diff --git a/DESCRIPTION b/DESCRIPTION
index 2f97e38bc..4ffcb78a8 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,8 +1,8 @@
Package: mice
Type: Package
-Version: 3.16.16
+Version: 3.16.17
Title: Multivariate Imputation by Chained Equations
-Date: 2024-10-16
+Date: 2024-11-22
Authors@R: c(person("Stef", "van Buuren", role = c("aut","cre"),
email = "stef.vanbuuren@tno.nl"),
person("Karin", "Groothuis-Oudshoorn", role = "aut",
diff --git a/NEWS.md b/NEWS.md
index 0c685f0db..7cdd7952e 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -1,3 +1,7 @@
+# mice 3.16.17
+
+* Create version to perform reverse dependency checks
+
# mice 3.16.16
* Prevent `as.mids()` from filling the `imp` object for complete variables
diff --git a/R/ampute.R b/R/ampute.R
index 13c976cc9..b40fadf53 100644
--- a/R/ampute.R
+++ b/R/ampute.R
@@ -40,8 +40,6 @@
#' mechanisms: the missingness depends completely on chance (MCAR), the missingness
#' depends on the values of the observed variables (i.e. the variables that remain
#' complete) (MAR) or on the values of the variables that will be made incomplete (MNAR).
-#' For a discussion on how missingness mechanisms are related to the observed data,
-#' we refer to \doi{10.1177/0049124118799376}.
#'
#' When the user specifies the missingness mechanism to be \code{"MCAR"}, the candidates
#' have an equal probability of becoming incomplete. For a \code{"MAR"} or \code{"MNAR"} mechanism,
@@ -82,11 +80,9 @@
#' The continuous distributions of probabilities are based on the logistic distribution function.
#' The user can specify the type of missingness, which, again, may differ between patterns.
#'
-#' For an example and more explanation about how the arguments interact with each other,
-#' we refer to the vignette
-#' \href{https://rianneschouten.github.io/mice_ampute/vignette/ampute.html}{Generate missing values with ampute}
-#' The amputation methodology is published in
-#' \doi{10.1080/00949655.2018.1491577}
+#' For an example and more explanation about how the arguments interact with
+#' each other, we refer to the vignette:
+#' \href{https://rianneschouten.github.io/mice_ampute/vignette/ampute.html}{Generate missing values with ampute}.
#'
#' @param data A complete data matrix or data frame. Values should be numeric.
#' Categorical variables should have been transformed to dummies.
@@ -156,7 +152,8 @@
#' @seealso \code{\link{mads-class}}, \code{\link{bwplot}}, \code{\link{xyplot}},
#' \code{\link{mice}}
#'
-#' @references Brand, J.P.L. (1999) \emph{Development, implementation and
+#' @references
+#' Brand, J.P.L. (1999) \emph{Development, implementation and
#' evaluation of multiple imputation strategies for the statistical analysis of
#' incomplete data sets.} pp. 110-113. Dissertation. Rotterdam: Erasmus University.
#'
diff --git a/man/ampute.Rd b/man/ampute.Rd
index 5315e1ccf..ccad05b02 100644
--- a/man/ampute.Rd
+++ b/man/ampute.Rd
@@ -139,8 +139,6 @@ The first of these specifications is the missing mechanism. There are three poss
mechanisms: the missingness depends completely on chance (MCAR), the missingness
depends on the values of the observed variables (i.e. the variables that remain
complete) (MAR) or on the values of the variables that will be made incomplete (MNAR).
-For a discussion on how missingness mechanisms are related to the observed data,
-we refer to \doi{10.1177/0049124118799376}.
When the user specifies the missingness mechanism to be \code{"MCAR"}, the candidates
have an equal probability of becoming incomplete. For a \code{"MAR"} or \code{"MNAR"} mechanism,
@@ -181,11 +179,9 @@ the odds values are of importance, but the relative distance between the values.
The continuous distributions of probabilities are based on the logistic distribution function.
The user can specify the type of missingness, which, again, may differ between patterns.
-For an example and more explanation about how the arguments interact with each other,
-we refer to the vignette
-\href{https://rianneschouten.github.io/mice_ampute/vignette/ampute.html}{Generate missing values with ampute}
-The amputation methodology is published in
-\doi{10.1080/00949655.2018.1491577}
+For an example and more explanation about how the arguments interact with
+each other, we refer to the vignette:
+\href{https://rianneschouten.github.io/mice_ampute/vignette/ampute.html}{Generate missing values with ampute}.
}
\examples{
# start with a complete data set
diff --git a/revdep/README.md b/revdep/README.md
index a87642490..6effafce8 100644
--- a/revdep/README.md
+++ b/revdep/README.md
@@ -1,108 +1,211 @@
# Platform
-|field |value |
-|:--------|:--------------------------------------|
-|version |R version 4.3.0 (2023-04-21) |
-|os |macOS Ventura 13.4 |
-|system |aarch64, darwin20 |
-|ui |RStudio |
-|language |(EN) |
-|collate |en_US.UTF-8 |
-|ctype |en_US.UTF-8 |
-|tz |Europe/Amsterdam |
-|date |2023-06-01 |
-|rstudio |2023.03.1+446 Cherry Blossom (desktop) |
-|pandoc |1.17.1 @ /usr/local/bin/pandoc |
+|field |value |
+|:--------|:------------------------------------------|
+|version |R version 4.4.2 (2024-10-31) |
+|os |macOS Sequoia 15.1.1 |
+|system |aarch64, darwin20 |
+|ui |RStudio |
+|language |(EN) |
+|collate |en_US.UTF-8 |
+|ctype |en_US.UTF-8 |
+|tz |Europe/Amsterdam |
+|date |2024-11-22 |
+|rstudio |2024.09.1+394 Cranberry Hibiscus (desktop) |
+|pandoc |1.17.1 @ /usr/local/bin/pandoc |
# Dependencies
-|package |old |new |Δ |
-|:-----------|:------|:----------|:--|
-|mice |3.15.0 |3.16.0 |* |
-|backports |1.4.1 |1.4.1 | |
-|bit |NA |4.0.5 |* |
-|bit64 |NA |4.0.5 |* |
-|brio |NA |1.1.3 |* |
-|broom |1.0.4 |1.0.4 | |
-|callr |NA |3.7.3 |* |
-|cli |3.6.1 |3.6.1 | |
-|clipr |NA |0.8.0 |* |
-|cpp11 |0.4.3 |0.4.3 | |
-|crayon |NA |1.5.2 |* |
-|desc |NA |1.4.2 |* |
-|diffobj |NA |0.3.5 |* |
-|digest |NA |0.6.31 |* |
-|dplyr |1.1.2 |1.1.2 | |
-|ellipsis |0.3.2 |0.3.2 | |
-|evaluate |NA |0.21 |* |
-|fansi |1.0.4 |1.0.4 | |
-|forcats |NA |1.0.0 |* |
-|foreach |NA |1.5.2 |* |
-|fs |NA |1.6.2 |* |
-|generics |0.1.3 |0.1.3 | |
-|glmnet |NA |4.1-7 |* |
-|glue |1.6.2 |1.6.2 | |
-|haven |NA |2.5.2 |* |
-|hms |NA |1.1.3 |* |
-|iterators |NA |1.0.14 |* |
-|jomo |NA |2.7-6 |* |
-|jsonlite |NA |1.8.4 |* |
-|lifecycle |1.0.3 |1.0.3 | |
-|lme4 |NA |1.1-33 |* |
-|magrittr |2.0.3 |2.0.3 | |
-|minqa |NA |1.2.5 |* |
-|mitml |NA |0.4-5 |* |
-|nloptr |NA |2.0.3 |* |
-|numDeriv |NA |2016.8-1.1 |* |
-|ordinal |NA |2022.11-16 |* |
-|pan |NA |1.6 |* |
-|pillar |1.9.0 |1.9.0 | |
-|pkgconfig |2.0.3 |2.0.3 | |
-|pkgload |NA |1.3.2 |* |
-|praise |NA |1.0.0 |* |
-|prettyunits |NA |1.1.1 |* |
-|processx |NA |3.8.1 |* |
-|progress |NA |1.2.2 |* |
-|ps |NA |1.7.5 |* |
-|purrr |1.0.1 |1.0.1 | |
-|R6 |2.5.1 |2.5.1 | |
-|Rcpp |1.0.10 |1.0.10 | |
-|RcppEigen |NA |0.3.3.9.3 |* |
-|readr |NA |2.1.4 |* |
-|rematch2 |NA |2.1.2 |* |
-|rlang |1.1.1 |1.1.1 | |
-|rprojroot |NA |2.0.3 |* |
-|shape |NA |1.4.6 |* |
-|stringi |1.7.12 |1.7.12 | |
-|stringr |1.5.0 |1.5.0 | |
-|testthat |NA |3.1.8 |* |
-|tibble |3.2.1 |3.2.1 | |
-|tidyr |1.3.0 |1.3.0 | |
-|tidyselect |1.2.0 |1.2.0 | |
-|tzdb |NA |0.4.0 |* |
-|ucminf |NA |1.2.0 |* |
-|utf8 |1.2.3 |1.2.3 | |
-|vctrs |0.6.2 |0.6.2 | |
-|vroom |NA |1.6.3 |* |
-|waldo |NA |0.5.1 |* |
-|withr |2.5.0 |2.5.0 | |
+|package |old |new |Δ |
+|:-----------|:-----------|:-----------|:--|
+|mice |3.16.0 |NA |* |
+|backports |1.5.0 |1.5.0 | |
+|bit |4.5.0 |4.5.0 | |
+|bit64 |4.5.2 |4.5.2 | |
+|broom |1.0.7 |1.0.7 | |
+|cli |3.6.3 |3.6.3 | |
+|clipr |0.8.0 |0.8.0 | |
+|cpp11 |0.5.0 |0.5.0 | |
+|crayon |1.5.3 |1.5.3 | |
+|dplyr |1.1.4 |1.1.4 | |
+|fansi |1.0.6 |1.0.6 | |
+|forcats |1.0.0 |1.0.0 | |
+|foreach |1.5.2 |1.5.2 | |
+|generics |0.1.3 |0.1.3 | |
+|glmnet |4.1-8 |4.1-8 | |
+|glue |1.8.0 |1.8.0 | |
+|haven |2.5.4 |2.5.4 | |
+|hms |1.1.3 |1.1.3 | |
+|iterators |1.0.14 |1.0.14 | |
+|jomo |2.7-6 |2.7-6 | |
+|lifecycle |1.0.4 |1.0.4 | |
+|lme4 |1.1-35.5 |1.1-35.5 | |
+|magrittr |2.0.3 |2.0.3 | |
+|minqa |1.2.8 |1.2.8 | |
+|mitml |0.4-5 |0.4-5 | |
+|nloptr |2.1.1 |2.1.1 | |
+|numDeriv |2016.8-1.1 |2016.8-1.1 | |
+|ordinal |2023.12-4.1 |2023.12-4.1 | |
+|pan |1.9 |1.9 | |
+|pillar |1.9.0 |1.9.0 | |
+|pkgconfig |2.0.3 |2.0.3 | |
+|prettyunits |1.2.0 |1.2.0 | |
+|progress |1.2.3 |1.2.3 | |
+|purrr |1.0.2 |1.0.2 | |
+|R6 |2.5.1 |2.5.1 | |
+|Rcpp |1.0.13-1 |1.0.13-1 | |
+|RcppEigen |0.3.4.0.2 |0.3.4.0.2 | |
+|readr |2.1.5 |2.1.5 | |
+|rlang |1.1.4 |1.1.4 | |
+|shape |1.4.6.1 |1.4.6.1 | |
+|stringi |1.8.4 |1.8.4 | |
+|stringr |1.5.1 |1.5.1 | |
+|tibble |3.2.1 |3.2.1 | |
+|tidyr |1.3.1 |1.3.1 | |
+|tidyselect |1.2.1 |1.2.1 | |
+|tzdb |0.4.0 |0.4.0 | |
+|ucminf |1.2.2 |1.2.2 | |
+|utf8 |1.2.4 |1.2.4 | |
+|vctrs |0.6.5 |0.6.5 | |
+|vroom |1.6.5 |1.6.5 | |
+|withr |3.0.2 |3.0.2 | |
# Revdeps
-## Failed to check (4)
+## Failed to check (3)
-|package |version |error |warning |note |
-|:-----------|:---------|:-----|:-------|:----|
-|dynr |0.1.16-91 |1 | | |
-|idem |5.1 |1 | | |
-|pguIMP |0.0.0.3 |1 | | |
-|Replication |0.1.2 |1 | | |
+|package |version |error |warning |note |
+|:-------|:-------|:------|:-------|:------|
+|brms |2.22.0 |1 | |2 |
+|[MKinfer](failures.md#mkinfer)|1.2 |__+1__ | |__+1__ |
+|rmsb |1.1-1 |1 | |1 |
-## New problems (3)
+## New problems (124)
-|package |version |error |warning |note |
-|:---------|:-------|:------|:-------|:---------|
-|[bipd](problems.md#bipd)|0.3 | | |-1 __+1__ |
-|[MatchThem](problems.md#matchthem)|1.0.1 | |__+1__ | |
-|[pre](problems.md#pre)|1.0.6 |__+1__ | | |
+|package |version |error |warning |note |
+|:------------------|:----------|:---------|:-------|:---------|
+|[accelmissing](problems.md#accelmissing)|1.4 |__+1__ | |-1 |
+|[adjustedCurves](problems.md#adjustedcurves)|0.11.2 |__+1__ | |__+2__ |
+|[alookr](problems.md#alookr)|0.3.9 | | |__+1__ |
+|[autoReg](problems.md#autoreg)|0.3.3 |__+1__ | | |
+|[BaM](problems.md#bam)|1.0.3 |__+1__ | | |
+|[basecamb](problems.md#basecamb)|1.1.5 |__+1__ | | |
+|[betaMC](problems.md#betamc)|1.3.2 |__+2__ | |__+2__ |
+|[BGGM](problems.md#bggm)|2.1.3 | |__+1__ |1 __+2__ |
+|[biokNN](problems.md#bioknn)|0.1.0 |__+1__ | |-1 |
+|[bipd](problems.md#bipd)|0.3 | |1 |-1 __+1__ |
+|[bootImpute](problems.md#bootimpute)|1.2.1 |__+1__ | | |
+|[brokenstick](problems.md#brokenstick)|2.5.0 | | |__+2__ |
+|[broom.helpers](problems.md#broomhelpers)|1.17.0 | | |__+1__ |
+|[CALIBERrfimpute](problems.md#caliberrfimpute)|1.0-7 |__+1__ | | |
+|[cati](problems.md#cati)|0.99.4 | | |__+1__ |
+|[censcyt](problems.md#censcyt)|1.14.0 |__+1__ | |-3 |
+|[CIMPLE](problems.md#cimple)|0.1.0 |__+1__ | | |
+|[ClustAll](problems.md#clustall)|1.2.0 |__+1__ | | |
+|[clusterMI](problems.md#clustermi)|1.2.2 |__+1__ | | |
+|[cmahalanobis](problems.md#cmahalanobis)|0.4.2 |__+1__ | | |
+|[cobalt](problems.md#cobalt)|4.5.5 | |__+1__ |__+1__ |
+|[dlookr](problems.md#dlookr)|0.6.3 |__+1__ | | |
+|[dynamite](problems.md#dynamite)|1.5.5 | | |2 __+1__ |
+|[dynr](problems.md#dynr)|0.1.16-105 |-1 __+1__ | | |
+|[eatRep](problems.md#eatrep)|0.14.7 |__+1__ | | |
+|[finalfit](problems.md#finalfit)|1.0.8 |__+1__ | |-1 |
+|[FLAME](problems.md#flame)|2.1.1 |__+2__ | |__+1__ |
+|[flevr](problems.md#flevr)|0.0.4 |__+1__ | |__+1__ |
+|[gerbil](problems.md#gerbil)|0.1.9 | | |__+1__ |
+|[gFormulaMI](problems.md#gformulami)|1.0.0 |__+1__ | | |
+|[ggeffects](problems.md#ggeffects)|1.7.2 | | |__+2__ |
+|[ggmice](problems.md#ggmice)|0.1.0 |__+1__ | | |
+|[gtsummary](problems.md#gtsummary)|2.0.3 | | |__+1__ |
+|[HardyWeinberg](problems.md#hardyweinberg)|1.7.8 |__+1__ | | |
+|[hhsmm](problems.md#hhsmm)|0.4.2 |__+1__ | | |
+|[Hmisc](problems.md#hmisc)|5.2-0 | | |1 __+2__ |
+|[holodeck](problems.md#holodeck)|0.2.2 | |__+1__ |__+1__ |
+|[hot.deck](problems.md#hotdeck)|1.2 |__+1__ | |-1 |
+|[howManyImputations](problems.md#howmanyimputations)|0.2.5 |__+1__ | | |
+|[HSAUR3](problems.md#hsaur3)|1.0-15 | |__+1__ |__+1__ |
+|[idem](problems.md#idem)|5.2 |__+1__ | |-2 |
+|[ImputeRobust](problems.md#imputerobust)|1.3-1 |__+1__ | | |
+|[insight](problems.md#insight)|0.20.5 | | |__+1__ |
+|[intmed](problems.md#intmed)|0.1.2 |__+1__ | | |
+|[IPWboxplot](problems.md#ipwboxplot)|0.1.2 |__+1__ |__+1__ |__+1__ |
+|[JWileymisc](problems.md#jwileymisc)|1.4.1 |__+1__ | | |
+|[konfound](problems.md#konfound)|1.0.2 | | |__+1__ |
+|[lavaan.survey](problems.md#lavaansurvey)|1.1.3.1 |1 | |__+1__ |
+|[LMMstar](problems.md#lmmstar)|1.1.0 |__+1__ | |1 __+1__ |
+|[logistf](problems.md#logistf)|1.26.0 |__+1__ | | |
+|[manymome](problems.md#manymome)|0.2.4 | | |__+1__ |
+|[marginaleffects](problems.md#marginaleffects)|0.23.0 | | |__+1__ |
+|[MatchThem](problems.md#matchthem)|1.2.1 |__+1__ | | |
+|[mdapack](problems.md#mdapack)|0.0.2 |__+1__ | |-2 |
