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# Copyright (C) 2015 Johannes Ranke
# Contact: jranke@uni-bremen.de
# This file is part of the R package gmkin
# gmkin is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
# This program is distributed in the hope that it will be useful, but WITHOUT
# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
# details.
# You should have received a copy of the GNU General Public License along with
# this program. If not, see <http://www.gnu.org/licenses/>
#' A workspace class for gmkin
#'
#' Datasets, models and fits are stored in lists.
#'
#' @docType class
#' @importFrom R6 R6Class
#' @importFrom plyr compact
#' @export
#' @format An \code{\link{R6Class}} generator object.
#' @field observed Names of the observed variables in the datasets, named
#' by the names used in the models contained in field m
#' @field ds A list of datasets compatible with mkinfit (long format)
#' @field m A list of mkinmod models
#' @field f A list of mkinfit objects
gmkinws <- R6Class("gmkinws",
public = list(
observed = NULL,
ds = list(),
m = list(),
ftmp = list(Name = ""),
f = list(),
initialize = function(ds, m, f) {
## Datasets
if (!missing(ds)) {
self$check_ds(ds)
self$ds = plyr::compact(ds)
self$update_observed()
}
## Models
if (!missing(m)) {
self$check_m(m)
self$m <- plyr::compact(m)
}
## Fits
if (!missing(f)) {
self$f <- plyr::compact(f)
}
invisible(self)
},
check_ds = function(ds) {
errmsg <- "ds must be a list of mkinds objects"
if (!is.list(ds)) stop(errmsg)
lapply(ds, function(x) {
if (!is(x, "mkinds"))
stop(errmsg)
}
)
},
add_ds = function(ds) {
self$check_ds(ds)
if (is.na(self$ds[1])) self$ds <- plyr::compact(ds)
else self$ds <- append(self$ds, plyr::compact(ds))
self$update_observed()
invisible(self)
},
update_observed = function() {
observed_ds <- if (is.na(self$ds[1])) NULL
else na.omit(unique(unlist(sapply(self$ds, function(x) x$observed))))
observed_m <- if (is.na(self$m[1])) NULL
else na.omit(unique(unlist(sapply(self$m, function(x) names(x$spec)))))
self$observed = union(observed_ds, observed_m)
},
delete_ds = function(i) {
if (any(sapply(self$ds[i], is.null)))
stop("Could not delete dataset(s) ", paste(i, collapse = ", "))
self$ds <- self$ds[-i]
if (length(self$ds) == 0) self$ds <- NA
self$update_observed()
invisible(self)
},
check_m = function(m) {
errmsg <- "m must be a list of mkinmod objects"
if (!is.list(m)) stop(errmsg)
lapply(m, function(x) {
if (!is(x, "mkinmod"))
stop(errmsg)
}
)
},
add_m = function(m) {
self$check_m(m)
if (is.na(self$m[1])) self$m <- plyr::compact(m)
else self$m = append(self$m, plyr::compact(m))
self$update_observed()
invisible(self)
},
delete_m = function(i) {
if (any(sapply(self$m[i], is.null)))
stop("Could not delete model(s) ", paste(i, collapse = ", "))
self$m <- self$m[-i]
if (length(self$m) == 0) self$m <- NA
invisible(self)
},
add_f = function(f) {
if (is.na(self$f[1])) self$f <- plyr::compact(f)
else self$f = append(self$f, plyr::compact(f))
invisible(self)
},
delete_f = function(i) {
if (any(sapply(self$f[i], is.null)))
stop("Could not delete fit(s) ", paste(i, collapse = ", "))
self$f <- self$f[-i]
if (length(self$f) == 0) self$f <- NA
invisible(self)
},
clear_compiled = function() {
for (i in seq_along(self$m)) {
self$m[[i]]$cf <- NULL
}
self$ftmp$mkinmod$cf <- NULL
for (i in seq_along(self$f)) {
self$f[[i]]$mkinmod$cf <- NULL
}
invisible(self)
}
)
)
#' @export
print.gmkinws <- function(x, ...) {
cat("<gmkinws> workspace object\n")
cat("Observed variables:\n")
print(x$observed)
cat("\nDatasets:\n")
print(x$ds)
cat("\nModels:\n")
print(x$m)
cat("\nNames of fits:\n")
if (is.na(x$f[1])) print(NA)
else print(sapply(x$f, function(x) x$name))
}
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