* using log directory 'd:/RCompile/CRANincoming/R-devel/scR.Rcheck'
* using R Under development (unstable) (2024-11-24 r87369 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'scR/DESCRIPTION' ... OK
* this is package 'scR' version '0.1.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Perry Carter <pjcarter@princeton.edu>'

New submission

Non-FOSS package license (`use_mit_license()`)

Possibly misspelled words in DESCRIPTION:
  VCD (2:17)
  scR (10:18)

Package has a VignetteBuilder field but no prebuilt vignette index.

Size of tarball: 6900185 bytes
* checking package namespace information ... OK
* checking package dependencies ... INFO
Vignette dependency required without any vignettes: 'knitr'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking serialization versions ... OK
* checking whether package 'scR' can be installed ... WARNING
Found the following significant warnings:
  Note: possible error in 'layout(yaxis = list(title = ""), ': unused arguments (yaxis = list(title = ""), legend = list(orientation = "")) 
See 'd:/RCompile/CRANincoming/R-devel/scR.Rcheck/00install.out' for details.
Information on the location(s) of code generating the 'Note's can be
obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
to 'yes'.
* checking installed package size ... INFO
  installed size is 71.2Mb
  sub-directories of 1Mb or more:
    data  71.1Mb
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... WARNING
Non-standard license specification:
  `use_mit_license()`
Standardizable: FALSE
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
acc_sim: no visible binding for global variable 'nsample'
acc_sim: no visible binding for global variable 'dat'
acc_sim: no visible global function definition for 'rbinom'
acc_sim: no visible binding for global variable 'eta'
acc_sim: no visible binding for global variable 'outcome'
acc_sim: no visible global function definition for '%>%'
acc_sim: no visible global function definition for 'select'
acc_sim: no visible global function definition for 'all_of'
acc_sim: no visible global function definition for 'model'
acc_sim: no visible global function definition for 'predict'
acc_sim: no visible global function definition for 'precision'
acc_sim: no visible global function definition for 'recall'
acc_sim: no visible global function definition for 'F_meas'
acc_sim: no visible binding for global variable 'power'
acc_sim: no visible binding for global variable 'powersims'
acc_sim: no visible binding for global variable 'effect_size'
acc_sim: no visible global function definition for 'rnorm'
acc_sim: no visible global function definition for 'lm'
acc_sim: no visible binding for global variable 'alpha'
estimate_accuracy: no visible global function definition for
  'model.frame'
estimate_accuracy: no visible global function definition for
  'detectCores'
estimate_accuracy: no visible global function definition for
  'makeCluster'
estimate_accuracy: no visible global function definition for
  'clusterExport'
estimate_accuracy: no visible global function definition for
  'clusterEvalQ'
estimate_accuracy: no visible global function definition for 'pblapply'
estimate_accuracy: no visible global function definition for
  'stopCluster'
estimate_accuracy: no visible global function definition for
  'bind_rows'
estimate_accuracy: no visible global function definition for '%>%'
estimate_accuracy: no visible global function definition for 'group_by'
estimate_accuracy: no visible binding for global variable 'n'
estimate_accuracy: no visible global function definition for
  'summarise'
estimate_accuracy: no visible binding for global variable 'accuracy'
estimate_accuracy: no visible binding for global variable 'prec'
estimate_accuracy: no visible binding for global variable 'rec'
estimate_accuracy: no visible binding for global variable 'fscore'
estimate_accuracy: no visible global function definition for 'quantile'
estimate_accuracy: no visible binding for global variable 'pwr'
gendata: no visible global function definition for 'runif'
gendata: no visible global function definition for 'predict'
getpac: no visible global function definition for '%>%'
getpac: no visible global function definition for 'group_by'
getpac: no visible binding for global variable 'n'
getpac: no visible global function definition for 'summarise'
getpac: no visible binding for global variable 'accuracy'
getpac: no visible binding for global variable 'prec'
getpac: no visible binding for global variable 'rec'
getpac: no visible binding for global variable 'fscore'
getpac: no visible global function definition for 'quantile'
getpac: no visible binding for global variable 'pwr'
plot_accuracy: no visible global function definition for '%>%'
plot_accuracy: no visible global function definition for 'select'
plot_accuracy: no visible binding for global variable 'n'
plot_accuracy: no visible global function definition for 'all_of'
plot_accuracy: no visible global function definition for 'pivot_longer'
plot_accuracy: no visible binding for global variable 'Accuracy'
plot_accuracy: no visible binding for global variable 'Power'
plot_accuracy: no visible global function definition for 'ggplot'
plot_accuracy: no visible binding for global variable '.'
plot_accuracy: no visible global function definition for 'aes'
plot_accuracy: no visible binding for global variable 'Value'
plot_accuracy: no visible binding for global variable 'Metric'
plot_accuracy: no visible global function definition for 'geom_line'
plot_accuracy: no visible global function definition for 'plot_ly'
plot_accuracy: no visible global function definition for 'layout'
risk_bounds: no visible binding for global variable 'm'
risk_bounds: no visible binding for global variable 'l'
risk_bounds: no visible global function definition for 'rnorm'
risk_bounds: no visible global function definition for 'bind_rows'
risk_bounds: no visible global function definition for 'model'
risk_bounds: no visible global function definition for 'predict'
simvcd: no visible global function definition for 'detectCores'
simvcd: no visible global function definition for 'makeCluster'
simvcd: no visible global function definition for 'clusterExport'
simvcd: no visible global function definition for 'clusterEvalQ'
simvcd: no visible global function definition for 'pbsapply'
simvcd: no visible global function definition for 'res2stopCluster'
simvcd: no visible global function definition for 'optim'
Undefined global functions or variables:
  %>% . Accuracy F_meas Metric Power Value accuracy aes all_of alpha
  bind_rows clusterEvalQ clusterExport dat detectCores effect_size eta
  fscore geom_line ggplot group_by l layout lm m makeCluster model
  model.frame n nsample optim outcome pblapply pbsapply pivot_longer
  plot_ly power powersims prec precision predict pwr quantile rbinom
  rec recall res2stopCluster rnorm runif select stopCluster summarise
Consider adding
  importFrom("graphics", "layout")
  importFrom("stats", "lm", "model.frame", "optim", "power", "predict",
             "quantile", "rbinom", "rnorm", "runif")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... NOTE
Rd file 'estimate_accuracy.Rd':
  \examples lines wider than 100 characters:
     out <- factor(ifelse(out>0.5,1,0),levels=c("0","1")) #Important - must specify levels to account for possibility of all observations be ... [TRUNCATED]
     #results <- estimate_accuracy(two_year_recid ~ race + sex + age + juv_fel_count + juv_misd_count + priors_count + charge_degree..misd.f ... [TRUNCATED]

