* using log directory 'd:/RCompile/CRANincoming/R-devel/PAFit.Rcheck'
* using R Under development (unstable) (2024-03-25 r86192 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'PAFit/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PAFit' version '1.2.8'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Thong Pham <thongphamthe@gmail.com>'

New submission

Package was archived on CRAN

Possibly misspelled words in DESCRIPTION:
  Pham (8:161, 8:222, 8:272, 8:326)
  al (8:169, 8:230, 8:280, 8:334)
  et (8:166, 8:227, 8:277, 8:331)

CRAN repository db overrides:
  X-CRAN-Comment: Archived on 2023-11-28 as requires archived package
    'magicaxis'.
* checking package namespace information ... OK
* checking package dependencies ... OK
* 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 'PAFit' can be installed ... OK
* used C compiler: 'gcc.exe (GCC) 13.2.0'
* used C++ compiler: 'g++.exe (GCC) 13.2.0'
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking 'build' directory ... 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 ... [22s] OK
* checking Rd files ... NOTE
checkRd: (-1) get_statistics.Rd:59: Lost braces; missing escapes or markup?
    59 | Numeric. Indicates how much we should compress if CompressMode is \code{1} or {2}. Default value is \code{0.5}.
       |                                                                               ^
* 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 ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... NOTE
Argument items with no description in Rd file 'joint_estimate.rd':
  '\dots'
Argument items with no description in Rd file 'only_A_estimate.rd':
  '\dots'
Argument items with no description in Rd file 'only_F_estimate.rd':
  '\dots'
Argument items with no description in Rd file 'plot.Full_PAFit_result.Rd':
  '\dots'
Argument items with no description in Rd file 'plot.PAFit_net.Rd':
  '\dots'
Argument items with no description in Rd file 'plot.PAFit_result.rd':
  '\dots'
Argument items with no description in Rd file 'plot.PA_result.rd':
  '\dots'
Argument items with no description in Rd file 'print.CV_Result.rd':
  '\dots'
Argument items with no description in Rd file 'print.CV_data.rd':
  '\dots'
Argument items with no description in Rd file 'print.Full_PAFit_result.Rd':
  '\dots'
Argument items with no description in Rd file 'print.PAFit_data.rd':
  '\dots'
Argument items with no description in Rd file 'print.PAFit_net.rd':
  '\dots'
Argument items with no description in Rd file 'print.PAFit_result.rd':
  '\dots'
Argument items with no description in Rd file 'summary.CV_Data.rd':
  '\dots'
Argument items with no description in Rd file 'summary.CV_Result.rd':
  '\dots'
Argument items with no description in Rd file 'summary.Full_PAFit_result.Rd':
  '\dots'
Argument items with no description in Rd file 'summary.PAFit_data.rd':
  '\dots'
Argument items with no description in Rd file 'summary.PAFit_net.rd':
  '\dots'
Argument items with no description in Rd file 'summary.PAFit_result.rd':
  '\dots'
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... 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 ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [45s] OK
  Running 'fit_node_no_new_edge.R'
  Running 'loop_generate.R'
  Running 'loop_joint_estimate.R'
  Running 'loop_overall.R'
  Running 'loop_test_Newman_Kong.R'
  Running 'test_GenerateNet_final_padding.R'
  Running 'test_GetStatistics_compress_2.R'
  Running 'test_GetStatistics_undirected.R'
  Running 'test_Newman_Kong.R'
  Running 'test_PAFit_oneshot.R'
  Running 'test_cv_data.R'
  Running 'test_from_igraph.R'
  Running 'test_from_networkDynamic.R'
  Running 'test_generate_net_no_new_node.R'
  Running 'test_graph_from_file.R'
  Running 'test_graph_to_file.R'
  Running 'test_isolated_node_2.R'
  Running 'test_joint_estimate.R'
  Running 'test_only_A.R'
  Running 'test_only_F.R'
  Running 'test_overall.R'
  Running 'test_plot_PAFit_net.R'
  Running 'test_re_generate.R'
  Running 'test_test_linear_PA.R'
  Running 'test_to_igraph.R'
  Running 'test_to_networkDynamic.R'
  Running 'test_true_f.R'
  Running 'test_variance_s.R'
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... [14s] OK
* checking HTML version of manual ... OK
* DONE
Status: 3 NOTEs