updating package to address CRAN issues.

ChangeLog

@@ -16,4 +16,6 @@ v0.6 - added Azman/Lessler contributions: MCMC estimation functions, ability to
 
 v06.3 - minor modifications to address NAMESPACE issues.
 
-v06.4 - merged hackout3 branch to support new distributions
+v06.4 - merged hackout3 branch to support new distributions
+
+v06.5 - minor modifications to fix improper call to `class()` and other new NOTES.

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: coarseDataTools
-Version: 0.6-4
-Date: 2019-06-04
+Version: 0.6-5
+Date: 2019-12-05
 Title: Analysis of Coarsely Observed Data
 Authors@R: c(person("Nicholas G.", "Reich", email = "nick@schoolph.umass.edu", role = c("aut", "cre")),
   person("Justin", "Lessler", email = "jlessler@jhsph.edu", role = "aut"),

NAMESPACE

@@ -17,6 +17,7 @@ importFrom(MCMCpack,MCMCmetrop1R)
 importFrom(grDevices,rgb)
 importFrom(graphics,lines)
 importFrom(graphics,plot)
+importFrom(methods,is)
 importFrom(methods,new)
 importFrom(stats,coef)
 importFrom(stats,dgamma)

R/coarseDataTools-package.R

@@ -80,6 +80,6 @@ NULL
 ##' @examples
 ##' data(nycH1N1)
 ##' head(nycH1N1)
-##' dic.fit(nycH1N1)
+##' \dontrun{dic.fit(nycH1N1)}
 ##' @keywords datasets
 NULL

R/dic.fit.R

@@ -41,6 +41,7 @@
 ##' @param n.boots number of bootstrap resamples (0 means that asymptotic results are desired)
 ##' @param ... additional options passed to optim
 ##' @return a cd.fit S4 object.
+##' @importFrom methods is
 ##' @seealso \code{\link{cd.fit}}, \code{\link{dic.fit.mcmc}}
 ##' @export
 ##' @examples
@@ -77,7 +78,7 @@ dic.fit <- function(dat,
 
     ## make sure dat is a matrix
     dat <- as.matrix(dat[,c("EL", "ER", "SL", "SR", "type")])
-    if(class(dat)=="data.frame") stop("dat should be a matrix.")
+    if(is(dat,"data.frame")) stop("dat should be a matrix.")
 
     ## find starting values for DIC analysis using profile likelihoods
     start.par1 <- optimize(f=pl.par1, interval=par1.int,

cran-comments.md

@@ -1,17 +1,25 @@
-## requested fixes
- - fixed NOTES about canonical URLs
+## updates in this edition
+
+ - as requested: fixed improper call to `class(dat) == "data.frame"` with a call to `is(dat, "data.frame")`
 
 
 ## R CMD check results
-There were no ERRORs or WARNINGs. 
+> On windows-x86_64-devel (r-devel)
+  checking sizes of PDF files under 'inst/doc' ... NOTE
+  Unable to find GhostScript executable to run checks on size reduction
 
-Notes arose from running checks on Rhub:
+Unable to figure out whether this is an issue with the server running the checks or something in the package itself that I can/should be changing.
 
-```
+> On fedora-clang-devel (r-devel)
+  checking CRAN incoming feasibility ...NB: need Internet access to use CRAN incoming checks
+   NOTE
+  Maintainer: ‘Nicholas G. Reich <nick@schoolph.umass.edu>’
+
   Possibly mis-spelled words in DESCRIPTION:
-    al (20:34, 21:14, 22:16)
     Lessler (22:5)
+    al (20:34, 21:14, 22:16)
     et (20:31, 21:11, 22:13)
-```
 
-These are expected, as they are abbreviations and last names from citations requested by CRAN maintainers.
+
+These are expected, as they are abbreviations and last names from citations requested by CRAN maintainers.
+