+|[medflex](problems.md#medflex)|0.6-10 | | |__+1__ |
+|[metavcov](problems.md#metavcov)|2.1.5 | | |__+1__ |
+|[mi4p](problems.md#mi4p)|1.2 |__+1__ | | |
+|[micd](problems.md#micd)|1.1.1 |__+1__ | | |
+|[miceadds](problems.md#miceadds)|3.17-44 |__+1__ | |-2 |
+|[miceafter](problems.md#miceafter)|0.5.0 |__+1__ | | |
+|[miceFast](problems.md#micefast)|0.8.2 | |__+1__ |2 __+1__ |
+|[micemd](problems.md#micemd)|1.10.0 |__+1__ | | |
+|[microeco](problems.md#microeco)|1.10.0 | | |__+1__ |
+|[midastouch](problems.md#midastouch)|1.3 |__+1__ | |1 __+1__ |
+|[midoc](problems.md#midoc)|1.0.0 |__+1__ | | |
+|[mifa](problems.md#mifa)|0.2.0 |__+1__ | |-1 |
+|[MIIPW](problems.md#miipw)|0.1.1 |__+1__ | | |
+|[misaem](problems.md#misaem)|1.0.1 | |__+1__ |__+1__ |
+|[miselect](problems.md#miselect)|0.9.2 | |__+1__ |__+1__ |
+|[missCompare](problems.md#misscompare)|1.0.3 |__+1__ | | |
+|[missDiag](problems.md#missdiag)|1.0.1 |__+1__ | |__+2__ |
+|[missMDA](problems.md#missmda)|1.19 |__+1__ | | |
+|[misty](problems.md#misty)|0.6.8 | | |__+1__ |
+|[mitml](problems.md#mitml)|0.4-5 |__+1__ | |__+2__ |
+|[miWQS](problems.md#miwqs)|0.4.4 | | |__+2__ |
+|[mixgb](problems.md#mixgb)|1.0.2 |__+1__ | | |
+|[MixtureMissing](problems.md#mixturemissing)|3.0.3 |__+1__ | | |
+|[mlim](problems.md#mlim)|0.3.0 |__+1__ | |-1 |
+|[modelsummary](problems.md#modelsummary)|2.2.0 | | |__+1__ |
+|[monoClust](problems.md#monoclust)|1.2.1 | | |1 __+1__ |
+|[MRPC](problems.md#mrpc)|3.1.0 |__+1__ | | |
+|[MSiP](problems.md#msip)|1.3.7 |__+1__ | |-1 |
+|[mvnimpute](problems.md#mvnimpute)|1.0.1 | | |__+1__ |
+|[mvs](problems.md#mvs)|2.0.0 |__+1__ | |__+1__ |
+|[NADIA](problems.md#nadia)|0.4.2 |-3 __+1__ | |-2 |
+|[NIMAA](problems.md#nimaa)|0.2.1 |__+1__ | |-2 |
+|[nncc](problems.md#nncc)|2.0.0 | |__+1__ |__+1__ |
+|[ordbetareg](problems.md#ordbetareg)|0.7.2 | |__+1__ |2 __+1__ |
+|[OTrecod](problems.md#otrecod)|0.1.2 |__+1__ | |-1 |
+|[parameters](problems.md#parameters)|0.23.0 | | |__+1__ |
+|[pema](problems.md#pema)|0.1.3 |1 __+1__ | |2 __+2__ |
+|[pguIMP](problems.md#pguimp)|0.0.0.3 |-1 __+1__ | | |
+|[pre](problems.md#pre)|1.0.7 | |__+1__ |__+1__ |
+|[psfmi](problems.md#psfmi)|1.4.0 |__+1__ | | |
+|[qgcomp](problems.md#qgcomp)|2.15.2 | | |1 __+2__ |
+|[Qtools](problems.md#qtools)|1.5.9 | | |__+1__ |
+|[RBtest](problems.md#rbtest)|1.1 |__+1__ | |-1 |
+|[realTimeloads](problems.md#realtimeloads)|1.0.0 |-1 __+1__ | | |
+|[RefBasedMI](problems.md#refbasedmi)|0.2.0 |__+1__ | | |
+|[regmedint](problems.md#regmedint)|1.0.1 | |__+1__ |1 __+1__ |
+|[RegularizedSCA](problems.md#regularizedsca)|0.5.4 |__+1__ | |-1 |
+|[Replication](problems.md#replication)|0.1.2 |-1 __+1__ | | |
+|[rexposome](problems.md#rexposome)|1.28.0 |__+1__ |-5 |-4 |
+|[RfEmpImp](problems.md#rfempimp)|2.1.8 |__+1__ | | |
+|[rms](problems.md#rms)|6.8-2 | | |__+1__ |
+|[RNAseqCovarImpute](problems.md#rnaseqcovarimpute)|1.4.0 |__+1__ | |-2 |
+|[rqlm](problems.md#rqlm)|2.1-1 |__+1__ | | |
+|[RSquaredMI](problems.md#rsquaredmi)|0.1.1 |__+1__ | | |
+|[semmcci](problems.md#semmcci)|1.1.4 |__+1__ | | |
+|[semTools](problems.md#semtools)|0.5-6 |__+1__ | |1 __+2__ |
+|[seqimpute](problems.md#seqimpute)|2.1.0 |__+1__ | | |
+|[shapeNA](problems.md#shapena)|0.0.2 |__+1__ | |3 __+1__ |
+|[sjmisc](problems.md#sjmisc)|2.8.10 | | |__+2__ |
+|[smdi](problems.md#smdi)|0.3.1 |-1 __+1__ | | |
+|[sociome](problems.md#sociome)|2.2.5 |__+1__ | | |
+|[StackImpute](problems.md#stackimpute)|0.1.0 |__+1__ | |-2 |
+|[superMICE](problems.md#supermice)|1.1.1 |__+1__ | |-1 |
+|[svyweight](problems.md#svyweight)|0.1.0 | | |1 __+2__ |
+|[SynDI](problems.md#syndi)|0.1.0 |__+1__ | |-2 |
+|[synergyfinder](problems.md#synergyfinder)|3.14.0 |__+1__ |-1 |-3 |
+|[TestDataImputation](problems.md#testdataimputation)|2.3 |__+1__ | | |
+|[tidySEM](problems.md#tidysem)|0.2.7 |__+2__ | |__+1__ |
+|[vsmi](problems.md#vsmi)|0.1.0 |__+1__ | | |
+|[weights](problems.md#weights)|1.0.4 |__+1__ | | |
diff --git a/revdep/check.R b/revdep/check.R
index 2e4cbb76d..2355a0e02 100644
--- a/revdep/check.R
+++ b/revdep/check.R
@@ -12,13 +12,13 @@ library(revdepcheck)
revdep_reset()
# the following takes two hours
-revdep_check(num_workers = 3)
+revdep_check(num_workers = 10)
# print out results
revdep_summary()
revdep_details(revdep = "smartdata")
-# commit
+# commit
system("git add revdep/*.md")
system("git commit -m 'Update revdep results'")
system("git push -u origin HEAD")
@@ -26,5 +26,5 @@ system("git push -u origin HEAD")
# signal package authors
-# after successfully submitted to CRAN, clean up
+# after successfully submitted to CRAN, clean up
revdep_reset()
diff --git a/revdep/cran.md b/revdep/cran.md
index f994042ae..01a778ec3 100644
--- a/revdep/cran.md
+++ b/revdep/cran.md
@@ -1,27 +1,417 @@
## revdepcheck results
-We checked 114 reverse dependencies (111 from CRAN + 3 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
+We checked 133 reverse dependencies (128 from CRAN + 5 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
- * We saw 3 new problems
- * We failed to check 4 packages
+ * We saw 119 new problems
+ * We failed to check 3 packages
Issues with CRAN packages are summarised below.
### New problems
(This reports the first line of each new failure)
+* accelmissing
+ checking package dependencies ... ERROR
+
+* adjustedCurves
+ checking tests ...
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* alookr
+ checking package dependencies ... NOTE
+
+* autoReg
+ checking package dependencies ... ERROR
+
+* BaM
+ checking package dependencies ... ERROR
+
+* basecamb
+ checking package dependencies ... ERROR
+
+* betaMC
+ checking examples ... ERROR
+ checking tests ...
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* BGGM
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* biokNN
+ checking package dependencies ... ERROR
+
* bipd
- checking dependencies in R code ...sh: line 1: 64105 Segmentation fault: 11 R_DEFAULT_PACKAGES=NULL '/Library/Frameworks/R.framework/Resources/bin/R' --vanilla --no-echo 2>&1 < '/var/folders/5_/g85d42yj50b6lrjq4rzjzg8w0000gn/T//RtmpcESnnw/filef7d530e954ed'
+ checking package dependencies ... NOTE
+
+* bootImpute
+ checking package dependencies ... ERROR
+
+* brokenstick
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* broom.helpers
+ checking package dependencies ... NOTE
+
+* CALIBERrfimpute
+ checking package dependencies ... ERROR
+
+* cati
+ checking package dependencies ... NOTE
+
+* CIMPLE
+ checking package dependencies ... ERROR
+
+* clusterMI
+ checking package dependencies ... ERROR
+
+* cmahalanobis
+ checking package dependencies ... ERROR
+
+* cobalt
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* dlookr
+ checking package dependencies ... ERROR
+
+* dynamite
+ checking Rd cross-references ... NOTE
+
+* dynr
+ checking package dependencies ... ERROR
+
+* eatRep
+ checking package dependencies ... ERROR
+
+* finalfit
+ checking package dependencies ... ERROR
+
+* FLAME
+ checking tests ...
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* flevr
+ checking tests ...
+ checking package dependencies ... NOTE
+
+* gerbil
+ checking package dependencies ... NOTE
+
+* gFormulaMI
+ checking package dependencies ... ERROR
+
+* ggeffects
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* ggmice
+ checking package dependencies ... ERROR
+
+* gtsummary
+ checking package dependencies ... NOTE
+
+* HardyWeinberg
+ checking package dependencies ... ERROR
+
+* hhsmm
+ checking package dependencies ... ERROR
+
+* Hmisc
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* holodeck
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* hot.deck
+ checking package dependencies ... ERROR
+
+* howManyImputations
+ checking package dependencies ... ERROR
+
+* HSAUR3
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* idem
+ checking package dependencies ... ERROR
+
+* ImputeRobust
+ checking package dependencies ... ERROR
+
+* insight
+ checking package dependencies ... NOTE
+
+* intmed
+ checking package dependencies ... ERROR
+
+* IPWboxplot
+ checking examples ... ERROR
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* JWileymisc
+ checking package dependencies ... ERROR
+
+* konfound
+ checking package dependencies ... NOTE
+
+* lavaan.survey
+ checking package dependencies ... NOTE
+
+* LMMstar
+ checking tests ...
+ checking package dependencies ... NOTE
+
+* logistf
+ checking package dependencies ... ERROR
+
+* manymome
+ checking package dependencies ... NOTE
+
+* marginaleffects
+ checking package dependencies ... NOTE
* MatchThem
- checking Rd cross-references ... WARNING
+ checking package dependencies ... ERROR
+
+* mdapack
+ checking package dependencies ... ERROR
+
+* medflex
+ checking package dependencies ... NOTE
+
+* metavcov
+ checking package dependencies ... NOTE
+
+* mi4p
+ checking package dependencies ... ERROR
+
+* micd
+ checking package dependencies ... ERROR
+
+* miceadds
+ checking package dependencies ... ERROR
+
+* miceafter
+ checking package dependencies ... ERROR
+
+* miceFast
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* micemd
+ checking package dependencies ... ERROR
+
+* microeco
+ checking package dependencies ... NOTE
+
+* midastouch
+ checking examples ... ERROR
+ checking package dependencies ... NOTE
+
+* midoc
+ checking package dependencies ... ERROR
+
+* mifa
+ checking package dependencies ... ERROR
+
+* MIIPW
+ checking package dependencies ... ERROR
+
+* misaem
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* miselect
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* missCompare
+ checking package dependencies ... ERROR
+
+* missDiag
+ checking examples ... ERROR
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* missMDA
+ checking package dependencies ... ERROR
+
+* misty
+ checking package dependencies ... NOTE
+
+* mitml
+ checking examples ... ERROR
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* miWQS
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* mixgb
+ checking package dependencies ... ERROR
+
+* MixtureMissing
+ checking package dependencies ... ERROR
+
+* mlim
+ checking package dependencies ... ERROR
+
+* modelsummary
+ checking package dependencies ... NOTE
+
+* monoClust
+ checking package dependencies ... NOTE
+
+* MRPC
+ checking package dependencies ... ERROR
+
+* MSiP
+ checking package dependencies ... ERROR
+
+* mvnimpute
+ checking package dependencies ... NOTE
+
+* mvs
+ checking tests ...
+ checking package dependencies ... NOTE
+
+* NADIA
+ checking package dependencies ... ERROR
+
+* NIMAA
+ checking package dependencies ... ERROR
+
+* nncc
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* ordbetareg
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* OTrecod
+ checking package dependencies ... ERROR
+
+* parameters
+ checking package dependencies ... NOTE
+
+* pema
+ checking tests ...
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* pguIMP
+ checking package dependencies ... ERROR
* pre
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* psfmi
+ checking package dependencies ... ERROR
+
+* qgcomp
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* Qtools
+ checking package dependencies ... NOTE
+
+* RBtest
+ checking package dependencies ... ERROR
+
+* realTimeloads
+ checking package dependencies ... ERROR
+
+* RefBasedMI
+ checking package dependencies ... ERROR
+
+* regmedint
+ checking running R code from vignettes ...
+ checking package dependencies ... NOTE
+
+* RegularizedSCA
+ checking package dependencies ... ERROR
+
+* Replication
+ checking package dependencies ... ERROR
+
+* RfEmpImp
+ checking package dependencies ... ERROR
+
+* rms
+ checking package dependencies ... NOTE
+
+* rqlm
+ checking package dependencies ... ERROR
+
+* RSquaredMI
+ checking package dependencies ... ERROR
+
+* semmcci
+ checking package dependencies ... ERROR
+
+* semTools
+ checking examples ... ERROR
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* seqimpute
+ checking package dependencies ... ERROR
+
+* shapeNA
+ checking examples ... ERROR
+ checking package dependencies ... NOTE
+
+* sjmisc
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* smdi
+ checking package dependencies ... ERROR
+
+* sociome
+ checking package dependencies ... ERROR
+
+* StackImpute
+ checking package dependencies ... ERROR
+
+* superMICE
+ checking package dependencies ... ERROR
+
+* svyweight
+ checking package dependencies ... NOTE
+ checking Rd cross-references ... NOTE
+
+* SynDI
+ checking package dependencies ... ERROR
+
+* TestDataImputation
+ checking package dependencies ... ERROR
+
+* tidySEM
+ checking examples ... ERROR
checking tests ...