Rd file 'gendata.Rd':
  \examples lines wider than 100 characters:
     out <- factor(ifelse(out>0.5,1,0),levels=c("0","1")) #Important - must specify levels to account for possibility of all observations be ... [TRUNCATED]
     formula <- two_year_recid ~ race + sex + age + juv_fel_count + juv_misd_count + priors_count + charge_degree..misd.fel.

Rd file 'getpac.Rd':
  \examples lines wider than 100 characters:
     out <- factor(ifelse(out>0.5,1,0),levels=c("0","1")) #Important - must specify levels to account for possibility of all observations be ... [TRUNCATED]
     #results <- estimate_accuracy(two_year_recid ~ race + sex + age + juv_fel_count + juv_misd_count + priors_count + charge_degree..misd.f ... [TRUNCATED]

Rd file 'plot_accuracy.Rd':
  \examples lines wider than 100 characters:
     out <- factor(ifelse(out>0.5,1,0),levels=c("0","1")) #Important - must specify levels to account for possibility of all observations be ... [TRUNCATED]
     #results <- estimate_accuracy(two_year_recid ~ race + sex + age + juv_fel_count + juv_misd_count + priors_count + charge_degree..misd.f ... [TRUNCATED]

Rd file 'scb.Rd':
  \examples lines wider than 100 characters:
     out <- factor(ifelse(out>0.5,1,0),levels=c("0","1")) #Important - must specify levels to account for possibility of all observations be ... [TRUNCATED]
     #scb(epsilon=0.05,delta=0.05,eta=0.05,theor=FALSE,model=mylogit,dim=7,m=100,k=100,maxn=500,predictfn = mypred)

Rd file 'simvcd.Rd':
  \examples lines wider than 100 characters:
     out <- factor(ifelse(out>0.5,1,0),levels=c("0","1")) #Important - must specify levels to account for possibility of all observations be ... [TRUNCATED]
     #vcd <- simvcd(model=mylogit,dim=7,m=100,k=100,maxn=500,predictfn = mypred) #Takes about 20 minutes to run on mid-range test machine (I ... [TRUNCATED]

These lines will be truncated in the PDF manual.
* checking Rd cross-references ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  plot_accuracy.Rd: ggplot2, plotly
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... [23s] OK
* checking LazyData ... WARNING
  LazyData DB of 71.1 MB without LazyDataCompression set
  See §1.1.6 of 'Writing R Extensions'
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking PDF version of manual ... [12s] OK
* checking HTML version of manual ... OK
* DONE
Status: 3 WARNINGs, 5 NOTEs