CRAN Package Check Results for Package graphPAF

Last updated on 2025-10-10 11:51:05 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.0.0 11.10 94.95 106.05 ERROR
r-devel-linux-x86_64-debian-gcc 2.0.0 7.34 68.33 75.67 ERROR
r-devel-linux-x86_64-fedora-clang 2.0.0 170.11 ERROR
r-devel-linux-x86_64-fedora-gcc 2.0.0 166.77 ERROR
r-devel-windows-x86_64 2.0.0 12.00 107.00 119.00 ERROR
r-patched-linux-x86_64 2.0.0 11.29 90.16 101.45 ERROR
r-release-linux-x86_64 2.0.0 11.18 90.09 101.27 ERROR
r-release-macos-arm64 2.0.0 65.00 OK
r-release-macos-x86_64 2.0.0 140.00 OK
r-release-windows-x86_64 2.0.0 13.00 109.00 122.00 ERROR
r-oldrel-macos-arm64 2.0.0 63.00 OK
r-oldrel-macos-x86_64 2.0.0 102.00 OK
r-oldrel-windows-x86_64 2.0.0 17.00 129.00 146.00 ERROR

Check Details

Version: 2.0.0
Check: examples
Result: ERROR Running examples in ‘graphPAF-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: plot.SAF_summary > ### Title: Produce plots of sequential and average PAF > ### Aliases: plot.SAF_summary > > ### ** Examples > > library(splines) > library(survival) > library(parallel) > options(boot.parallel="snow") > options(boot.ncpus=2) > # Simulated data on occupational and environmental exposure to > # chronic cough from Eide, 1995 > # First specify the causal graph, in terms of the parents of each node. Then put into a list > parent_urban.rural <- c() > parent_smoking.category <- c("urban.rural") > parent_occupational.exposure <- c("urban.rural") > parent_y <- c("urban.rural","smoking.category","occupational.exposure") > parent_list <- list(parent_urban.rural, parent_smoking.category, + parent_occupational.exposure, parent_y) > # also specify nodes of graph, in order from root to leaves > node_vec <- c("urban.rural","smoking.category","occupational.exposure", "y") > model_list=automatic_fit(Hordaland_data, + parent_list=parent_list, node_vec=node_vec, prev=.09) Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! > out <- average_paf(data=model_list[[length(model_list)]]$data, + model_list=model_list, + parent_list=parent_list, node_vec=node_vec, prev=.09, nperm=10, + riskfactor_vec = c("urban.rural","occupational.exposure"),ci=FALSE) > plot(out) Warning in fortify(data, ...) : Arguments in `...` must be used. ✖ Problematic argument: • size = point.size ℹ Did you misspell an argument name? Error: Can't find method for generic `+(e1, e2)`: - e1: <ggplot2::element_text> - e2: <theme> Execution halted Examples with CPU (user + system) or elapsed time > 5s user system elapsed plot.PAF_q 4.192 0.147 5.397 Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.0.0
Check: examples
Result: ERROR Running examples in ‘graphPAF-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: plot.SAF_summary > ### Title: Produce plots of sequential and average PAF > ### Aliases: plot.SAF_summary > > ### ** Examples > > library(splines) > library(survival) > library(parallel) > options(boot.parallel="snow") > options(boot.ncpus=2) > # Simulated data on occupational and environmental exposure to > # chronic cough from Eide, 1995 > # First specify the causal graph, in terms of the parents of each node. Then put into a list > parent_urban.rural <- c() > parent_smoking.category <- c("urban.rural") > parent_occupational.exposure <- c("urban.rural") > parent_y <- c("urban.rural","smoking.category","occupational.exposure") > parent_list <- list(parent_urban.rural, parent_smoking.category, + parent_occupational.exposure, parent_y) > # also specify nodes of graph, in order from root to leaves > node_vec <- c("urban.rural","smoking.category","occupational.exposure", "y") > model_list=automatic_fit(Hordaland_data, + parent_list=parent_list, node_vec=node_vec, prev=.09) Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! > out <- average_paf(data=model_list[[length(model_list)]]$data, + model_list=model_list, + parent_list=parent_list, node_vec=node_vec, prev=.09, nperm=10, + riskfactor_vec = c("urban.rural","occupational.exposure"),ci=FALSE) > plot(out) Warning in fortify(data, ...) : Arguments in `...` must be used. ✖ Problematic argument: • size = point.size ℹ Did you misspell an argument name? Error: Can't find method for generic `+(e1, e2)`: - e1: <ggplot2::element_text> - e2: <theme> Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.0.0
Check: examples
Result: ERROR Running examples in ‘graphPAF-Ex.R’ failed The error most likely occurred in: > ### Name: plot.SAF_summary > ### Title: Produce plots of sequential and average PAF > ### Aliases: plot.SAF_summary > > ### ** Examples > > library(splines) > library(survival) > library(parallel) > options(boot.parallel="snow") > options(boot.ncpus=2) > # Simulated data on occupational and environmental exposure to > # chronic cough from Eide, 1995 > # First specify the causal graph, in terms of the parents of each node. Then put into a list > parent_urban.rural <- c() > parent_smoking.category <- c("urban.rural") > parent_occupational.exposure <- c("urban.rural") > parent_y <- c("urban.rural","smoking.category","occupational.exposure") > parent_list <- list(parent_urban.rural, parent_smoking.category, + parent_occupational.exposure, parent_y) > # also specify nodes of graph, in order from root to leaves > node_vec <- c("urban.rural","smoking.category","occupational.exposure", "y") > model_list=automatic_fit(Hordaland_data, + parent_list=parent_list, node_vec=node_vec, prev=.09) Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! > out <- average_paf(data=model_list[[length(model_list)]]$data, + model_list=model_list, + parent_list=parent_list, node_vec=node_vec, prev=.09, nperm=10, + riskfactor_vec = c("urban.rural","occupational.exposure"),ci=FALSE) > plot(out) Warning in fortify(data, ...) : Arguments in `...` must be used. ✖ Problematic argument: • size = point.size ℹ Did you misspell an argument name? Error: Can't find method for generic `+(e1, e2)`: - e1: <ggplot2::element_text> - e2: <theme> Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64