+ checking package dependencies ... NOTE
+
+* vsmi
+ checking package dependencies ... ERROR
+
+* weights
+ checking package dependencies ... ERROR
### Failed to check
-* dynr (NA)
-* idem (NA)
-* pguIMP (NA)
-* Replication (NA)
+* brms (NA)
+* MKinfer (NA)
+* rmsb (NA)
diff --git a/revdep/failures.md b/revdep/failures.md
index 715516b8c..c023995c0 100644
--- a/revdep/failures.md
+++ b/revdep/failures.md
@@ -1,151 +1,60 @@
-# dynr
+# brms
-* Version: 0.1.16-91
-* GitHub: https://github.com/mhunter1/dynr
-* Source code: https://github.com/cran/dynr
-* Date/Publication: 2022-10-17 07:02:35 UTC
-* Number of recursive dependencies: 122
+* Version: 2.22.0
+* GitHub: https://github.com/paul-buerkner/brms
+* Source code: https://github.com/cran/brms
+* Date/Publication: 2024-09-23 13:00:29 UTC
+* Number of recursive dependencies: 203
-Run `revdepcheck::revdep_details(, "dynr")` for more info
+Run `revdepcheck::revdep_details(, "brms")` for more info
## In both
-* checking whether package ‘dynr’ can be installed ... ERROR
+* R CMD check timed out
+
+
+* checking package dependencies ... NOTE
```
- Installation failed.
- See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/dynr/new/dynr.Rcheck/00install.out’ for details.
+ Packages suggested but not available for checking: 'cmdstanr', 'mice'
```
-## Installation
-
-### Devel
-
-```
-* installing *source* package ‘dynr’ ...
-** package ‘dynr’ successfully unpacked and MD5 sums checked
-** using staged installation
-checking for gsl-config... no
-configure: error: gsl-config not found, is GSL installed?
-ERROR: configuration failed for package ‘dynr’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/dynr/new/dynr.Rcheck/dynr’
-
-
-```
-### CRAN
-
-```
-* installing *source* package ‘dynr’ ...
-** package ‘dynr’ successfully unpacked and MD5 sums checked
-** using staged installation
-checking for gsl-config... no
-configure: error: gsl-config not found, is GSL installed?
-ERROR: configuration failed for package ‘dynr’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/dynr/old/dynr.Rcheck/dynr’
+* checking installed package size ... NOTE
+ ```
+ installed size is 9.0Mb
+ sub-directories of 1Mb or more:
+ R 4.0Mb
+ doc 3.6Mb
+ ```
-
-```
-# idem
+# MKinfer
-* Version: 5.1
-* GitHub: https://github.com/olssol/idem
-* Source code: https://github.com/cran/idem
-* Date/Publication: 2021-01-27 09:40:02 UTC
-* Number of recursive dependencies: 104
+* Version: 1.2
+* GitHub: https://github.com/stamats/MKinfer
+* Source code: https://github.com/cran/MKinfer
+* Date/Publication: 2024-04-06 10:42:58 UTC
+* Number of recursive dependencies: 103
-Run `revdepcheck::revdep_details(, "idem")` for more info
+Run `revdepcheck::revdep_details(, "MKinfer")` for more info
-## In both
+## Newly broken
-* checking whether package ‘idem’ can be installed ... ERROR
+* checking whether package ‘MKinfer’ can be installed ... ERROR
```
Installation failed.
- See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/idem/new/idem.Rcheck/00install.out’ for details.
+ See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/MKinfer/new/MKinfer.Rcheck/00install.out’ for details.
```
-## Installation
-
-### Devel
-
-```
-* installing *source* package ‘idem’ ...
-** package ‘idem’ successfully unpacked and MD5 sums checked
-** using staged installation
-** libs
-using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
-using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
-using C++14
-using SDK: ‘’
-"/Library/Frameworks/R.framework/Resources/bin/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/idem.stan
-Wrote C++ file "stan_files/idem.cc"
-...
-In file included from /Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/idem/StanHeaders/include/stan/math/rev/core/Eigen_NumTraits.hpp:5:
-In file included from /Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/idem/StanHeaders/include/stan/math/prim/core.hpp:4:
-/Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/idem/StanHeaders/include/stan/math/prim/core/init_threadpool_tbb.hpp:12:10: fatal error: 'tbb/task_scheduler_init.h' file not found
-#include
- ^~~~~~~~~~~~~~~~~~~~~~~~~~~
-22 warnings and 1 error generated.
-make: *** [stan_files/idem.o] Error 1
-rm stan_files/idem.cc
-ERROR: compilation failed for package ‘idem’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/idem/new/idem.Rcheck/idem’
-
-
-```
-### CRAN
-
-```
-* installing *source* package ‘idem’ ...
-** package ‘idem’ successfully unpacked and MD5 sums checked
-** using staged installation
-** libs
-using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
-using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
-using C++14
-using SDK: ‘’
-"/Library/Frameworks/R.framework/Resources/bin/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/idem.stan
-Wrote C++ file "stan_files/idem.cc"
-...
-In file included from /Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/idem/StanHeaders/include/stan/math/rev/core/Eigen_NumTraits.hpp:5:
-In file included from /Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/idem/StanHeaders/include/stan/math/prim/core.hpp:4:
-/Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/idem/StanHeaders/include/stan/math/prim/core/init_threadpool_tbb.hpp:12:10: fatal error: 'tbb/task_scheduler_init.h' file not found
-#include
- ^~~~~~~~~~~~~~~~~~~~~~~~~~~
-22 warnings and 1 error generated.
-make: *** [stan_files/idem.o] Error 1
-rm stan_files/idem.cc
-ERROR: compilation failed for package ‘idem’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/idem/old/idem.Rcheck/idem’
-
-
-```
-# pguIMP
-
-
-
-* Version: 0.0.0.3
-* GitHub: https://github.com/SMLMS/pguIMP
-* Source code: https://github.com/cran/pguIMP
-* Date/Publication: 2021-09-30 11:50:02 UTC
-* Number of recursive dependencies: 217
-
-Run `revdepcheck::revdep_details(, "pguIMP")` for more info
-
-
-
-## In both
-
-* checking whether package ‘pguIMP’ can be installed ... ERROR
+* checking package dependencies ... NOTE
```
- Installation failed.
- See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/pguIMP/new/pguIMP.Rcheck/00install.out’ for details.
+ Package suggested but not available for checking: ‘mice’
```
## Installation
@@ -153,61 +62,70 @@ Run `revdepcheck::revdep_details(, "pguIMP")` for more info
### Devel
```
-* installing *source* package ‘pguIMP’ ...
-** package ‘pguIMP’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘MKinfer’ ...
+** package ‘MKinfer’ successfully unpacked and MD5 sums checked
** using staged installation
** R
+** data
+*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
-Error: .onLoad failed in loadNamespace() for 'rJava', details:
- call: dyn.load(jli, FALSE)
- error: unable to load shared object '/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib':
- dlopen(/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib, 0x000A): tried: '/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/System/Volumes/Preboot/Cryptexes/OS/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib' (no such file), '/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64'))
+Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
+ there is no package called ‘mice’
+Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
-ERROR: lazy loading failed for package ‘pguIMP’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/pguIMP/new/pguIMP.Rcheck/pguIMP’
+ERROR: lazy loading failed for package ‘MKinfer’
+* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/MKinfer/new/MKinfer.Rcheck/MKinfer’
```
### CRAN
```
-* installing *source* package ‘pguIMP’ ...
-** package ‘pguIMP’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘MKinfer’ ...
+** package ‘MKinfer’ successfully unpacked and MD5 sums checked
** using staged installation
** R
+** data
+*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
-Error: .onLoad failed in loadNamespace() for 'rJava', details:
- call: dyn.load(jli, FALSE)
- error: unable to load shared object '/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib':
- dlopen(/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib, 0x000A): tried: '/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/System/Volumes/Preboot/Cryptexes/OS/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib' (no such file), '/Library/Java/JavaVirtualMachines/jdk1.8.0_144.jdk/Contents/Home/jre/lib/jli/libjli.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64'))
-Execution halted
-ERROR: lazy loading failed for package ‘pguIMP’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/pguIMP/old/pguIMP.Rcheck/pguIMP’
+** help
+*** installing help indices
+** building package indices
+** installing vignettes
+** testing if installed package can be loaded from temporary location
+** testing if installed package can be loaded from final location
+** testing if installed package keeps a record of temporary installation path
+* DONE (MKinfer)
```
-# Replication
+# rmsb
-* Version: 0.1.2
+* Version: 1.1-1
* GitHub: NA
-* Source code: https://github.com/cran/Replication
-* Date/Publication: 2020-04-09 12:10:02 UTC
-* Number of recursive dependencies: 90
+* Source code: https://github.com/cran/rmsb
+* Date/Publication: 2024-07-08 11:10:03 UTC
+* Number of recursive dependencies: 135
-Run `revdepcheck::revdep_details(, "Replication")` for more info
+Run `revdepcheck::revdep_details(, "rmsb")` for more info
## In both
-* checking whether package ‘Replication’ can be installed ... ERROR
+* checking whether package ‘rmsb’ can be installed ... ERROR
```
Installation failed.
- See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/Replication/new/Replication.Rcheck/00install.out’ for details.
+ See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/rmsb/new/rmsb.Rcheck/00install.out’ for details.
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Packages suggested but not available for checking: 'cmdstanr', 'mice'
```
## Installation
@@ -215,40 +133,28 @@ Run `revdepcheck::revdep_details(, "Replication")` for more info
### Devel
```
-* installing *source* package ‘Replication’ ...
-** package ‘Replication’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘rmsb’ ...
+** package ‘rmsb’ successfully unpacked and MD5 sums checked
** using staged installation
-** R
-** byte-compile and prepare package for lazy loading
-Error: .onLoad failed in loadNamespace() for 'rjags', details:
- call: dyn.load(file, DLLpath = DLLpath, ...)
- error: unable to load shared object '/Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/Replication/rjags/libs/rjags.so':
- dlopen(/Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/Replication/rjags/libs/rjags.so, 0x000A): Library not loaded: /usr/local/lib/libjags.4.dylib
- Referenced from: <7F6B5629-D6B5-35D1-BEDC-76C09B11A283> /Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/Replication/rjags/libs/rjags.so
- Reason: tried: '/usr/local/lib/libjags.4.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/System/Volumes/Preboot/Cryptexes/OS/usr/local/lib/libjags.4.dylib' (no such file), '/usr/local/lib/libjags.4.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/Library/Frameworks/R.framework/Resources/lib/libjags.4.dylib' (no such file), '/Library/Java/Jav
+Error in loadNamespace(x) : there is no package called ‘rstantools’
+Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
-ERROR: lazy loading failed for package ‘Replication’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/Replication/new/Replication.Rcheck/Replication’
+ERROR: configuration failed for package ‘rmsb’
+* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/rmsb/new/rmsb.Rcheck/rmsb’
```
### CRAN
```
-* installing *source* package ‘Replication’ ...
-** package ‘Replication’ successfully unpacked and MD5 sums checked
+* installing *source* package ‘rmsb’ ...
+** package ‘rmsb’ successfully unpacked and MD5 sums checked
** using staged installation
-** R
-** byte-compile and prepare package for lazy loading
-Error: .onLoad failed in loadNamespace() for 'rjags', details:
- call: dyn.load(file, DLLpath = DLLpath, ...)
- error: unable to load shared object '/Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/Replication/rjags/libs/rjags.so':
- dlopen(/Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/Replication/rjags/libs/rjags.so, 0x000A): Library not loaded: /usr/local/lib/libjags.4.dylib
- Referenced from: <7F6B5629-D6B5-35D1-BEDC-76C09B11A283> /Users/buurensv/Dropbox/Package/mice/mice/revdep/library.noindex/Replication/rjags/libs/rjags.so
- Reason: tried: '/usr/local/lib/libjags.4.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/System/Volumes/Preboot/Cryptexes/OS/usr/local/lib/libjags.4.dylib' (no such file), '/usr/local/lib/libjags.4.dylib' (mach-o file, but is an incompatible architecture (have 'x86_64', need 'arm64')), '/Library/Frameworks/R.framework/Resources/lib/libjags.4.dylib' (no such file), '/Library/Java/Jav
+Error in loadNamespace(x) : there is no package called ‘rstantools’
+Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
-ERROR: lazy loading failed for package ‘Replication’
-* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/Replication/old/Replication.Rcheck/Replication’
+ERROR: configuration failed for package ‘rmsb’
+* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/rmsb/old/rmsb.Rcheck/rmsb’
```
diff --git a/revdep/problems.md b/revdep/problems.md
index 10547f818..5d1d77342 100644
--- a/revdep/problems.md
+++ b/revdep/problems.md
@@ -1,3 +1,342 @@
+# accelmissing
+
+
+
+* Version: 1.4
+* GitHub: NA
+* Source code: https://github.com/cran/accelmissing
+* Date/Publication: 2018-04-06 03:21:33 UTC
+* Number of recursive dependencies: 61
+
+Run `revdepcheck::revdep_details(, "accelmissing")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) accelimp.Rd:15: Lost braces
+ 15 | \item[]{...}
+ | ^
+ ```
+
+# adjustedCurves
+
+
+
+* Version: 0.11.2
+* GitHub: https://github.com/RobinDenz1/adjustedCurves
+* Source code: https://github.com/cran/adjustedCurves
+* Date/Publication: 2024-07-29 14:30:02 UTC
+* Number of recursive dependencies: 174
+
+Run `revdepcheck::revdep_details(, "adjustedCurves")` for more info
+
+
+
+## Newly broken
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+
+ Attaching package: 'eventglm'
+
+ The following objects are masked from 'package:prodlim':
+
+ leaveOneOut.competing.risks, leaveOneOut.survival
+
+ The following objects are masked from 'package:survival':
+
+ colon, mgus2
+
+ > library(rmarkdown)
+ > library(mice)
+ Error in library(mice) : there is no package called 'mice'
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# alookr
+
+
+
+* Version: 0.3.9
+* GitHub: https://github.com/choonghyunryu/alookr
+* Source code: https://github.com/cran/alookr
+* Date/Publication: 2024-02-11 07:30:02 UTC
+* Number of recursive dependencies: 167
+
+Run `revdepcheck::revdep_details(, "alookr")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# autoReg
+
+
+
+* Version: 0.3.3
+* GitHub: https://github.com/cardiomoon/autoReg
+* Source code: https://github.com/cran/autoReg
+* Date/Publication: 2023-11-14 05:53:27 UTC
+* Number of recursive dependencies: 212
+
+Run `revdepcheck::revdep_details(, "autoReg")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# BaM
+
+
+
+* Version: 1.0.3
+* GitHub: NA
+* Source code: https://github.com/cran/BaM
+* Date/Publication: 2022-10-14 11:25:17 UTC
+* Number of recursive dependencies: 61
+
+Run `revdepcheck::revdep_details(, "BaM")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# basecamb
+
+
+
+* Version: 1.1.5
+* GitHub: https://github.com/codeblue-team/basecamb
+* Source code: https://github.com/cran/basecamb
+* Date/Publication: 2024-04-22 19:10:07 UTC
+* Number of recursive dependencies: 127
+
+Run `revdepcheck::revdep_details(, "basecamb")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# betaMC
+
+
+
+* Version: 1.3.2
+* GitHub: https://github.com/jeksterslab/betaMC
+* Source code: https://github.com/cran/betaMC
+* Date/Publication: 2024-04-14 18:00:09 UTC
+* Number of recursive dependencies: 96
+
+Run `revdepcheck::revdep_details(, "betaMC")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘betaMC-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: MCMI
+ > ### Title: Generate the Sampling Distribution of Regression Parameters
+ > ### Using the Monte Carlo Method for Data with Missing Values
+ > ### Aliases: MCMI
+ > ### Keywords: betaMC mc
+ >
+ > ### ** Examples
+ >
+ > # Data ---------------------------------------------------------------------
+ > data("nas1982", package = "betaMC")
+ > nas1982_missing <- mice::ampute(nas1982)$amp # data set with missing values
+ Error in loadNamespace(x) : there is no package called ‘mice’
+ Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+ Execution halted
+ ```
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ ── Error ('test-betaMC-s-cor-mc-est-mi.R:21:5'): (code run outside of `test_that()`) ──
+
+ Error in `loadNamespace(x)`: there is no package called 'mice'
+ Backtrace:
+ ▆
+ 1. ├─base::lapply(...) at test-betaMC-s-cor-mc-est-mi.R:2:1
+ 2. │ └─betaMC (local) FUN(X[[i]], ...)
+ 3. └─base::loadNamespace(x) at test-betaMC-s-cor-mc-est-mi.R:21:5
+ 4. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
+ 5. └─base (local) withOneRestart(expr, restarts[[1L]])
+ 6. └─base (local) doWithOneRestart(return(expr), restart)
+
+ [ FAIL 8 | WARN 0 | SKIP 0 | PASS 45 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# BGGM
+
+
+
+* Version: 2.1.3
+* GitHub: https://github.com/donaldRwilliams/BGGM
+* Source code: https://github.com/cran/BGGM
+* Date/Publication: 2024-07-05 20:30:02 UTC
+* Number of recursive dependencies: 194
+
+Run `revdepcheck::revdep_details(, "BGGM")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘control.Rmd’ using ‘UTF-8’... OK
+ ‘hyp_3_ways.Rmd’ using ‘UTF-8’... OK
+ ‘in_tandem.Rmd’ using ‘UTF-8’... OK
+ ‘installation.Rmd’ using ‘UTF-8’... OK
+ ‘mcmc_diagnostics.Rmd’ using ‘UTF-8’... OK
+ ‘netplot.Rmd’ using ‘UTF-8’... OK
+ ‘netstat_custom.Rmd’ using ‘UTF-8’... failed
+ ‘ppc_custom.Rmd’ using ‘UTF-8’... failed
+ ‘predictability.Rmd’ using ‘UTF-8’... OK
+ ‘test_sum.Rmd’ using ‘UTF-8’... OK
+ ...
