131 :     mt[1, 4] <- -99
132 :     mt[2:3, 1:6] <- 0
133 :     mt
134 :     m2 <- mt+mt
135 :     m2[1,4] <- -200
136 :     m2[c(1,3), c(5:6,2)] <- 1:6
137 :     stopifnot(m2[1,4] == -200,
138 :     as.vector(m2[c(1,3), c(5:6,2)]) == 1:6)
139 :     mt[,3] <- 30
140 :     mt[2:3,] <- 250
141 :     mt[1:5 %% 2 == 1, 3] <- 0
142 :     mt[3:1, 1:7 > 5] <- 0
143 :     mt
144 : maechler 1215
145 : maechler 1226 tt <- as(mt,"matrix")
146 :     ii <- c(0,2,5)
147 :     jj <- c(2:3,5)
148 :     tt[ii, jj] <- 1:6 # 0 is just "dropped"
149 :     mt[ii, jj] <- 1:6
150 :     assert.EQ.mat(mt, tt)
151 : maechler 1215
152 : maechler 1226 mt[1:5, 2:6]
153 :     as((mt0 - mt)[1:5,], "dsparseMatrix")# [1,5] and lines 2:3
154 :    
155 : maechler 1315 mt[c(2,4), ] <- 0; stopifnot(as(mt[c(2,4), ],"matrix") == 0)
156 : maechler 1226 mt[2:3, 4:7] <- 33
157 :     validObject(mt)
158 :     mt
159 :    
160 : maechler 1315 mc[1,4] <- -99 ; stopifnot(mc[1,4] == -99)
161 :     mc[1,4] <- 00 ; stopifnot(mc[1,4] == 00)
162 :     mc[1,4] <- -99 ; stopifnot(mc[1,4] == -99)
163 :     mc[1:2,4:3] <- 4:1; stopifnot(as.matrix(mc[1:2,4:3]) == 4:1)
164 :    
165 : maechler 1226 mc[-1, 3] <- -2:1 # 0 should not be entered; 'value' recycled
166 :     mt[-1, 3] <- -2:1
167 : maechler 1315 stopifnot(mc@x != 0, mt@x != 0,
168 :     mc[-1,3] == -2:1, mt[-1,3] == -2:1) ##--> BUG -- fixed
169 :    
170 :     ev <- 1:5 %% 2 == 0
171 :     mc[ev, 3] <- 0:1
172 : maechler 1374 if(FALSE)## FIXME
173 :     stopifnot(mc[ev, 3] == 0:1) ##-> BUG {very peculiar; the 2nd time it works ...}
174 : maechler 1226 validObject(mc)
175 : maechler 1315 mc # now shows a non-structural zeros
176 : maechler 1226 mc[ii, jj] <- 1:6
177 :     mc[c(2,5), c(3,5)] <- 3.2
178 :     validObject(mc)
179 : maechler 1315 (m. <- mc)
180 : maechler 1374 if(FALSE)## FIXME:
181 :     mc[4,] <- 0 # -> error -- another Bug
182 : maechler 1226
183 : maechler 1331 H <- Hilbert(9)
184 : maechler 1374 Hc <- as(round(H, 3), "dsCMatrix")# a sparse matrix with no 0 ...
185 :     (trH <- tril(Hc[1:5, 1:5]))
186 :     stopifnot(is(trH, "triangularMatrix"), trH@uplo == "L")
187 : maechler 1331
188 : maechler 1374 i <- c(1:2, 4, 6:7); j <- c(2:4,6)
189 :     H[i,j] <- 0
190 : maechler 1331 (H. <- round(as(H, "sparseMatrix"), 3)[ , 2:7])
191 :     Hc. <- Hc
192 : maechler 1374 Hc.[i,j] <- 0 ## now "works", but setting "non-structural" 0s
193 :     stopifnot(as.matrix(Hc.[i,j]) == 0)
194 : maechler 1331 Hc.[, 1:6]
195 :    
196 : maechler 1226 cat('Time elapsed: ', proc.time(),'\n') # for ``statistical reasons''

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