Version: 2.0.0
Check: examples
Result: ERROR Running examples in ‘graphPAF-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: plot.SAF_summary > ### Title: Produce plots of sequential and average PAF > ### Aliases: plot.SAF_summary > > ### ** Examples > > library(splines) > library(survival) > library(parallel) > options(boot.parallel="snow") > options(boot.ncpus=2) > # Simulated data on occupational and environmental exposure to > # chronic cough from Eide, 1995 > # First specify the causal graph, in terms of the parents of each node. Then put into a list > parent_urban.rural <- c() > parent_smoking.category <- c("urban.rural") > parent_occupational.exposure <- c("urban.rural") > parent_y <- c("urban.rural","smoking.category","occupational.exposure") > parent_list <- list(parent_urban.rural, parent_smoking.category, + parent_occupational.exposure, parent_y) > # also specify nodes of graph, in order from root to leaves > node_vec <- c("urban.rural","smoking.category","occupational.exposure", "y") > model_list=automatic_fit(Hordaland_data, + parent_list=parent_list, node_vec=node_vec, prev=.09) Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! > out <- average_paf(data=model_list[[length(model_list)]]$data, + model_list=model_list, + parent_list=parent_list, node_vec=node_vec, prev=.09, nperm=10, + riskfactor_vec = c("urban.rural","occupational.exposure"),ci=FALSE) > plot(out) Warning in fortify(data, ...) : Arguments in `...` must be used. ✖ Problematic argument: • size = point.size ℹ Did you misspell an argument name? Error: Can't find method for generic `+(e1, e2)`: - e1: <ggplot2::element_text> - e2: <theme> Execution halted Examples with CPU (user + system) or elapsed time > 5s user system elapsed plot.PAF_q 4.157 0.138 5.423 Flavor: r-patched-linux-x86_64

Version: 2.0.0
Check: examples
Result: ERROR Running examples in ‘graphPAF-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: plot.SAF_summary > ### Title: Produce plots of sequential and average PAF > ### Aliases: plot.SAF_summary > > ### ** Examples > > library(splines) > library(survival) > library(parallel) > options(boot.parallel="snow") > options(boot.ncpus=2) > # Simulated data on occupational and environmental exposure to > # chronic cough from Eide, 1995 > # First specify the causal graph, in terms of the parents of each node. Then put into a list > parent_urban.rural <- c() > parent_smoking.category <- c("urban.rural") > parent_occupational.exposure <- c("urban.rural") > parent_y <- c("urban.rural","smoking.category","occupational.exposure") > parent_list <- list(parent_urban.rural, parent_smoking.category, + parent_occupational.exposure, parent_y) > # also specify nodes of graph, in order from root to leaves > node_vec <- c("urban.rural","smoking.category","occupational.exposure", "y") > model_list=automatic_fit(Hordaland_data, + parent_list=parent_list, node_vec=node_vec, prev=.09) Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! Warning in eval(family$initialize) : non-integer #successes in a binomial glm! > out <- average_paf(data=model_list[[length(model_list)]]$data, + model_list=model_list, + parent_list=parent_list, node_vec=node_vec, prev=.09, nperm=10, + riskfactor_vec = c("urban.rural","occupational.exposure"),ci=FALSE) > plot(out) Warning in fortify(data, ...) : Arguments in `...` must be used. ✖ Problematic argument: • size = point.size ℹ Did you misspell an argument name? Error: Can't find method for generic `+(e1, e2)`: - e1: <ggplot2::element_text> - e2: <theme> Execution halted Examples with CPU (user + system) or elapsed time > 5s user system elapsed plot.PAF_q 4.197 0.126 5.645 Flavor: r-release-linux-x86_64

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