+ > library(ggplot2)
+
+ > library(assortnet)
+
+ > library(networktools)
+
+ When sourcing ‘ppc_custom.R’:
+ Error: package or namespace load failed for ‘networktools’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+## In both
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 6.0Mb
+ sub-directories of 1Mb or more:
+ doc 3.4Mb
+ help 1.1Mb
+ ```
+
+# biokNN
+
+
+
+* Version: 0.1.0
+* GitHub: https://github.com/mcubillos3/biokNN
+* Source code: https://github.com/cran/biokNN
+* Date/Publication: 2021-04-22 07:20:15 UTC
+* Number of recursive dependencies: 105
+
+Run `revdepcheck::revdep_details(, "biokNN")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespaces in Imports field not imported from:
+ ‘desc’ ‘lme4’ ‘mitml’
+ All declared Imports should be used.
+ ```
+
# bipd
@@ -6,7 +345,7 @@
* GitHub: NA
* Source code: https://github.com/cran/bipd
* Date/Publication: 2022-06-05 16:10:05 UTC
-* Number of recursive dependencies: 109
+* Number of recursive dependencies: 150
Run `revdepcheck::revdep_details(, "bipd")` for more info
@@ -14,12 +353,19 @@ Run `revdepcheck::revdep_details(, "bipd")` for more info
## Newly broken
-* checking dependencies in R code ...sh: line 1: 64105 Segmentation fault: 11 R_DEFAULT_PACKAGES=NULL '/Library/Frameworks/R.framework/Resources/bin/R' --vanilla --no-echo 2>&1 < '/var/folders/5_/g85d42yj50b6lrjq4rzjzg8w0000gn/T//RtmpcESnnw/filef7d530e954ed'
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ...sh: line 1: 46040 Segmentation fault: 11 R_DEFAULT_PACKAGES=NULL '/Library/Frameworks/R.framework/Resources/bin/R' --vanilla --no-echo 2>&1 < '/var/folders/5_/g85d42yj50b6lrjq4rzjzg8w0000gn/T//RtmpkYA44J/fileb0ba2764bcb7'
```
NOTE
*** caught segfault ***
- address 0x6c65432f6c61636f, cause 'invalid permissions'
+ address 0x656d756c6f562f6d, cause 'invalid permissions'
Traceback:
1: dyn.load(file, DLLpath = DLLpath, ...)
@@ -39,93 +385,4103 @@ Run `revdepcheck::revdep_details(, "bipd")` for more info
An irrecoverable exception occurred. R is aborting now ...
```
-## Newly fixed
+## In both
-* checking dependencies in R code ...sh: line 1: 64022 Segmentation fault: 11 R_DEFAULT_PACKAGES=NULL '/Library/Frameworks/R.framework/Resources/bin/R' --vanilla --no-echo 2>&1 < '/var/folders/5_/g85d42yj50b6lrjq4rzjzg8w0000gn/T//RtmpPAGHHl/filef76c784da58a'
+* checking running R code from vignettes ...
```
- NOTE
+ ‘IPD-meta-analysis-with-missing-data.Rmd’ using ‘UTF-8’... failed
+ ‘IPD-meta-analysis.Rmd’ using ‘UTF-8’... failed
+ ‘Imputing-missing-values-in-IPD.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘IPD-meta-analysis-with-missing-data.Rmd’
+ ...
+ 3 2.61 -1.31 1 0 -1.23 0.165 1 1
+ 4 1.47 -0.590 1 1 0.435 0.345 1 0
+ 5 4.39 1.20 1 1 0.0561 0.287 1 0
+ ...
+ [1] "x3" "x4" "x5"
- *** caught segfault ***
- address 0x6c65432f6c61636f, cause 'invalid permissions'
+ > missP2$spor_covariates
+ [1] "x1"
- Traceback:
- 1: dyn.load(file, DLLpath = DLLpath, ...)
- 2: library.dynam(lib, package, package.lib)
- 3: loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
- 4: asNamespace(ns)
- ...
- 7: withCallingHandlers(expr, message = function(c) if (inherits(c, classes)) tryInvokeRestart("muffleMessage"))
- 8: suppressMessages(loadNamespace(p))
- 9: withCallingHandlers(expr, warning = function(w) if (inherits(w, classes)) tryInvokeRestart("muffleWarning"))
- 10: suppressWarnings(suppressMessages(loadNamespace(p)))
- 11: doTryCatch(return(expr), name, parentenv, handler)
- 12: tryCatchOne(expr, names, parentenv, handlers[[1L]])
- 13: tryCatchList(expr, classes, parentenv, handlers)
- 14: tryCatch(suppressWarnings(suppressMessages(loadNamespace(p))), error = function(e) e)
- 15: tools:::.check_packages_used(package = "bipd")
- An irrecoverable exception occurred. R is aborting now ...
+ > library(mice)
+
+ When sourcing ‘Imputing-missing-values-in-IPD.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
```
-# MatchThem
+# bootImpute
-* Version: 1.0.1
-* GitHub: https://github.com/FarhadPishgar/MatchThem
-* Source code: https://github.com/cran/MatchThem
-* Date/Publication: 2021-08-23 07:11:42 UTC
-* Number of recursive dependencies: 63
+* Version: 1.2.1
+* GitHub: NA
+* Source code: https://github.com/cran/bootImpute
+* Date/Publication: 2023-06-01 10:30:02 UTC
+* Number of recursive dependencies: 82
-Run `revdepcheck::revdep_details(, "MatchThem")` for more info
+Run `revdepcheck::revdep_details(, "bootImpute")` for more info
## Newly broken
-* checking Rd cross-references ... WARNING
+* checking package dependencies ... ERROR
```
- Missing link or links in documentation object 'cbind.Rd':
- ‘[mice:cbind.mids]{mice::cbind.mids}’
+ Package required but not available: ‘mice’
- See section 'Cross-references' in the 'Writing R Extensions' manual.
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
```
-# pre
+# brokenstick
-* Version: 1.0.6
-* GitHub: https://github.com/marjoleinF/pre
-* Source code: https://github.com/cran/pre
-* Date/Publication: 2023-02-12 22:50:02 UTC
-* Number of recursive dependencies: 137
+* Version: 2.5.0
+* GitHub: https://github.com/growthcharts/brokenstick
+* Source code: https://github.com/cran/brokenstick
+* Date/Publication: 2023-03-22 23:00:06 UTC
+* Number of recursive dependencies: 117
-Run `revdepcheck::revdep_details(, "pre")` for more info
+Run `revdepcheck::revdep_details(, "brokenstick")` for more info
## Newly broken
-* checking tests ...
+* checking package dependencies ... NOTE
```
- Running ‘testthat.R’
- ERROR
- Running the tests in ‘tests/testthat.R’ failed.
- Last 13 lines of output:
- > test_check("pre")
- [ FAIL 1 | WARN 0 | SKIP 0 | PASS 122 ]
-
- ══ Failed tests ════════════════════════════════════════════════════════════════
- ── Error ('test_pre_misc.R:94:3'): cvpre gives previous results with airquality data ──
- Error in `serverSocket(port = port)`: creation of server socket failed: port 11471 cannot be opened
- Backtrace:
- ▆
- 1. └─parallel::makeCluster(2L) at test_pre_misc.R:94:2
- 2. └─parallel::makePSOCKcluster(names = spec, ...)
- 3. └─base::serverSocket(port = port)
-
- [ FAIL 1 | WARN 0 | SKIP 0 | PASS 122 ]
- Error: Test failures
- Execution halted
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# broom.helpers
+
+
+
+* Version: 1.17.0
+* GitHub: https://github.com/larmarange/broom.helpers
+* Source code: https://github.com/cran/broom.helpers
+* Date/Publication: 2024-08-28 12:30:02 UTC
+* Number of recursive dependencies: 241
+
+Run `revdepcheck::revdep_details(, "broom.helpers")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# CALIBERrfimpute
+
+
+
+* Version: 1.0-7
+* GitHub: NA
+* Source code: https://github.com/cran/CALIBERrfimpute
+* Date/Publication: 2022-12-04 21:02:32 UTC
+* Number of recursive dependencies: 69
+
+Run `revdepcheck::revdep_details(, "CALIBERrfimpute")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# cati
+
+
+
+* Version: 0.99.4
+* GitHub: https://github.com/adrientaudiere/cati
+* Source code: https://github.com/cran/cati
+* Date/Publication: 2022-02-25 10:10:05 UTC
+* Number of recursive dependencies: 174
+
+Run `revdepcheck::revdep_details(, "cati")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# censcyt
+
+
+
+* Version: 1.14.0
+* GitHub: https://github.com/retogerber/censcyt
+* Source code: https://github.com/cran/censcyt
+* Date/Publication: 2024-10-29
+* Number of recursive dependencies: 202
+
+Run `revdepcheck::revdep_details(, "censcyt")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking for hidden files and directories ... NOTE
+ ```
+ Found the following hidden files and directories:
+ .travis.yml
+ These were most likely included in error. See section ‘Package
+ structure’ in the ‘Writing R Extensions’ manual.
+ ```
+
+* checking DESCRIPTION meta-information ... NOTE
+ ```
+ License stub is invalid DCF.
+ ```
+
+* checking R code for possible problems ... NOTE
+ ```
+ mean_residual_life_imputation: no visible binding for global variable
+ ‘hazard’
+ Undefined global functions or variables:
+ hazard
+ ```
+
+# CIMPLE
+
+
+
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/CIMPLE
+* Date/Publication: 2024-11-12 13:20:10 UTC
+* Number of recursive dependencies: 80
+
+Run `revdepcheck::revdep_details(, "CIMPLE")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# ClustAll
+
+
+
+* Version: 1.2.0
+* GitHub: NA
+* Source code: https://github.com/cran/ClustAll
+* Date/Publication: 2024-10-29
+* Number of recursive dependencies: 186
+
+Run `revdepcheck::revdep_details(, "ClustAll")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# clusterMI
+
+
+
+* Version: 1.2.2
+* GitHub: NA
+* Source code: https://github.com/cran/clusterMI
+* Date/Publication: 2024-10-23 13:40:02 UTC
+* Number of recursive dependencies: 246
+
+Run `revdepcheck::revdep_details(, "clusterMI")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# cmahalanobis
+
+
+
+* Version: 0.4.2
+* GitHub: NA
+* Source code: https://github.com/cran/cmahalanobis
+* Date/Publication: 2024-09-23 22:00:22 UTC
+* Number of recursive dependencies: 106
+
+Run `revdepcheck::revdep_details(, "cmahalanobis")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# cobalt
+
+
+
+* Version: 4.5.5
+* GitHub: https://github.com/ngreifer/cobalt
+* Source code: https://github.com/cran/cobalt
+* Date/Publication: 2024-04-02 21:25:01 UTC
+* Number of recursive dependencies: 173
+
+Run `revdepcheck::revdep_details(, "cobalt")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘cobalt.Rmd’ using ‘UTF-8’... OK
+ ‘faq.Rmd’ using ‘UTF-8’... OK
+ ‘longitudinal-treat.Rmd’ using ‘UTF-8’... OK
+ ‘love.plot.Rmd’ using ‘UTF-8’... OK
+ ‘optimizing-balance.Rmd’ using ‘UTF-8’... OK
+ ‘other-packages.Rmd’ using ‘UTF-8’... OK
+ ‘segmented-data.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘segmented-data.Rmd’
+ ...
+
+ > set.seed(100)
+
+ > m <- 10
+
+ > imp.out <- mice::mice(lalonde_mis, m = m, print = FALSE)
+
+ When sourcing ‘segmented-data.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# dlookr
+
+
+
+* Version: 0.6.3
+* GitHub: https://github.com/choonghyunryu/dlookr
+* Source code: https://github.com/cran/dlookr
+* Date/Publication: 2024-02-07 12:00:06 UTC
+* Number of recursive dependencies: 168
+
+Run `revdepcheck::revdep_details(, "dlookr")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# dynamite
+
+
+
+* Version: 1.5.5
+* GitHub: https://github.com/ropensci/dynamite
+* Source code: https://github.com/cran/dynamite
+* Date/Publication: 2024-11-15 20:10:02 UTC
+* Number of recursive dependencies: 137
+
+Run `revdepcheck::revdep_details(, "dynamite")` for more info
+
+
+
+## Newly broken
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+## In both
+
+* checking package dependencies ... NOTE
+ ```
+ Packages suggested but not available for checking: 'cmdstanr', 'mice'
+ ```
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 13.1Mb
+ sub-directories of 1Mb or more:
+ R 3.6Mb
+ data 8.1Mb
+ doc 1.1Mb
+ ```
+
+# dynr
+
+
+
+* Version: 0.1.16-105
+* GitHub: https://github.com/mhunter1/dynr
+* Source code: https://github.com/cran/dynr
+* Date/Publication: 2023-11-28 05:20:05 UTC
+* Number of recursive dependencies: 147
+
+Run `revdepcheck::revdep_details(, "dynr")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking whether package ‘dynr’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/dynr/old/dynr.Rcheck/00install.out’ for details.
+ ```
+
+# eatRep
+
+
+
+* Version: 0.14.7
+* GitHub: https://github.com/weirichs/eatRep
+* Source code: https://github.com/cran/eatRep
+* Date/Publication: 2023-03-26 22:30:10 UTC
+* Number of recursive dependencies: 182
+
+Run `revdepcheck::revdep_details(, "eatRep")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# finalfit
+
+
+
+* Version: 1.0.8
+* GitHub: https://github.com/ewenharrison/finalfit
+* Source code: https://github.com/cran/finalfit
+* Date/Publication: 2024-07-24 15:20:01 UTC
+* Number of recursive dependencies: 176
+
+Run `revdepcheck::revdep_details(, "finalfit")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 5.6Mb
+ sub-directories of 1Mb or more:
+ doc 4.9Mb
+ ```
+
+# FLAME
+
+
+
+* Version: 2.1.1
+* GitHub: https://github.com/vittorioorlandi/FLAME
+* Source code: https://github.com/cran/FLAME
+* Date/Publication: 2021-12-07 22:50:02 UTC
+* Number of recursive dependencies: 96
+
+Run `revdepcheck::revdep_details(, "FLAME")` for more info
+
+
+
+## Newly broken
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ 4. └─FLAME:::preprocess(...)
+ 5. └─FLAME:::check_args(...)
+ ── Error ('test_one_covariate.R:55:3'): runs with 'impute' missingness ─────────
+ Error: Package `mice` needed to impute missing values. Please install it or select different options for `missing_data`.
+ Backtrace:
+ ▆
+ 1. └─FLAME::FLAME(df, holdout, missing_data = "impute", missing_holdout = "impute") at test_one_covariate.R:55:3
+ 2. ├─base::do.call(...)
+ 3. └─FLAME (local) ``(...)
+ 4. └─FLAME:::preprocess(...)
+ 5. └─FLAME:::check_args(...)
+
+ [ FAIL 4 | WARN 5 | SKIP 0 | PASS 4597 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+* checking running R code from vignettes ...
+ ```
+ ‘intro_to_AME.Rmd’ using ‘UTF-8’... failed
+ ERROR
+ Errors in running code in vignettes:
+ when running code in ‘intro_to_AME.Rmd’
+ ...
+ 20 1 2 2 2 3 0 0
+ 57 1 2 2 2 3 1 0
+
+
+ > DAME_impute <- DAME(data, holdout, missing_data = "impute",
+ + verbose = 0)
+
+ When sourcing ‘intro_to_AME.R’:
+ Error: Package `mice` needed to impute missing values. Please install it or select different options for `missing_data`.
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# flevr
+
+
+
+* Version: 0.0.4
+* GitHub: https://github.com/bdwilliamson/flevr
+* Source code: https://github.com/cran/flevr
+* Date/Publication: 2023-11-30 10:20:05 UTC
+* Number of recursive dependencies: 148
+
+Run `revdepcheck::revdep_details(, "flevr")` for more info
+
+
+
+## Newly broken
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ step half ouch...
