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86f257f8 | 1 | optimBeta <- function(N, n, p, beta, b, link, ncores) |
1d014a86 | 2 | { |
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3 | library(morpheus) |
4 | res <- multiRun( | |
86f257f8 | 5 | list(n=n, p=p, beta=beta, b=b, link=link), |
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6 | list( |
7 | # morpheus | |
8 | function(fargs) { | |
9 | library(morpheus) | |
86f257f8 | 10 | K <- ncol(fargs$beta) |
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11 | M <- computeMoments(fargs$X, fargs$Y) |
12 | mu <- computeMu(fargs$X, fargs$Y, list(K=K, M=M)) | |
13 | op <- optimParams(fargs$X, fargs$Y, K, fargs$link, M) | |
0ad4c8de | 14 | x_init <- list(p=rep(1/K,K-1), beta=mu, b=rep(0,K)) |
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15 | res2 <- NULL |
16 | tryCatch({ | |
0ad4c8de | 17 | res2 <- do.call(rbind, op$run(x_init)) |
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18 | }, error = function(e) {}) |
19 | res2 | |
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20 | }, |
21 | # flexmix | |
22 | function(fargs) { | |
23 | library(flexmix) | |
24 | source("../patch_Bettina/FLXMRglm.R") | |
25 | K <- ncol(fargs$beta) | |
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 | |
f4e42a2b | 41 | } |
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42 | ), |
43 | prepareArgs = function(fargs, index) { | |
44 | library(morpheus) | |
45 | io = generateSampleIO(fargs$n, fargs$p, fargs$beta, fargs$b, fargs$link) | |
46 | fargs$X = io$X | |
47 | fargs$Y = io$Y | |
48 | fargs | |
49 | }, N=N, ncores=ncores, verbose=TRUE) | |
50 | p <- c(p, 1-sum(p)) | |
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="")) | |
57 | res[[i]] <- alignMatrices(res[[i]], ref=rbind(p,beta,b), ls_mode="exact") | |
58 | } | |
59 | res | |
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60 | } |
61 | ||
86f257f8 | 62 | # Default values: |
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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 | { | |
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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 | } | |
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86 | } |
87 | ||
88 | if (d == 2) { | |
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89 | p <- .5 |
90 | b <- c(-.2, .5) | |
86f257f8 | 91 | beta <- matrix( c(1,-2, 3,1), ncol=2 ) |
1d014a86 | 92 | } else if (d == 5) { |
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93 | p <- .5 |
94 | b <- c(-.2, .5) | |
86f257f8 | 95 | beta <- matrix( c(1,2,-1,0,3, 2,-3,0,1,0), ncol=2 ) |
1d014a86 | 96 | } else if (d == 10) { |
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97 | p <- c(.3, .3) |
98 | b <- c(-.2, 0, .5) | |
86f257f8 | 99 | 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=3 ) |
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100 | } |
101 | ||
86f257f8 | 102 | mr <- optimBeta(N, n, p, beta, b, link, ncores) |
38c65767 | 103 | mr_params <- list("N"=N, "nc"=ncores, "n"=n, "link"=link, |
f4e42a2b | 104 | "p"=c(p,1-sum(p)), "beta"=beta, "b"=b) |
1d014a86 | 105 | |
074c721a | 106 | save("mr", "mr_params", file=paste("res_",n,"_",d,"_",link,".RData",sep="")) |