Last updated on 2025-10-10 11:51:41 CEST.
| Package | ERROR | OK |
|---|---|---|
| graphPAF | 9 | 4 |
Current CRAN status: ERROR: 9, OK: 4
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
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.