+ warning - model size was reduced
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 10 ]
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Error ('test-intrinsic_selection.R:7:1'): (code run outside of `test_that()`) ──
+
+ Error in `library("mice")`: there is no package called 'mice'
+ Backtrace:
+ ▆
+ 1. └─base::library("mice") at test-intrinsic_selection.R:7:1
+
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 10 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# gerbil
+
+
+
+* Version: 0.1.9
+* GitHub: NA
+* Source code: https://github.com/cran/gerbil
+* Date/Publication: 2023-01-12 11:20:02 UTC
+* Number of recursive dependencies: 117
+
+Run `revdepcheck::revdep_details(, "gerbil")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# gFormulaMI
+
+
+
+* Version: 1.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/gFormulaMI
+* Date/Publication: 2023-05-25 20:00:08 UTC
+* Number of recursive dependencies: 93
+
+Run `revdepcheck::revdep_details(, "gFormulaMI")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# ggeffects
+
+
+
+* Version: 1.7.2
+* GitHub: https://github.com/strengejacke/ggeffects
+* Source code: https://github.com/cran/ggeffects
+* Date/Publication: 2024-10-13 11:10:02 UTC
+* Number of recursive dependencies: 271
+
+Run `revdepcheck::revdep_details(, "ggeffects")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# ggmice
+
+
+
+* Version: 0.1.0
+* GitHub: https://github.com/amices/ggmice
+* Source code: https://github.com/cran/ggmice
+* Date/Publication: 2023-08-07 14:20:02 UTC
+* Number of recursive dependencies: 119
+
+Run `revdepcheck::revdep_details(, "ggmice")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# gtsummary
+
+
+
+* Version: 2.0.3
+* GitHub: https://github.com/ddsjoberg/gtsummary
+* Source code: https://github.com/cran/gtsummary
+* Date/Publication: 2024-10-04 19:30:02 UTC
+* Number of recursive dependencies: 186
+
+Run `revdepcheck::revdep_details(, "gtsummary")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# HardyWeinberg
+
+
+
+* Version: 1.7.8
+* GitHub: NA
+* Source code: https://github.com/cran/HardyWeinberg
+* Date/Publication: 2024-04-06 09:53:07 UTC
+* Number of recursive dependencies: 83
+
+Run `revdepcheck::revdep_details(, "HardyWeinberg")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# hhsmm
+
+
+
+* Version: 0.4.2
+* GitHub: https://github.com/mortamini/hhsmm
+* Source code: https://github.com/cran/hhsmm
+* Date/Publication: 2024-09-04 09:00:10 UTC
+* Number of recursive dependencies: 84
+
+Run `revdepcheck::revdep_details(, "hhsmm")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# Hmisc
+
+
+
+* Version: 5.2-0
+* GitHub: NA
+* Source code: https://github.com/cran/Hmisc
+* Date/Publication: 2024-10-28 05:10:05 UTC
+* Number of recursive dependencies: 170
+
+Run `revdepcheck::revdep_details(, "Hmisc")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+## In both
+
+* checking R code for possible problems ... NOTE
+ ```
+ html_describe_con: multiple local function definitions for ‘g’ with
+ different formal arguments
+ ```
+
+# holodeck
+
+
+
+* Version: 0.2.2
+* GitHub: https://github.com/Aariq/holodeck
+* Source code: https://github.com/cran/holodeck
+* Date/Publication: 2023-08-25 22:00:06 UTC
+* Number of recursive dependencies: 113
+
+Run `revdepcheck::revdep_details(, "holodeck")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘simulating-data.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘simulating-data.Rmd’
+ ...
+ intersect, setdiff, setequal, union
+
+
+ > library(purrr)
+
+ > library(mice)
+
+ When sourcing ‘simulating-data.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# hot.deck
+
+
+
+* Version: 1.2
+* GitHub: NA
+* Source code: https://github.com/cran/hot.deck
+* Date/Publication: 2021-08-17 16:40:09 UTC
+* Number of recursive dependencies: 86
+
+Run `revdepcheck::revdep_details(, "hot.deck")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) hd.ord.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
+ ...
+ checkRd: (-1) hd.ord.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hd.ord.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hot.deck.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hot.deck.Rd:40: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hot.deck.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hot.deck.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hot.deck.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) hot.deck.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
+ ```
+
+# howManyImputations
+
+
+
+* Version: 0.2.5
+* GitHub: https://github.com/josherrickson/howManyImputations
+* Source code: https://github.com/cran/howManyImputations
+* Date/Publication: 2024-03-15 14:30:02 UTC
+* Number of recursive dependencies: 83
+
+Run `revdepcheck::revdep_details(, "howManyImputations")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# HSAUR3
+
+
+
+* Version: 1.0-15
+* GitHub: NA
+* Source code: https://github.com/cran/HSAUR3
+* Date/Publication: 2024-08-17 17:30:01 UTC
+* Number of recursive dependencies: 109
+
+Run `revdepcheck::revdep_details(, "HSAUR3")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘Ch_analysing_longitudinal_dataI.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_analysing_longitudinal_dataII.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_analysis_of_variance.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_bayesian_inference.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_cluster_analysis.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_conditional_inference.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_density_estimation.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_errata.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_gam.Rnw’ using ‘UTF-8’... OK
+ ‘Ch_graphical_display.Rnw’ using ‘UTF-8’... OK
+ ...
+ (10 observations deleted due to missingness)
+ Multiple R-squared: 0.1545, Adjusted R-squared: 0.1122
+ F-statistic: 3.653 on 2 and 40 DF, p-value: 0.03489
+
+
+ > library("mice")
+
+ When sourcing 'Ch_missing_values.R':
+ Error: there is no package called 'mice'
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# idem
+
+
+
+* Version: 5.2
+* GitHub: https://github.com/olssol/idem
+* Source code: https://github.com/cran/idem
+* Date/Publication: 2023-08-09 10:30:09 UTC
+* Number of recursive dependencies: 133
+
+Run `revdepcheck::revdep_details(, "idem")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) imInfer.Rd:34-35: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) imInfer.Rd:35-36: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMDATA.Rd:22-23: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMDATA.Rd:25: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMDATA.Rd:27: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:14: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:15: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:27-28: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:30-32: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:34: Lost braces in \itemize; meant \describe ?
+ ...
+ checkRd: (-1) plot.IDEMIMP.Rd:60-63: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:65-66: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:69-70: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:72-73: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) plot.IDEMIMP.Rd:75: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) summary.IDEMDATA.Rd:15: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) summary.IDEMDATA.Rd:17-18: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) summary.IDEMDATA.Rd:20: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) summary.IDEMINFER.Rd:14: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) summary.IDEMINFER.Rd:15: Lost braces in \itemize; meant \describe ?
+ ```
+
+* checking for GNU extensions in Makefiles ... NOTE
+ ```
+ GNU make is a SystemRequirements.
+ ```
+
+# ImputeRobust
+
+
+
+* Version: 1.3-1
+* GitHub: NA
+* Source code: https://github.com/cran/ImputeRobust
+* Date/Publication: 2018-11-30 12:10:03 UTC
+* Number of recursive dependencies: 70
+
+Run `revdepcheck::revdep_details(, "ImputeRobust")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# insight
+
+
+
+* Version: 0.20.5
+* GitHub: https://github.com/easystats/insight
+* Source code: https://github.com/cran/insight
+* Date/Publication: 2024-10-02 07:50:02 UTC
+* Number of recursive dependencies: 405
+
+Run `revdepcheck::revdep_details(, "insight")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# intmed
+
+
+
+* Version: 0.1.2
+* GitHub: NA
+* Source code: https://github.com/cran/intmed
+* Date/Publication: 2020-08-27 17:20:02 UTC
+* Number of recursive dependencies: 94
+
+Run `revdepcheck::revdep_details(, "intmed")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# IPWboxplot
+
+
+
+* Version: 0.1.2
+* GitHub: NA
+* Source code: https://github.com/cran/IPWboxplot
+* Date/Publication: 2023-10-21 19:30:02 UTC
+* Number of recursive dependencies: 83
+
+Run `revdepcheck::revdep_details(, "IPWboxplot")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘IPWboxplot-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: IPW.ASYM.boxplot
+ > ### Title: Boxplot adapted to skewness and missing values
+ > ### Aliases: IPW.ASYM.boxplot
+ > ### Keywords: quantile boxplot missing inverse probability weighted
+ >
+ > ### ** Examples
+ >
+ >
+ > ## A real data example
+ >
+ >
+ > library(mice)
+ Error in library(mice) : there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking running R code from vignettes ...
+ ```
+ ‘my-vignette.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘my-vignette.Rmd’
+ ...
+
+ > knitr::opts_chunk$set(collapse = TRUE, comment = "#>")
+
+ > library(IPWboxplot)
+
+ > library(mice)
+
+ When sourcing ‘my-vignette.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# JWileymisc
+
+
+
+* Version: 1.4.1
+* GitHub: https://github.com/JWiley/JWileymisc
+* Source code: https://github.com/cran/JWileymisc
+* Date/Publication: 2023-10-05 04:50:02 UTC
+* Number of recursive dependencies: 166
+
+Run `revdepcheck::revdep_details(, "JWileymisc")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# konfound
+
+
+
+* Version: 1.0.2
+* GitHub: https://github.com/konfound-project/konfound
+* Source code: https://github.com/cran/konfound
+* Date/Publication: 2024-10-17 16:10:02 UTC
+* Number of recursive dependencies: 166
+
+Run `revdepcheck::revdep_details(, "konfound")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# lavaan.survey
+
+
+
+* Version: 1.1.3.1
+* GitHub: NA
+* Source code: https://github.com/cran/lavaan.survey
+* Date/Publication: 2016-12-22 23:43:24
+* Number of recursive dependencies: 84
+
+Run `revdepcheck::revdep_details(, "lavaan.survey")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ • On CRAN (2): 'test_roosma.R:40:3', 'test_roosma.R:61:3'
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Failure ('test_roosma.R:56:3'): an estimate matches ─────────────────────────
+ coef(fit.cfa.surv)["range~~range"] not equal to 1.892812.
+ 1/1 mismatches
+ [1] 1.89 - 1.89 == 6.51e-05
+ ── Failure ('test_roosma.R:57:3'): an estimate matches ─────────────────────────
+ coef(fit.cfa.surv.wls.yb)["range~~range"] not equal to 2.369951.
+ 1/1 mismatches
+ [1] 2.37 - 2.37 == 0.000104
+
+ [ FAIL 2 | WARN 0 | SKIP 2 | PASS 4 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+# LMMstar
+
+
+
+* Version: 1.1.0
+* GitHub: https://github.com/bozenne/LMMstar
+* Source code: https://github.com/cran/LMMstar
+* Date/Publication: 2024-05-12 21:43:11 UTC
+* Number of recursive dependencies: 161
+
+Run `revdepcheck::revdep_details(, "LMMstar")` for more info
+
+
+
+## Newly broken
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ > library(lmerTest)
+
+ Attaching package: 'lmerTest'
+
+ The following object is masked from 'package:lme4':
+
+ lmer
+
+ The following object is masked from 'package:stats':
+
+ step
+
+ > library(mice)
+ Error in library(mice) : there is no package called 'mice'
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 7.0Mb
+ sub-directories of 1Mb or more:
+ R 2.0Mb
+ doc-overview 2.2Mb
+ ```
+
+# logistf
+
+
+
+* Version: 1.26.0
+* GitHub: https://github.com/georgheinze/logistf
+* Source code: https://github.com/cran/logistf
+* Date/Publication: 2023-08-18 09:52:33 UTC
+* Number of recursive dependencies: 66
+
+Run `revdepcheck::revdep_details(, "logistf")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# manymome
+
+
+
+* Version: 0.2.4
+* GitHub: https://github.com/sfcheung/manymome
+* Source code: https://github.com/cran/manymome
+* Date/Publication: 2024-10-04 13:40:02 UTC
+* Number of recursive dependencies: 157
+
+Run `revdepcheck::revdep_details(, "manymome")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# marginaleffects
+
+
+
+* Version: 0.23.0
+* GitHub: https://github.com/vincentarelbundock/marginaleffects
+* Source code: https://github.com/cran/marginaleffects
+* Date/Publication: 2024-10-05 14:20:07 UTC
+* Number of recursive dependencies: 463
+
+Run `revdepcheck::revdep_details(, "marginaleffects")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# MatchThem
+
+
+
+* Version: 1.2.1
+* GitHub: https://github.com/FarhadPishgar/MatchThem
+* Source code: https://github.com/cran/MatchThem
+* Date/Publication: 2024-04-02 00:30:02 UTC
+* Number of recursive dependencies: 89
+
+Run `revdepcheck::revdep_details(, "MatchThem")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# mdapack
+
+
+
+* Version: 0.0.2
+* GitHub: NA
+* Source code: https://github.com/cran/mdapack
+* Date/Publication: 2020-05-20 22:30:02 UTC
+* Number of recursive dependencies: 192
+
+Run `revdepcheck::revdep_details(, "mdapack")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespaces in Imports field not imported from:
+ ‘FactoMineR’ ‘covr’ ‘curl’ ‘devtools’ ‘gh’ ‘git2r’ ‘grDevices’ ‘httr’
+ ‘knitr’ ‘openssl’ ‘pkgbuild’ ‘rlang’ ‘rmarkdown’ ‘roxygen2’
+ ‘spelling’ ‘testthat’ ‘utils’
+ All declared Imports should be used.
+ ```
+
+* checking LazyData ... NOTE
+ ```
+ 'LazyData' is specified without a 'data' directory
+ ```
+
+# medflex
+
+
+
+* Version: 0.6-10
+* GitHub: https://github.com/jmpsteen/medflex
+* Source code: https://github.com/cran/medflex
+* Date/Publication: 2023-06-22 16:52:38 UTC
+* Number of recursive dependencies: 105
+
+Run `revdepcheck::revdep_details(, "medflex")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# metavcov
+
+
+
+* Version: 2.1.5
+* GitHub: https://github.com/luminwin/metavcov
+* Source code: https://github.com/cran/metavcov
+* Date/Publication: 2023-06-24 04:00:02 UTC
+* Number of recursive dependencies: 86
+
+Run `revdepcheck::revdep_details(, "metavcov")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# mi4p
+
+
+
+* Version: 1.2
+* GitHub: https://github.com/mariechion/mi4p
+* Source code: https://github.com/cran/mi4p
+* Date/Publication: 2024-10-02 22:40:17 UTC
+* Number of recursive dependencies: 227
+
+Run `revdepcheck::revdep_details(, "mi4p")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# micd
+
+
+
+* Version: 1.1.1
+* GitHub: https://github.com/bips-hb/micd
+* Source code: https://github.com/cran/micd
+* Date/Publication: 2023-02-17 17:40:02 UTC
+* Number of recursive dependencies: 104
+
+Run `revdepcheck::revdep_details(, "micd")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# miceadds
+
+
+
+* Version: 3.17-44
+* GitHub: https://github.com/alexanderrobitzsch/miceadds
+* Source code: https://github.com/cran/miceadds
+* Date/Publication: 2024-01-09 10:10:02 UTC
+* Number of recursive dependencies: 155
+
+Run `revdepcheck::revdep_details(, "miceadds")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ Packages which this enhances but not available for checking:
+ 'Amelia', 'imputeR', 'micemd', 'simputation'
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking package dependencies ... NOTE
+ ```
+ Packages which this enhances but not available for checking:
+ 'Amelia', 'imputeR', 'micemd', 'simputation'
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Packages unavailable to check Rd xrefs: ‘imputeR’, ‘simputation’
+ ```
+
+# miceafter
+
+
+
+* Version: 0.5.0
+* GitHub: https://github.com/mwheymans/miceafter
+* Source code: https://github.com/cran/miceafter
+* Date/Publication: 2022-10-02 13:30:02 UTC
+* Number of recursive dependencies: 139
+
+Run `revdepcheck::revdep_details(, "miceafter")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# miceFast
+
+
+
+* Version: 0.8.2
+* GitHub: https://github.com/Polkas/miceFast
+* Source code: https://github.com/cran/miceFast
+* Date/Publication: 2022-11-17 21:10:02 UTC
+* Number of recursive dependencies: 111
+
+Run `revdepcheck::revdep_details(, "miceFast")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘miceFast-intro.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘miceFast-intro.Rmd’
+ ...
+ > knitr::opts_chunk$set(echo = FALSE)
+
+ > pkgs <- c("miceFast", "mice", "ggplot2", "dplyr",
+ + "data.table")
+
+ > inst <- lapply(pkgs, library, character.only = TRUE)
+
+ When sourcing ‘miceFast-intro.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking C++ specification ... NOTE
+ ```
+ Specified C++11: please drop specification unless essential
+ ```
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) VIF.Rd:47: Lost braces; missing escapes or markup?
