* using log directory 'd:/RCompile/CRANincoming/R-devel/GBOP2.Rcheck'
* using R Under development (unstable) (2025-12-19 r89206 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'GBOP2/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GBOP2' version '0.1.4'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Wanni Lei <wanni.lei17@gmail.com>'

Package has a VignetteBuilder field but no prebuilt vignette index.
* checking package namespace information ... OK
* checking package dependencies ... INFO
Package in Depends/Imports which should probably only be in LinkingTo: 'RcppArmadillo'
* 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 whether package 'GBOP2' can be installed ... OK
* used C++ compiler: 'g++.exe (GCC) 14.3.0'
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* 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 ... [13s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from Rd file 'GBOP2_minSS_TE.Rd':
GBOP2_minSS_TE
  Code: function(design = "optimal", unified.u = 1, nlooks = 1,
                 skip_efficacy = NULL, skip_toxicity = NULL,
                 maxPatients = 26, Nmin_cohort1 = 13, Nmin_increase =
                 13, p01 = 0.3, p02 = 0.4, p03 = 0.2, p11 = 0.6, p12 =
                 0.2, p13 = 0.15, err_eff = 0.1, err_tox = 0.1, err_all
                 = 0.05, power_all = 0.8, pso_method = "all", nParallel
                 = 3, seed = 1324, nSwarm = 32, maxIter = 100)
  Docs: function(design = "optimal", unified.u = 1, nlooks = 1,
                 skip_efficacy = NULL, skip_toxicity = NULL,
                 maxPatients = 26, Nmin_cohort1 = 13, Nmin_increase =
                 13, p01 = 0.3, p02 = 0.4, p03 = 0.2, p11 = 0.6, p12 =
                 0.2, p13 = 0.15, err_eff = 0.1, err_tox = 0.1, err_all
                 = 0.05, power_eff = 0.8, power_tox = 0.8, power_all =
                 0.8, pso_method = "all", nParallel = 3, seed = 1324,
                 nSwarm = 32, maxIter = 100)
  Argument names in docs not in code:
    power_eff power_tox
  Mismatches in argument names (first 3):
    Position: 18 Code: power_all Docs: power_eff
    Position: 19 Code: pso_method Docs: power_tox
    Position: 20 Code: nParallel Docs: power_all

* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... NOTE
File 'GBOP2/libs/x64/GBOP2.dll':
  Found non-API call to R: 'ATTRIB'

Compiled code should not call non-API entry points in R.

See 'Writing portable packages' in the 'Writing R Extensions' manual,
and section 'Moving into C API compliance' for issues with the use of
non-API entry points.
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking package vignettes ... NOTE
Package has 'vignettes' subdirectory but apparently no vignettes.
Perhaps the 'VignetteBuilder' information is missing from the
DESCRIPTION file?
* checking PDF version of manual ... [16s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 WARNING, 3 NOTEs