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074c721a | 1 | optimBeta <- function(N, n, K, p, beta, b, link, ncores) |
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2 | { |
3 | library(morpheus) | |
4 | res <- multiRun( | |
f805b3d9 | 5 | list(n=n, p=p, beta=beta, b=b, K=K, link=link), |
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6 | list( |
7 | # morpheus | |
8 | function(fargs) { | |
9 | library(morpheus) | |
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10 | K <- fargs$K |
11 | mu <- computeMu(fargs$X, fargs$Y, list(K=K)) | |
12 | op <- optimParams(fargs$X, fargs$Y, K, fargs$link) | |
0ad4c8de | 13 | x_init <- list(p=rep(1/K,K-1), beta=mu, b=rep(0,K)) |
01bd5c5b | 14 | res2 <- NULL |
9007ccc1 | 15 | tryCatch({ |
0ad4c8de | 16 | res2 <- do.call(rbind, op$run(x_init)) |
01bd5c5b | 17 | }, error = function(e) {}) |
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18 | res2 |
19 | } | |
20 | # , | |
21 | # # flexmix | |
22 | # function(fargs) { | |
23 | # library(flexmix) | |
24 | # source("../patch_Bettina/FLXMRglm.R") | |
f805b3d9 | 25 | # K <- fargs$K |
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26 | # dat <- as.data.frame( cbind(fargs$Y,fargs$X) ) |
27 | # res2 <- NULL | |
28 | # tryCatch({ | |
29 | # fm <- flexmix( cbind(V1, 1-V1) ~ .-V1, data=dat, k=K, | |
30 | # model = FLXMRglm(family = binomial(link = link)) ) | |
31 | # p <- mean(fm@posterior[["scaled"]][,1]) | |
32 | # out <- refit(fm) | |
33 | # beta_b <- sapply( seq_len(K), function(i) { | |
34 | # as.double( out@components[[1]][[i]][,1] ) | |
35 | # } ) | |
36 | # res2 <- rbind(p, beta_b[2:nrow(beta_b),], beta_b[1,]) | |
37 | # }, error = function(e) { | |
38 | # res2 <- NA | |
39 | # }) | |
40 | # res2 | |
41 | # } | |
42 | ), | |
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43 | prepareArgs = function(fargs, index) { |
44 | library(morpheus) | |
f805b3d9 | 45 | io = generateSampleIO(fargs$n, fargs$p, fargs$beta, fargs$b, fargs$link) |
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46 | fargs$X = io$X |
47 | fargs$Y = io$Y | |
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48 | fargs |
49 | }, N=N, ncores=ncores, verbose=TRUE) | |
50 | p <- c(p, 1-sum(p)) | |
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51 | for (i in 1:length(res)) { |
52 | for (j in N:1) { | |
53 | if (is.null(res[[i]][[j]]) || is.na(res[[i]][[j]])) | |
54 | res[[i]][[j]] <- NULL | |
55 | } | |
56 | print(paste("Count valid runs for ",i," = ",length(res[[i]]),sep="")) | |
1d014a86 | 57 | res[[i]] <- alignMatrices(res[[i]], ref=rbind(p,beta,b), ls_mode="exact") |
9007ccc1 | 58 | } |
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59 | res |
60 | } | |
61 | ||
62 | #model = binomial; default values: | |
63 | link = "logit" | |
64 | N <- 10 | |
65 | d <- 2 | |
66 | n <- 1e4 | |
67 | ncores <- 1 | |
68 | ||
69 | cmd_args <- commandArgs() | |
70 | for (arg in cmd_args) | |
71 | { | |
72 | if (substr(arg,1,1)!='-') { | |
73 | spl <- strsplit(arg,'=')[[1]] | |
74 | if (spl[1] == "nc") { | |
75 | ncores <- as.integer(spl[2]) | |
76 | } else if (spl[1] == "N") { | |
77 | N <- as.integer(spl[2]) | |
78 | } else if (spl[1] == "n") { | |
79 | n <- as.integer(spl[2]) | |
80 | } else if (spl[1] == "d") { | |
81 | d <- as.integer(spl[2]) | |
82 | } else if (spl[1] == "link") { | |
83 | link <- spl[2] | |
84 | } | |
85 | } | |
86 | } | |
87 | ||
88 | if (d == 2) { | |
89 | K <- 2 | |
90 | p <- .5 | |
91 | b <- c(-.2, .5) | |
92 | beta <- matrix( c(1,-2, 3,1), ncol=K ) | |
93 | } else if (d == 5) { | |
94 | K <- 2 | |
95 | p <- .5 | |
96 | b <- c(-.2, .5) | |
97 | beta <- matrix( c(1,2,-1,0,3, 2,-3,0,1,0), ncol=K ) | |
98 | } else if (d == 10) { | |
99 | K <- 3 | |
100 | p <- c(.3, .3) | |
101 | b <- c(-.2, 0, .5) | |
102 | beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2), ncol=K ) | |
103 | } else if (d == 20) { | |
104 | K <- 3 | |
105 | p <- c(.3, .3) | |
106 | b <- c(-.2, 0, .5) | |
107 | beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2,2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2,1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0,1,1,2,2,-2,-2,3,1,0,0), ncol=K ) | |
108 | } | |
109 | ||
074c721a | 110 | mr <- optimBeta(N, n, K, p, beta, b, link, ncores) |
0ad4c8de | 111 | mr_params <- list("N"=N, "nc"=ncores, "n"=n, "K"=K, "d"=d, "link"=link, |
074c721a | 112 | "p"=c(p,1-sum(p)), "beta"=beta, "b"=b) |
1d014a86 | 113 | |
074c721a | 114 | save("mr", "mr_params", file=paste("res_",n,"_",d,"_",link,".RData",sep="")) |