+ 47 | vif_corrected = vif_basic^{(1/(2*df))}
+ | ^
+ ```
+
+# micemd
+
+
+
+* Version: 1.10.0
+* GitHub: NA
+* Source code: https://github.com/cran/micemd
+* Date/Publication: 2023-11-17 10:40:02 UTC
+* Number of recursive dependencies: 138
+
+Run `revdepcheck::revdep_details(, "micemd")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# microeco
+
+
+
+* Version: 1.10.0
+* GitHub: https://github.com/ChiLiubio/microeco
+* Source code: https://github.com/cran/microeco
+* Date/Publication: 2024-10-29 14:20:08 UTC
+* Number of recursive dependencies: 136
+
+Run `revdepcheck::revdep_details(, "microeco")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# midastouch
+
+
+
+* Version: 1.3
+* GitHub: NA
+* Source code: https://github.com/cran/midastouch
+* Date/Publication: 2016-02-07 09:35:46
+* Number of recursive dependencies: 60
+
+Run `revdepcheck::revdep_details(, "midastouch")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘midastouch-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: mice.impute.midastouch
+ > ### Title: Predictive Mean Matching with distance aided selection of donors
+ > ### Aliases: mice.impute.midastouch midastouch
+ > ### Keywords: mice
+ >
+ > ### ** Examples
+ >
+ > ## from R:: mice, slightly adapted ##
+ >
+ > # do default multiple imputation on a numeric matrix
+ > library(midastouch)
+ > library(mice)
+ Error in library(mice) : there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking LazyData ... NOTE
+ ```
+ 'LazyData' is specified without a 'data' directory
+ ```
+
+# midoc
+
+
+
+* Version: 1.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/midoc
+* Date/Publication: 2024-10-02 16:40:02 UTC
+* Number of recursive dependencies: 133
+
+Run `revdepcheck::revdep_details(, "midoc")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# mifa
+
+
+
+* Version: 0.2.0
+* GitHub: https://github.com/teebusch/mifa
+* Source code: https://github.com/cran/mifa
+* Date/Publication: 2021-01-22 08:40:08 UTC
+* Number of recursive dependencies: 116
+
+Run `revdepcheck::revdep_details(, "mifa")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking LazyData ... NOTE
+ ```
+ 'LazyData' is specified without a 'data' directory
+ ```
+
+# MIIPW
+
+
+
+* Version: 0.1.1
+* GitHub: NA
+* Source code: https://github.com/cran/MIIPW
+* Date/Publication: 2023-02-13 23:00:02 UTC
+* Number of recursive dependencies: 81
+
+Run `revdepcheck::revdep_details(, "MIIPW")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# misaem
+
+
+
+* Version: 1.0.1
+* GitHub: https://github.com/julierennes/misaem
+* Source code: https://github.com/cran/misaem
+* Date/Publication: 2021-04-12 08:10:02 UTC
+* Number of recursive dependencies: 83
+
+Run `revdepcheck::revdep_details(, "misaem")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘misaem.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘misaem.Rmd’
+ ...
+ > sigma.eps <- 0.25
+
+ > y <- cbind(rep(1, n), X.complete) %*% b + rnorm(n,
+ + 0, sigma.eps)
+
+ > library(mice)
+
+ When sourcing ‘misaem.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# miselect
+
+
+
+* Version: 0.9.2
+* GitHub: NA
+* Source code: https://github.com/cran/miselect
+* Date/Publication: 2024-03-05 17:00:08 UTC
+* Number of recursive dependencies: 93
+
+Run `revdepcheck::revdep_details(, "miselect")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘miselect.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘miselect.Rmd’
+ ...
+ X8 X9 X10 X11 X12 X13 X14
+ 0.27333333 0.22666667 0.22666667 0.21000000 0.25333333 0.32000000 0.37333333
+ X15 X16 X17 X18 X19 X20 Y
+ 0.34000000 0.34666667 0.36333333 0.43000000 0.38000000 0.42666667 0.00000000
+
+ > library(mice)
+
+ When sourcing ‘miselect.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# missCompare
+
+
+
+* Version: 1.0.3
+* GitHub: https://github.com/Tirgit/missCompare
+* Source code: https://github.com/cran/missCompare
+* Date/Publication: 2020-12-01 08:50:03 UTC
+* Number of recursive dependencies: 212
+
+Run `revdepcheck::revdep_details(, "missCompare")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# missDiag
+
+
+
+* Version: 1.0.1
+* GitHub: https://github.com/sumtxt/missDiag
+* Source code: https://github.com/cran/missDiag
+* Date/Publication: 2021-08-06 18:00:02 UTC
+* Number of recursive dependencies: 81
+
+Run `revdepcheck::revdep_details(, "missDiag")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘missDiag-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: missDiag
+ > ### Title: Comparing Observed and Imputed Values under MAR and MCAR
+ > ### Aliases: missDiag
+ >
+ > ### ** Examples
+ >
+ >
+ ...
+ >
+ > diag_rng <- missDiag(
+ + original=anes08,
+ + imputed=anes08_rng,
+ + verbose = 1,
+ + adjust = 'none',
+ + formula = time ~ .)
+ Error in loadNamespace(x) : there is no package called ‘mice’
+ Calls: missDiag ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# missMDA
+
+
+
+* Version: 1.19
+* GitHub: NA
+* Source code: https://github.com/cran/missMDA
+* Date/Publication: 2023-11-17 10:20:19 UTC
+* Number of recursive dependencies: 126
+
+Run `revdepcheck::revdep_details(, "missMDA")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# misty
+
+
+
+* Version: 0.6.8
+* GitHub: NA
+* Source code: https://github.com/cran/misty
+* Date/Publication: 2024-10-24 16:30:02 UTC
+* Number of recursive dependencies: 85
+
+Run `revdepcheck::revdep_details(, "misty")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# mitml
+
+
+
+* Version: 0.4-5
+* GitHub: https://github.com/simongrund1/mitml
+* Source code: https://github.com/cran/mitml
+* Date/Publication: 2023-03-08 17:10:02 UTC
+* Number of recursive dependencies: 97
+
+Run `revdepcheck::revdep_details(, "mitml")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘mitml-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: mids2mitml.list
+ > ### Title: Convert objects of class 'mids' to 'mitml.list'
+ > ### Aliases: mids2mitml.list
+ >
+ > ### ** Examples
+ >
+ > data(studentratings)
+ >
+ > # imputation using mice
+ > require(mice)
+ Loading required package: mice
+ Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
+ there is no package called ‘mice’
+ > imp <- mice(studentratings)
+ Error in mice(studentratings) : could not find function "mice"
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# miWQS
+
+
+
+* Version: 0.4.4
+* GitHub: https://github.com/phargarten2/miWQS
+* Source code: https://github.com/cran/miWQS
+* Date/Publication: 2021-04-02 21:50:02 UTC
+* Number of recursive dependencies: 148
+
+Run `revdepcheck::revdep_details(, "miWQS")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# mixgb
+
+
+
+* Version: 1.0.2
+* GitHub: https://github.com/agnesdeng/mixgb
+* Source code: https://github.com/cran/mixgb
+* Date/Publication: 2023-02-16 11:00:02 UTC
+* Number of recursive dependencies: 99
+
+Run `revdepcheck::revdep_details(, "mixgb")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# MixtureMissing
+
+
+
+* Version: 3.0.3
+* GitHub: NA
+* Source code: https://github.com/cran/MixtureMissing
+* Date/Publication: 2024-10-15 21:50:02 UTC
+* Number of recursive dependencies: 67
+
+Run `revdepcheck::revdep_details(, "MixtureMissing")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# MKinfer
+
+
+
+* Version: 1.2
+* GitHub: https://github.com/stamats/MKinfer
+* Source code: https://github.com/cran/MKinfer
+* Date/Publication: 2024-04-06 10:42:58 UTC
+* Number of recursive dependencies: 103
+
+Run `revdepcheck::revdep_details(, "MKinfer")` for more info
+
+
+
+## Newly broken
+
+* checking whether package ‘MKinfer’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/MKinfer/new/MKinfer.Rcheck/00install.out’ for details.
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## Installation
+
+### Devel
+
+```
+* installing *source* package ‘MKinfer’ ...
+** package ‘MKinfer’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
+ there is no package called ‘mice’
+Calls: ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+Execution halted
+ERROR: lazy loading failed for package ‘MKinfer’
+* removing ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/MKinfer/new/MKinfer.Rcheck/MKinfer’
+
+
+```
+### CRAN
+
+```
+* installing *source* package ‘MKinfer’ ...
+** package ‘MKinfer’ successfully unpacked and MD5 sums checked
+** using staged installation
+** R
+** data
+*** moving datasets to lazyload DB
+** inst
+** byte-compile and prepare package for lazy loading
+** help
+*** installing help indices
+** building package indices
+** installing vignettes
+** testing if installed package can be loaded from temporary location
+** testing if installed package can be loaded from final location
+** testing if installed package keeps a record of temporary installation path
+* DONE (MKinfer)
+
+
+```
+# mlim
+
+
+
+* Version: 0.3.0
+* GitHub: https://github.com/haghish/mlim
+* Source code: https://github.com/cran/mlim
+* Date/Publication: 2022-12-16 13:00:02 UTC
+* Number of recursive dependencies: 74
+
+Run `revdepcheck::revdep_details(, "mlim")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) mlim.Rd:58: Lost braces
+ 58 | Note that code{"XGB"} is only available in Mac OS and Linux. moreover,
+ | ^
+ ```
+
+# modelsummary
+
+
+
+* Version: 2.2.0
+* GitHub: https://github.com/vincentarelbundock/modelsummary
+* Source code: https://github.com/cran/modelsummary
+* Date/Publication: 2024-09-02 21:20:02 UTC
+* Number of recursive dependencies: 298
+
+Run `revdepcheck::revdep_details(, "modelsummary")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# monoClust
+
+
+
+* Version: 1.2.1
+* GitHub: https://github.com/vinhtantran/monoClust
+* Source code: https://github.com/cran/monoClust
+* Date/Publication: 2021-02-15 15:00:02 UTC
+* Number of recursive dependencies: 115
+
+Run `revdepcheck::revdep_details(, "monoClust")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) circ_dist.Rd:21: Lost braces; missing escapes or markup?
+ 21 | The distance between two observations {i} and {j} of a circular variable {q}
+ | ^
+ checkRd: (-1) circ_dist.Rd:21: Lost braces; missing escapes or markup?
+ 21 | The distance between two observations {i} and {j} of a circular variable {q}
+ | ^
+ checkRd: (-1) circ_dist.Rd:21: Lost braces; missing escapes or markup?
+ 21 | The distance between two observations {i} and {j} of a circular variable {q}
+ | ^
+ ```
+
+# MRPC
+
+
+
+* Version: 3.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/MRPC
+* Date/Publication: 2022-04-11 14:32:34 UTC
+* Number of recursive dependencies: 169
+
+Run `revdepcheck::revdep_details(, "MRPC")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# MSiP
+
+
+
+* Version: 1.3.7
+* GitHub: NA
+* Source code: https://github.com/cran/MSiP
+* Date/Publication: 2021-06-17 08:20:05 UTC
+* Number of recursive dependencies: 109
+
+Run `revdepcheck::revdep_details(, "MSiP")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespace in Imports field not imported from: ‘ranger’
+ All declared Imports should be used.
+ ```
+
+# mvnimpute
+
+
+
+* Version: 1.0.1
+* GitHub: https://github.com/hli226/mvnimpute
+* Source code: https://github.com/cran/mvnimpute
+* Date/Publication: 2022-07-06 09:40:02 UTC
+* Number of recursive dependencies: 78
+
+Run `revdepcheck::revdep_details(, "mvnimpute")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# mvs
+
+
+
+* Version: 2.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/mvs
+* Date/Publication: 2024-08-29 13:00:02 UTC
+* Number of recursive dependencies: 81
+
+Run `revdepcheck::revdep_details(, "mvs")` for more info
+
+
+
+## Newly broken
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ |==================================================== | 75%
+ |
+ |======================================================================| 100%[ FAIL 1 | WARN 0 | SKIP 0 | PASS 15 ]
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Error ('test_missing_data.R:19:3'): missing_data_StaPLR ─────────────────────
+ Error in `StaPLR(X, y, view_index, seed = 123, na.action = "mice", na.arguments = list(m = 10,
+ method = "mean"))`: Package `mice` is required, but not installed.
+ Backtrace:
+ ▆
+ 1. └─mvs::StaPLR(...) at test_missing_data.R:19:3
+
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 15 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# NADIA
+
+
+
+* Version: 0.4.2
+* GitHub: https://github.com/ModelOriented/EMMA
+* Source code: https://github.com/cran/NADIA
+* Date/Publication: 2022-10-02 19:40:02 UTC
+* Number of recursive dependencies: 183
+
+Run `revdepcheck::revdep_details(, "NADIA")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘NADIA-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: PipeOpOOR_B
+ > ### Title: PipeOpOOR_B
+ > ### Aliases: PipeOpOOR_B
+ >
+ > ### ** Examples
+ >
+ > {
+ ...
+ + graph <- PipeOpOOR_B$new() %>>% LearnerClassifDebug$new()
+ + graph_learner <- GraphLearner$new(graph)
+ +
+ + # Task with NA
+ + set.seed(1)
+ + resample(tsk("pima"), graph_learner, rsmp("cv", folds = 3))
+ + }
+ Error in initialize(...) : object 'ParamLgl' not found
+ Calls: %>>% ... .__ParamSet__initialize -> assert_list -> checkList -> %and% -> isTRUE
+ Execution halted
+ ```
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ 2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
+ 3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
+ 4. └─PipeOpSimulateMissings$new()
+ 5. └─NADIA (local) initialize(...)
+ 6. └─ParamSet$new(...)
+ 7. └─paradox (local) initialize(...)
+ 8. └─paradox:::.__ParamSet__initialize(...)
+ 9. └─checkmate::assert_list(params, types = "Domain")
+ 10. └─checkmate::checkList(...)
+ 11. └─... %and% checkListTypes(x, types)
+ 12. └─base::isTRUE(lhs)
+
+ [ FAIL 5 | WARN 0 | SKIP 12 | PASS 47 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+* checking running R code from vignettes ...
+ ```
+ ‘Errors_Statistic_and_Handling.Rmd’ using ‘UTF-8’... failed
+ ‘NADIA_examples_and_motivation.Rmd’ using ‘UTF-8’... failed
+ ERROR
+ Errors in running code in vignettes:
+ when running code in ‘Errors_Statistic_and_Handling.Rmd’
+ ...
+ 13/25 |
+ 52% |
+
+
+ ...
+ attr(,"class")
+ [1] "knit_image_paths" "knit_asis"
+
+ > task_with_missing <- tsk("pima")
+
+ > imputation_methods <- PipeOpMice$new()
+
+ When sourcing ‘NADIA_examples_and_motivation.R’:
+ Error: object 'ParamDbl' not found
+ Execution halted
+ ```
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespaces in Imports field not imported from:
+ ‘glmnet’ ‘mlr3learners’ ‘rpart’
+ All declared Imports should be used.
+ ```
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) PipeOpMice.Rd:33: Lost braces; missing escapes or markup?
+ 33 | set of methods to chose. Avalible methods {"pmm", "midastouch", "sample", "cart", "rf"} Default 'pmm'. If seted on NULL this methods are used predictive mean matching (numeric data) logreg, logistic regression imputation (binary data, factor with 2 levels) polyreg, polytomous regression imputation for unordered categorical data (factor > 2 levels) polr, proportional odds model for (ordered, > 2 levels).
+ | ^
+ ```
+
+# NIMAA
+
+
+
+* Version: 0.2.1
+* GitHub: https://github.com/jafarilab/NIMAA
+* Source code: https://github.com/cran/NIMAA
+* Date/Publication: 2022-04-11 14:12:45 UTC
+* Number of recursive dependencies: 177
+
+Run `revdepcheck::revdep_details(, "NIMAA")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 5.2Mb
+ sub-directories of 1Mb or more:
+ doc 4.0Mb
+ ```
+
+* checking data for non-ASCII characters ... NOTE
+ ```
+ Note: found 24 marked UTF-8 strings
+ ```
+
+# nncc
+
+
+
+* Version: 2.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/nncc
+* Date/Publication: 2024-01-11 14:10:02 UTC
+* Number of recursive dependencies: 108
+
+Run `revdepcheck::revdep_details(, "nncc")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘nncc.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘nncc.Rmd’
+ ...
+ > results_clogit[["exp27"]] %>% summary() %>% `$`(conf.int)
+ exp(coef) exp(-coef) lower .95 upper .95
+ exp1 11766455 8.498736e-08 0 Inf
+
+ > library(logistf)
+
+ When sourcing ‘nncc.R’:
+ Error: package or namespace load failed for ‘logistf’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
+ there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# ordbetareg
+
+
+
+* Version: 0.7.2
+* GitHub: https://github.com/saudiwin/ordbetareg_pack
+* Source code: https://github.com/cran/ordbetareg
+* Date/Publication: 2023-08-10 07:30:02 UTC
+* Number of recursive dependencies: 177
+
+Run `revdepcheck::revdep_details(, "ordbetareg")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘package_introduction.Rmd’ using ‘UTF-8’... failed
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘package_introduction.Rmd’
+ ...
