pass through optimization parameters

diff --git a/simulations/measerr_methods.R b/simulations/measerr_methods.R
index 92309edaab1bde2e4928cb0cc008fda6725a4b91..98ab28d77aa36a78f484768242f3eba608712e5d 100644 (file)
--- a/simulations/measerr_methods.R
+++ b/simulations/measerr_methods.R
@@ -23,7 +23,7 @@ likelihood.logistic <- function(model.params, outcome, model.matrix){
 }
 
 ## outcome_formula <- y ~ x + z; proxy_formula <- w_pred ~ y + x + z + x:z + x:y + z:y 
 }
 
 ## outcome_formula <- y ~ x + z; proxy_formula <- w_pred ~ y + x + z + x:z + x:y + z:y 

-measerr_mle_dv <- function(df, outcome_formula, outcome_family=binomial(link='logit'), proxy_formula, proxy_family=binomial(link='logit'),method='optim'){
+measerr_mle_dv <- function(df, outcome_formula, outcome_family=binomial(link='logit'), proxy_formula, proxy_family=binomial(link='logit'),maxit=1e6, method='optim'){

     df.obs <- model.frame(outcome_formula, df)
     proxy.model.matrix <- model.matrix(proxy_formula, df)
     proxy.variable <- all.vars(proxy_formula)[1]
     df.obs <- model.frame(outcome_formula, df)
     proxy.model.matrix <- model.matrix(proxy_formula, df)
     proxy.variable <- all.vars(proxy_formula)[1]


@@ -106,7 +106,7 @@ measerr_mle_dv <- function(df, outcome_formula, outcome_family=binomial(link='lo
     names(start) <- params
     
     if(method=='optim'){
     names(start) <- params
     
     if(method=='optim'){

-        fit <- optim(start, fn = nll, lower=lower, method='L-BFGS-B', hessian=TRUE, control=list(maxit=1e6))
+        fit <- optim(start, fn = nll, lower=lower, method=optim_method, hessian=TRUE, control=list(maxit=maxit))

     } else {
         quoted.names <- gsub("[\\(\\)]",'',names(start))
         print(quoted.names)
     } else {
         quoted.names <- gsub("[\\(\\)]",'',names(start))
         print(quoted.names)


@@ -115,13 +115,13 @@ measerr_mle_dv <- function(df, outcome_formula, outcome_family=binomial(link='lo
         measerr_mle_nll <- eval(parse(text=text))
         names(start) <- quoted.names
         names(lower) <- quoted.names
         measerr_mle_nll <- eval(parse(text=text))
         names(start) <- quoted.names
         names(lower) <- quoted.names

-        fit <- mle2(minuslogl=measerr_mle_nll, start=start, lower=lower, parnames=params,control=list(maxit=1e6),method='L-BFGS-B')
+        fit <- mle2(minuslogl=measerr_mle_nll, start=start, lower=lower, parnames=params,control=list(maxit=maxit),method=optim_method)

     }
     return(fit)
 }
 
 
     }
     return(fit)
 }
 
 

-measerr_mle <- function(df, outcome_formula, outcome_family=gaussian(), proxy_formula, proxy_family=binomial(link='logit'), truth_formula, truth_family=binomial(link='logit'),method='optim'){
+measerr_mle <- function(df, outcome_formula, outcome_family=gaussian(), proxy_formula, proxy_family=binomial(link='logit'), truth_formula, truth_family=binomial(link='logit'),method='optim', maxit=1e6, optim_method='L-BFGS-B'){

 
     df.obs <- model.frame(outcome_formula, df)
     response.var <- all.vars(outcome_formula)[1]
 
     df.obs <- model.frame(outcome_formula, df)
     response.var <- all.vars(outcome_formula)[1]


@@ -240,7 +240,7 @@ measerr_mle <- function(df, outcome_formula, outcome_family=gaussian(), proxy_fo
     names(start) <- params
 
     if(method=='optim'){
     names(start) <- params
 
     if(method=='optim'){

-        fit <- optim(start, fn = measerr_mle_nll, lower=lower, method='L-BFGS-B', hessian=TRUE, control=list(maxit=1e6))
+        fit <- optim(start, fn = measerr_mle_nll, lower=lower, method=optim_method, hessian=TRUE, control=list(maxit=maxit))

     } else { # method='mle2'
                 
         quoted.names <- gsub("[\\(\\)]",'',names(start))
     } else { # method='mle2'
                 
         quoted.names <- gsub("[\\(\\)]",'',names(start))


@@ -250,7 +250,7 @@ measerr_mle <- function(df, outcome_formula, outcome_family=gaussian(), proxy_fo
         measerr_mle_nll_mle <- eval(parse(text=text))
         names(start) <- quoted.names
         names(lower) <- quoted.names
         measerr_mle_nll_mle <- eval(parse(text=text))
         names(start) <- quoted.names
         names(lower) <- quoted.names

-        fit <- mle2(minuslogl=measerr_mle_nll_mle, start=start, lower=lower, parnames=params,control=list(maxit=1e6),method='L-BFGS-B')
+        fit <- mle2(minuslogl=measerr_mle_nll_mle, start=start, lower=lower, parnames=params,control=list(maxit=maxit),method=optim_method)

     }
 
     return(fit)
     }
 
     return(fit)