+ + cutpoints = c(-2, 2))
+
+ > X[runif(n = 100) < 0.1] <- NA
+
+ > mult_impute <- mice::mice(data = tibble(outcome = outcome,
+ + X = X), m = 2, printFlag = FALSE) %>% mice::complete(action = "all")
+
+ When sourcing ‘package_introduction.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 5.6Mb
+ sub-directories of 1Mb or more:
+ data 5.1Mb
+ ```
+
+* checking data for non-ASCII characters ... NOTE
+ ```
+ Note: found 36 marked UTF-8 strings
+ ```
+
+# OTrecod
+
+
+
+* Version: 0.1.2
+* GitHub: NA
+* Source code: https://github.com/cran/OTrecod
+* Date/Publication: 2022-10-05 10:40:02 UTC
+* Number of recursive dependencies: 175
+
+Run `revdepcheck::revdep_details(, "OTrecod")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) imput_cov.Rd:79: Lost braces
+ 79 | \item van Buuren, S., Groothuis-Oudshoorn, K. (2011). mice: Multivariate Imputation by Chained Equations in R. Journal of Statistical Software, 45(3), 1–67. url{https://www.jstatsoft.org/v45/i03/}
+ | ^
+ checkRd: (-1) indiv_grp_closest.Rd:47: Lost braces; missing escapes or markup?
+ 47 | The function \code{indiv_grp_closest} is an intermediate function used in the implementation of an algorithm called {OUTCOME} (and its enrichment {R-OUTCOME}, see the reference (2) for more details) dedicated to the solving of recoding problems in data fusion using Optimal Transportation theory.
+ | ^
+ checkRd: (-1) indiv_grp_closest.Rd:47: Lost braces; missing escapes or markup?
+ 47 | The function \code{indiv_grp_closest} is an intermediate function used in the implementation of an algorithm called {OUTCOME} (and its enrichment {R-OUTCOME}, see the reference (2) for more details) dedicated to the solving of recoding problems in data fusion using Optimal Transportation theory.
+ | ^
+ checkRd: (-1) merge_dbs.Rd:179: Lost braces
+ 179 | \item van Buuren, S., Groothuis-Oudshoorn, K. (2011). mice: Multivariate Imputation by Chained Equations in R. Journal of Statistical Software, 45(3), 1–67. url{https://www.jstatsoft.org/v45/i03/}
+ | ^
+ ```
+
+# parameters
+
+
+
+* Version: 0.23.0
+* GitHub: https://github.com/easystats/parameters
+* Source code: https://github.com/cran/parameters
+* Date/Publication: 2024-10-18 11:10:06 UTC
+* Number of recursive dependencies: 448
+
+Run `revdepcheck::revdep_details(, "parameters")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# pema
+
+
+
+* Version: 0.1.3
+* GitHub: https://github.com/cjvanlissa/pema
+* Source code: https://github.com/cran/pema
+* Date/Publication: 2023-03-16 11:40:02 UTC
+* Number of recursive dependencies: 131
+
+Run `revdepcheck::revdep_details(, "pema")` for more info
+
+
+
+## Newly broken
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ Chain 4: 0.01 seconds (Total)
+ Chain 4:
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 19 ]
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Error ('test-multiple_imp.R:8:1'): (code run outside of `test_that()`) ──────
+
+ Error in `library(mice)`: there is no package called 'mice'
+ Backtrace:
+ ▆
+ 1. └─base::library(mice) at test-multiple_imp.R:8:1
+
+ [ FAIL 1 | WARN 0 | SKIP 0 | PASS 19 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+## In both
+
+* checking running R code from vignettes ...
+ ```
+ ‘using-brma.Rmd’ using ‘UTF-8’... failed
+ ERROR
+ Errors in running code in vignettes:
+ when running code in ‘using-brma.Rmd’
+ ...
+ domainsocial 0.1702 0.1183 -0.0249 0.4232 1600 1
+ domainnoMeta -0.3615 0.1843 -0.7299 -0.0184 1212 1
+ sexM 0.1205 0.0689 -0.0017 0.2605 1602 1
+ tau2 0.4291 0.0394 0.3524 0.5098 1112 1
+
+ > I2(fit_lasso)
+
+ When sourcing ‘using-brma.R’:
+ Error: object 'fit_lasso' not found
+ Execution halted
+ ```
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 10.1Mb
+ sub-directories of 1Mb or more:
+ libs 9.1Mb
+ ```
+
+* checking for GNU extensions in Makefiles ... NOTE
+ ```
+ GNU make is a SystemRequirements.
+ ```
+
+# pguIMP
+
+
+
+* Version: 0.0.0.3
+* GitHub: https://github.com/SMLMS/pguIMP
+* Source code: https://github.com/cran/pguIMP
+* Date/Publication: 2021-09-30 11:50:02 UTC
+* Number of recursive dependencies: 231
+
+Run `revdepcheck::revdep_details(, "pguIMP")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking whether package ‘pguIMP’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/pguIMP/old/pguIMP.Rcheck/00install.out’ for details.
+ ```
+
+# pre
+
+
+
+* Version: 1.0.7
+* GitHub: https://github.com/marjoleinF/pre
+* Source code: https://github.com/cran/pre
+* Date/Publication: 2024-01-12 19:30:02 UTC
+* Number of recursive dependencies: 150
+
+Run `revdepcheck::revdep_details(, "pre")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘missingness.Rmd’ using ‘UTF-8’... failed
+ ‘relaxed.Rmd’ using ‘UTF-8’... OK
+ ‘speed.Rmd’ using ‘UTF-8’... OK
+ ‘tuning.Rmd’ using ‘UTF-8’... OK
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘missingness.Rmd’
+ ...
+ 6 28 NA 14.9 66 5 6
+
+ > nrow(airquality)
+ [1] 153
+
+ > library("mice")
+
+ When sourcing ‘missingness.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# psfmi
+
+
+
+* Version: 1.4.0
+* GitHub: https://github.com/mwheymans/psfmi
+* Source code: https://github.com/cran/psfmi
+* Date/Publication: 2023-06-17 22:40:02 UTC
+* Number of recursive dependencies: 163
+
+Run `revdepcheck::revdep_details(, "psfmi")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# qgcomp
+
+
+
+* Version: 2.15.2
+* GitHub: https://github.com/alexpkeil1/qgcomp
+* Source code: https://github.com/cran/qgcomp
+* Date/Publication: 2023-08-10 09:10:06 UTC
+* Number of recursive dependencies: 155
+
+Run `revdepcheck::revdep_details(, "qgcomp")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+## In both
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) qgcomp.survcurve.boot.Rd:17-19: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) qgcomp.survcurve.boot.Rd:20-21: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) qgcomp.survcurve.boot.Rd:22-23: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) qgcomp.survcurve.boot.Rd:24-25: Lost braces in \itemize; \value handles \item{}{} directly
+ ```
+
+# Qtools
+
+
+
+* Version: 1.5.9
+* GitHub: NA
+* Source code: https://github.com/cran/Qtools
+* Date/Publication: 2023-10-28 15:10:02 UTC
+* Number of recursive dependencies: 103
+
+Run `revdepcheck::revdep_details(, "Qtools")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# RBtest
+
+
+
+* Version: 1.1
+* GitHub: NA
+* Source code: https://github.com/cran/RBtest
+* Date/Publication: 2020-03-03 15:00:03 UTC
+* Number of recursive dependencies: 63
+
+Run `revdepcheck::revdep_details(, "RBtest")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking LazyData ... NOTE
+ ```
+ 'LazyData' is specified without a 'data' directory
+ ```
+
+# realTimeloads
+
+
+
+* Version: 1.0.0
+* GitHub: NA
+* Source code: https://github.com/cran/realTimeloads
+* Date/Publication: 2023-10-18 14:00:02 UTC
+* Number of recursive dependencies: 117
+
+Run `revdepcheck::revdep_details(, "realTimeloads")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘realTimeloads-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: impute_data
+ > ### Title: Returns x with gaps imputed using ARIMA and Decision Trees,
+ > ### optional uncertainty estimation using Monte Carlo resampling
+ > ### Aliases: impute_data
+ >
+ > ### ** Examples
+ >
+ ...
+ > idata <- sample(1:length(xo),round(length(xo)*0.5),replace=FALSE)
+ > x <- rep(NA,length(xo))
+ > x[idata] <- xo[idata] # simulated samples
+ > flow_concentrtion_ratio <- imputeTS::na_interpolation(Q/x)
+ > Xreg <- cbind(Q,flow_concentrtion_ratio)
+ > Output <- impute_data(time,x,Xreg,MC = 10,ptrain = 0.8)
+ Error in optim(init[mask], getLike, method = "L-BFGS-B", lower = rep(0, :
+ L-BFGS-B needs finite values of 'fn'
+ Calls: impute_data -> -> -> optim
+ Execution halted
+ ```
+
+# RefBasedMI
+
+
+
+* Version: 0.2.0
+* GitHub: https://github.com/UCL/RefBasedMI
+* Source code: https://github.com/cran/RefBasedMI
+* Date/Publication: 2024-09-09 09:10:01 UTC
+* Number of recursive dependencies: 105
+
+Run `revdepcheck::revdep_details(, "RefBasedMI")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# regmedint
+
+
+
+* Version: 1.0.1
+* GitHub: https://github.com/kaz-yos/regmedint
+* Source code: https://github.com/cran/regmedint
+* Date/Publication: 2024-01-13 00:50:02 UTC
+* Number of recursive dependencies: 153
+
+Run `revdepcheck::revdep_details(, "regmedint")` for more info
+
+
+
+## Newly broken
+
+* checking running R code from vignettes ...
+ ```
+ ‘vig_01_introduction.Rmd’ using ‘UTF-8’... OK
+ ‘vig_02_formulas.Rmd’ using ‘UTF-8’... OK
+ ‘vig_03_bootstrap.Rmd’ using ‘UTF-8’... OK
+ ‘vig_04_mi.Rmd’ using ‘UTF-8’... failed
+ ‘vig_05_emm.Rmd’ using ‘UTF-8’... OK
+ ‘vig_06_delta_boot.Rmd’ using ‘UTF-8’... OK
+ WARNING
+ Errors in running code in vignettes:
+ when running code in ‘vig_04_mi.Rmd’
+ ...
+ ...
+ cvar: c
+ c_cond (covariate vector value) = 0.5
+
+ Note that effect estimates can vary over m_cde and c_cond values when interaction = TRUE.
+
+ > library(mice)
+
+ When sourcing ‘vig_04_mi.R’:
+ Error: there is no package called ‘mice’
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespace in Imports field not imported from: ‘Deriv’
+ All declared Imports should be used.
+ ```
+
+# RegularizedSCA
+
+
+
+* Version: 0.5.4
+* GitHub: NA
+* Source code: https://github.com/cran/RegularizedSCA
+* Date/Publication: 2018-06-07 17:43:45 UTC
+* Number of recursive dependencies: 142
+
+Run `revdepcheck::revdep_details(, "RegularizedSCA")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking Rd metadata ... NOTE
+ ```
+ Invalid package aliases in Rd file 'RSCA.Rd':
+ ‘RSCA-package’
+ ```
+
+# Replication
+
+
+
+* Version: 0.1.2
+* GitHub: NA
+* Source code: https://github.com/cran/Replication
+* Date/Publication: 2020-04-09 12:10:02 UTC
+* Number of recursive dependencies: 115
+
+Run `revdepcheck::revdep_details(, "Replication")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking whether package ‘Replication’ can be installed ... ERROR
+ ```
+ Installation failed.
+ See ‘/Users/buurensv/Dropbox/Package/mice/mice/revdep/checks.noindex/Replication/old/Replication.Rcheck/00install.out’ for details.
+ ```
+
+# rexposome
+
+
+
+* Version: 1.28.0
+* GitHub: NA
+* Source code: https://github.com/cran/rexposome
+* Date/Publication: 2024-10-29
+* Number of recursive dependencies: 175
+
+Run `revdepcheck::revdep_details(, "rexposome")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking for portable file names ... WARNING
+ ```
+ Found the following file with a non-portable file name:
+ vignettes/rsconnect/documents/exposome_data_analysis.Rmd/rpubs.com/rpubs/Publish Document.dcf
+ These are not fully portable file names.
+ See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
+ Found the following non-portable file path:
+ rexposome/vignettes/rsconnect/documents/exposome_data_analysis.Rmd/rpubs.com/rpubs/Publish Document.dcf
+
+ Tarballs are only required to store paths of up to 100 bytes and cannot
+ store those of more than 256 bytes, with restrictions including to 100
+ bytes for the final component.
+ See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
+ ```
+
+* checking dependencies in R code ... WARNING
+ ```
+ '::' or ':::' imports not declared from:
+ ‘missMDA’ ‘nnet’ ‘sandwich’
+ ```
+
+* checking Rd metadata ... WARNING
+ ```
+ Rd files with duplicated alias 'extract':
+ ‘extract-methods.Rd’ ‘get_robust_sd-methods.Rd’
+ ```
+
+* checking for code/documentation mismatches ... WARNING
+ ```
+ S4 class codoc mismatches from Rd file 'ExWAS-class.Rd':
+ Slots for class 'ExWAS'
+ Code: comparison description effective formula robust.std.err
+ Docs: comparison description effective formula
+ ```
+
+* checking Rd \usage sections ... WARNING
+ ```
+ Undocumented arguments in Rd file 'ExposomeSet-class.Rd'
+ ‘robust’
+
+ Undocumented arguments in Rd file 'exwas-methods.Rd'
+ ‘robust’
+
+ Undocumented arguments in Rd file 'imExposomeSet-class.Rd'
+ ‘robust’
+
+ Functions with \usage entries need to have the appropriate \alias
+ entries, and all their arguments documented.
+ The \usage entries must correspond to syntactically valid R code.
+ See chapter ‘Writing R documentation files’ in the ‘Writing R
+ Extensions’ manual.
+ ```
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 12.4Mb
+ sub-directories of 1Mb or more:
+ data 2.8Mb
+ doc 6.4Mb
+ extdata 2.2Mb
+ ```
+
+* checking DESCRIPTION meta-information ... NOTE
+ ```
+ License stub is invalid DCF.
+ ```
+
+* checking R code for possible problems ... NOTE
+ ```
+ imputeLOD: multiple local function definitions for ‘faux’ with
+ different formal arguments
+ invExWAS,ExposomeSet : : no visible global function
+ definition for ‘reformulate’
+ invExWAS,ExposomeSet : : no visible global function
+ definition for ‘terms’
+ invExWAS,ExposomeSet : : no visible global function
+ definition for ‘confint’
+ invExWAS,ExposomeSet: no visible global function definition for
+ ‘reformulate’
+ invExWAS,ExposomeSet: no visible global function definition for ‘terms’
+ plotHistogram,ExposomeSet: no visible binding for global variable
+ ‘..density..’
+ Undefined global functions or variables:
+ ..density.. confint reformulate terms
+ Consider adding
+ importFrom("stats", "confint", "reformulate", "terms")
+ to your NAMESPACE file.
+ ```
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) exwas-methods.Rd:50: Lost braces
+ 50 | An code{ExWAS} object with the result of the association study
+ | ^
+ checkRd: (-1) invExWAS-methods.Rd:31: Lost braces
+ 31 | An code{ExWAS} object with the result of the association study
+ | ^
+ checkRd: (-1) standardize-methods.Rd:13: Lost braces
+ 13 | #' @param object code{ExposomeSet} with 'set' will be summarized.
+ | ^
+ ```
+
+# RfEmpImp
+
+
+
+* Version: 2.1.8
+* GitHub: https://github.com/shangzhi-hong/RfEmpImp
+* Source code: https://github.com/cran/RfEmpImp
+* Date/Publication: 2022-10-20 07:17:54 UTC
+* Number of recursive dependencies: 94
+
+Run `revdepcheck::revdep_details(, "RfEmpImp")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# rms
+
+
+
+* Version: 6.8-2
+* GitHub: https://github.com/harrelfe/rms
+* Source code: https://github.com/cran/rms
+* Date/Publication: 2024-08-23 05:10:02 UTC
+* Number of recursive dependencies: 145
+
+Run `revdepcheck::revdep_details(, "rms")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# RNAseqCovarImpute
+
+
+
+* Version: 1.4.0
+* GitHub: https://github.com/brennanhilton/RNAseqCovarImpute
+* Source code: https://github.com/cran/RNAseqCovarImpute
+* Date/Publication: 2024-10-29
+* Number of recursive dependencies: 145
+
+Run `revdepcheck::revdep_details(, "RNAseqCovarImpute")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking R code for possible problems ... NOTE
+ ```
+ combine_rubins: no visible binding for global variable ‘probe’
+ combine_rubins: no visible binding for global variable ‘i’
+ combine_rubins: no visible binding for global variable ‘coef_combined’
+ combine_rubins: no visible binding for global variable ‘rubins_t_bayes’
+ combine_rubins: no visible binding for global variable ‘combined_p’
+ combine_rubins: no visible binding for global variable
+ ‘combined_p_bayes’
+ limmavoom_imputed_data_list_helper: no visible binding for global
+ variable ‘i’
+ limmavoom_imputed_data_list_helper: no visible binding for global
+ ...
+ voom_sx_sy: no visible global function definition for ‘is’
+ voom_sx_sy: no visible global function definition for ‘new’
+ Undefined global functions or variables:
+ approxfun coef_combined combined_p combined_p_bayes gene_bin i is
+ lm_predictor lowess new probe rubins_t_bayes
+ Consider adding
+ importFrom("methods", "is", "new")
+ importFrom("stats", "approxfun", "lowess")
+ to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
+ contains 'methods').
+ ```
+
+* checking Rd \usage sections ... NOTE
+ ```
+ Documented arguments not in \usage in Rd file 'impute_gene_bin_helper.Rd':
+ ‘DGE’ ‘param’
+
+ Functions with \usage entries need to have the appropriate \alias
+ entries, and all their arguments documented.
+ The \usage entries must correspond to syntactically valid R code.
+ See chapter ‘Writing R documentation files’ in the ‘Writing R
+ Extensions’ manual.
+ ```
+
+# rqlm
+
+
+
+* Version: 2.1-1
+* GitHub: NA
+* Source code: https://github.com/cran/rqlm
+* Date/Publication: 2024-05-23 21:50:03 UTC
+* Number of recursive dependencies: 62
+
+Run `revdepcheck::revdep_details(, "rqlm")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# RSquaredMI
+
+
+
+* Version: 0.1.1
+* GitHub: https://github.com/karchjd/RsquaredMI
+* Source code: https://github.com/cran/RSquaredMI
+* Date/Publication: 2024-09-19 16:00:07 UTC
+* Number of recursive dependencies: 81
+
+Run `revdepcheck::revdep_details(, "RSquaredMI")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# semmcci
+
+
+
+* Version: 1.1.4
+* GitHub: https://github.com/jeksterslab/semmcci
+* Source code: https://github.com/cran/semmcci
+* Date/Publication: 2024-03-17 18:30:02 UTC
+* Number of recursive dependencies: 111
+
+Run `revdepcheck::revdep_details(, "semmcci")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# semTools
+
+
+
+* Version: 0.5-6
+* GitHub: https://github.com/simsem/semTools
+* Source code: https://github.com/cran/semTools
+* Date/Publication: 2022-05-10 07:00:02 UTC
+* Number of recursive dependencies: 129
+
+Run `revdepcheck::revdep_details(, "semTools")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘semTools-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: combinequark
+ > ### Title: Combine the results from the quark function
+ > ### Aliases: combinequark
+ >
+ > ### ** Examples
+ >
+ >
+ ...
+ Data Check Passed.
+ ID Check Passed.
+ Loading required namespace: mice
+ Failed with error: ‘there is no package called ‘mice’’
+ The quark function requires the "mice" package to be installed.
+ >
+ > final.data <- combinequark(quark = quark.list, percent = 80)
+ Error in if (pct[i] >= percent) { : argument is of length zero
+ Calls: combinequark
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+## In both
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) PAVranking.Rd:77-79: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) PAVranking.Rd:80-82: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) PAVranking.Rd:83-85: Lost braces in \itemize; \value handles \item{}{} directly
+ checkRd: (-1) PAVranking.Rd:86-87: Lost braces in \itemize; \value handles \item{}{} directly
+ ```
+
+# seqimpute
+
+
+
+* Version: 2.1.0
+* GitHub: https://github.com/emerykevin/seqimpute
+* Source code: https://github.com/cran/seqimpute
+* Date/Publication: 2024-11-13 12:20:02 UTC
+* Number of recursive dependencies: 152
+
+Run `revdepcheck::revdep_details(, "seqimpute")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# shapeNA
+
+
+
+* Version: 0.0.2
+* GitHub: NA
+* Source code: https://github.com/cran/shapeNA
+* Date/Publication: 2021-03-15 09:10:02 UTC
+* Number of recursive dependencies: 82
+
+Run `revdepcheck::revdep_details(, "shapeNA")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘shapeNA-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: barplot.shapeNA
+ > ### Title: Barplot Showcasing Missingness Proportion of the Original Data
+ > ### Aliases: barplot.shapeNA
+ >
+ > ### ** Examples
+ >
+ > S <- toeplitz(seq(1, 0.1, length.out = 3))
+ > x <- mvtnorm::rmvt(100, S, df = 5)
+ > y <- mice::ampute(x, mech='MCAR')$amp
+ Error in loadNamespace(x) : there is no package called ‘mice’
+ Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+## In both
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespace in Imports field not imported from: ‘stats’
+ All declared Imports should be used.
+ ```
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) powerShape.Rd:30: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) powerShape.Rd:31: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) powerShape.Rd:32-33: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) powerShapeNA.Rd:30: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) powerShapeNA.Rd:31: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) powerShapeNA.Rd:32-33: Lost braces in \itemize; meant \describe ?
+ ```
+
+* checking LazyData ... NOTE
+ ```
+ 'LazyData' is specified without a 'data' directory
+ ```
+
+# sjmisc
+
+
+
+* Version: 2.8.10
+* GitHub: https://github.com/strengejacke/sjmisc
+* Source code: https://github.com/cran/sjmisc
+* Date/Publication: 2024-05-13 13:50:02 UTC
+* Number of recursive dependencies: 115
+
+Run `revdepcheck::revdep_details(, "sjmisc")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+# smdi
+
+
+
+* Version: 0.3.1
+* GitHub: NA
+* Source code: https://github.com/cran/smdi
+* Date/Publication: 2024-10-04 07:10:02 UTC
+* Number of recursive dependencies: 217
+
+Run `revdepcheck::revdep_details(, "smdi")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking running R code from vignettes ...
+ ```
+ ‘a_data_generation.Rmd’ using ‘UTF-8’... failed
+ ‘b_routine_diagnostics.Rmd’ using ‘UTF-8’... failed
+ ‘c_multivariate_missingness.Rmd’ using ‘UTF-8’... OK
+ ‘d_narfcs_sensitivity_analysis.Rmd’ using ‘UTF-8’... OK
+ ‘smdi.Rmd’ using ‘UTF-8’... OK
+ ERROR
+ Errors in running code in vignettes:
+ when running code in ‘a_data_generation.Rmd’
+ ...
+ restarting interrupted promise evaluation
+ ...
+ > library(here)
+ here() starts at /private/var/folders/5_/g85d42yj50b6lrjq4rzjzg8w0000gn/T/RtmpTlJyql/filebdb5236ac387/vignettes
+
+ > library(knitr)
+
+ > include_graphics(here("vignettes", "smdi_diagnose_table.png"))
+
+ When sourcing ‘b_routine_diagnostics.R’:
+ Error: Cannot find the file(s): "/private/var/folders/5_/g85d42yj50b6lrjq4rzjzg8w0000gn/T/RtmpTlJyql/filebdb5236ac387/vignettes/vignettes/smdi_diagnose_table.png"
+ Execution halted
+ ```
+
+# sociome
+
+
+
+* Version: 2.2.5
+* GitHub: https://github.com/ClevelandClinicQHS/sociome
+* Source code: https://github.com/cran/sociome
+* Date/Publication: 2023-12-06 12:10:02 UTC
+* Number of recursive dependencies: 117
+
+Run `revdepcheck::revdep_details(, "sociome")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# StackImpute
+
+
+
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/StackImpute
+* Date/Publication: 2021-09-10 11:10:02 UTC
+* Number of recursive dependencies: 83
+
+Run `revdepcheck::revdep_details(, "StackImpute")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespaces in Imports field not imported from:
+ ‘MASS’ ‘mice’ ‘sandwich’ ‘zoo’
+ All declared Imports should be used.
+ ```
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) stackExample.Rd:10: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) stackExample.Rd:11: Lost braces in \itemize; meant \describe ?
+ ```
+
+# superMICE
+
+
+
+* Version: 1.1.1
+* GitHub: NA
+* Source code: https://github.com/cran/superMICE
+* Date/Publication: 2022-05-04 20:00:02 UTC
+* Number of recursive dependencies: 127
+
+Run `revdepcheck::revdep_details(, "superMICE")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ Package suggested but not available for checking: ‘extraTrees’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘extraTrees’
+ ```
+
+# svyweight
+
+
+
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/svyweight
+* Date/Publication: 2022-05-03 10:00:02 UTC
+* Number of recursive dependencies: 83
+
+Run `revdepcheck::revdep_details(, "svyweight")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+* checking Rd cross-references ... NOTE
+ ```
+ Package unavailable to check Rd xrefs: ‘mice’
+ ```
+
+## In both
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) eff_n.Rd:32: Lost braces; missing escapes or markup?
+ 32 | \code{\link[survey:surveysummary]{survey::svymean()}} and related functions from the {survey}
+ | ^
+ ```
+
+# SynDI
+
+
+
+* Version: 0.1.0
+* GitHub: https://github.com/umich-biostatistics/SynDI
+* Source code: https://github.com/cran/SynDI
+* Date/Publication: 2022-05-25 07:50:05 UTC
+* Number of recursive dependencies: 75
+
+Run `revdepcheck::revdep_details(, "SynDI")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ... NOTE
+ ```
+ Namespaces in Imports field not imported from:
+ ‘MASS’ ‘StackImpute’ ‘arm’ ‘boot’ ‘broom’ ‘knitr’ ‘mvtnorm’
+ ‘randomForest’
+ All declared Imports should be used.
+ ```
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) create_synthetic_example.Rd:10: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) create_synthetic_example.Rd:11: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) create_synthetic_example.Rd:12: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) initial_estimates_example.Rd:10: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) initial_estimates_example.Rd:11: Lost braces in \itemize; meant \describe ?
+ checkRd: (-1) initial_estimates_example.Rd:12: Lost braces in \itemize; meant \describe ?
+ ```
+
+# synergyfinder
+
+
+
+* Version: 3.14.0
+* GitHub: NA
+* Source code: https://github.com/cran/synergyfinder
+* Date/Publication: 2024-10-29
+* Number of recursive dependencies: 196
+
+Run `revdepcheck::revdep_details(, "synergyfinder")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+## Newly fixed
+
+* checking dependencies in R code ... WARNING
+ ```
+ '::' or ':::' import not declared from: ‘scales’
+ Namespaces in Imports field not imported from:
+ ‘future’ ‘gstat’ ‘nleqslv’ ‘sp’ ‘tidyverse’
+ All declared Imports should be used.
+ ```
+
+* checking installed package size ... NOTE
+ ```
+ installed size is 6.2Mb
+ sub-directories of 1Mb or more:
+ doc 5.8Mb
+ ```
+
+* checking R code for possible problems ... NOTE
+ ```
+ .Extract2DrugPlotData: no visible binding for global variable
+ ‘input_type’
+ .Extract2DrugPlotData: no visible binding for global variable
+ ‘block_id’
+ .Extract2DrugPlotData: no visible binding for global variable ‘value’
+ .Extract2DrugPlotData: no visible binding for global variable ‘left’
+ .Extract2DrugPlotData: no visible binding for global variable ‘right’
+ .Extract2DrugPlotData: no visible binding for global variable ‘conc1’
+ .Extract2DrugPlotData: no visible binding for global variable ‘conc2’
+ .Extract2DrugPlotData: no visible binding for global variable ‘text’
+ ...
+ response_CI95 response_mean response_origin response_origin_CI95
+ response_origin_mean response_origin_sd response_origin_sem
+ response_sd response_sem right start synergy t.test text theta value
+ x y
+ Consider adding
+ importFrom("grDevices", "dev.list", "dev.off")
+ importFrom("graphics", "text")
+ importFrom("stats", "end", "predict", "start", "t.test")
+ importFrom("utils", "data", "head")
+ to your NAMESPACE file.
+ ```
+
+* checking Rd files ... NOTE
+ ```
+ checkRd: (-1) FitDoseResponse.Rd:54: Lost braces
+ 54 | href{https://onlinelibrary.wiley.com/doi/book/10.1002/0471725315}{Nonlinear
+ | ^
+ checkRd: (-1) FitDoseResponse.Rd:54-55: Lost braces
+ 54 | href{https://onlinelibrary.wiley.com/doi/book/10.1002/0471725315}{Nonlinear
+ | ^
+ checkRd: (-1) FitDoseResponse.Rd:55: Escaped LaTeX specials: \&
+ checkRd: (-1) PlotBarometer.Rd:118: Lost braces
+ 118 | href{https://www.frontiersin.org/articles/10.3389/fphar.2015.00181/full}{What
+ | ^
+ checkRd: (-1) PlotBarometer.Rd:118-119: Lost braces
+ 118 | href{https://www.frontiersin.org/articles/10.3389/fphar.2015.00181/full}{What
+ | ^
+ checkRd: (-1) PlotDoseResponseCurve.Rd:84: Lost braces
+ 84 | link[drc]{plot.drc} function. For example, use xlim = c(0.5, 500) or
+ | ^
+ ```
+
+# TestDataImputation
+
+
+
+* Version: 2.3
+* GitHub: NA
+* Source code: https://github.com/cran/TestDataImputation
+* Date/Publication: 2021-10-18 18:10:11 UTC
+* Number of recursive dependencies: 63
+
+Run `revdepcheck::revdep_details(, "TestDataImputation")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# tidySEM
+
+
+
+* Version: 0.2.7
+* GitHub: https://github.com/cjvanlissa/tidySEM
+* Source code: https://github.com/cran/tidySEM
+* Date/Publication: 2024-06-04 09:46:01 UTC
+* Number of recursive dependencies: 229
+
+Run `revdepcheck::revdep_details(, "tidySEM")` for more info
+
+
+
+## Newly broken
+
+* checking examples ... ERROR
+ ```
+ Running examples in ‘tidySEM-Ex.R’ failed
+ The error most likely occurred in:
+
+ > ### Name: pseudo_class
+ > ### Title: Estimate an Auxiliary Model using the Pseudo-Class Method
+ > ### Aliases: pseudo_class pseudo_class.MxModel
+ >
+ > ### ** Examples
+ >
+ > set.seed(2)
+ ...
+ The degrees of freedom are assumed to be equal to the total number of observations used in the model ( 17 ) minus the number of parameters estimated ( 5 ). This may not be correct. If necessary, provide a better value via the 'df_complete' argument
+ >
+ > pct_lm <- pseudo_class(x = fit,
+ + model = lm( SL ~ class, data = data),
+ + data = dat,
+ + m = 2)
+ Error in pseudo_class_pool.default(fits, ...) :
+ Cannot pool fit objects, because package 'mice' is not installed
+ Calls: pseudo_class ... pseudo_class.class_draws -> pseudo_class_pool -> pseudo_class_pool.default
+ Execution halted
+ ```
+
+* checking tests ...
+ ```
+ Running ‘testthat.R’
+ ERROR
+ Running the tests in ‘tests/testthat.R’ failed.
+ Last 13 lines of output:
+ • On CRAN (1): 'test-plot_profiles_varyingcov.R:2:3'
+
+ ══ Failed tests ════════════════════════════════════════════════════════════════
+ ── Error ('test-pseudo_class_technique.R:8:3'): pseudo_class works ─────────────
+ Error in `pseudo_class_pool.default(fits, ...)`: Cannot pool fit objects, because package 'mice' is not installed
+ Backtrace:
+ ▆
+ 1. ├─tidySEM::pseudo_class(...)
+ 2. └─tidySEM:::pseudo_class.class_draws(...)
+ 3. ├─tidySEM:::pseudo_class_pool(fits, ...)
+ 4. └─tidySEM:::pseudo_class_pool.default(fits, ...)
+
+ [ FAIL 1 | WARN 1 | SKIP 6 | PASS 101 ]
+ Error: Test failures
+ Execution halted
+ ```
+
+* checking package dependencies ... NOTE
+ ```
+ Package suggested but not available for checking: ‘mice’
+ ```
+
+# vsmi
+
+
+
+* Version: 0.1.0
+* GitHub: NA
+* Source code: https://github.com/cran/vsmi
+* Date/Publication: 2024-05-25 17:20:02 UTC
+* Number of recursive dependencies: 61
+
+Run `revdepcheck::revdep_details(, "vsmi")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
+ ```
+
+# weights
+
+
+
+* Version: 1.0.4
+* GitHub: NA
+* Source code: https://github.com/cran/weights
+* Date/Publication: 2021-06-10 21:50:02 UTC
+* Number of recursive dependencies: 105
+
+Run `revdepcheck::revdep_details(, "weights")` for more info
+
+
+
+## Newly broken
+
+* checking package dependencies ... ERROR
+ ```
+ Package required but not available: ‘mice’
+
+ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
+ manual.
```