* using log directory 'd:/RCompile/CRANincoming/R-devel/isocir.Rcheck'
* using R Under development (unstable) (2025-09-11 r88813 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'isocir/DESCRIPTION' ... OK
* this is package 'isocir' version '2.1'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Sandra Barragan <sandra.barragan@gmail.com>'

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
* 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 whether package 'isocir' can be installed ... OK
* used C compiler: 'gcc.exe (GCC) 14.2.0'
* 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 ... NOTE
Problems with news in 'NEWS':
  Cannot process chunk/lines:
    A full revision of the package, fixing some bugs and renaming some functions to be more logical.
  Cannot process chunk/lines:
    Help files (.Rd) updated.
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    Function eq.test: the confidence coefficient is calculated inside the function and there is a new output file called frequencydist.csv.
  Cannot process chunk/lines:
    Function ACO and eq.test: increase the number of times heuristics are used in order to get a better approximation of estimators.
  Cannot process chunk/lines:
    Function eq.test: more changes to obtained the distribution under the null in a more logical way.
  Cannot process chunk/lines:
    Function eq.test: Some bugs solved and other improvements.
  Cannot process chunk/lines:
    Function eq.test: Values of statistic added to the output.
  Cannot process chunk/lines:
    Bug solved in CLM in case of missing values.
  Cannot process chunk/lines:
    General improvements in the code and in the help files.
  Cannot process chunk/lines:
    FOCO function is changed to ACO function and a considerable improvement of the code is done.
  Cannot process chunk/lines:
    In the function FOCO the code has some changes as consequence of the implementation
  Cannot process chunk/lines:
    of some improvements in the methodology (the distances when the argument time is used with TSP).
  Cannot process chunk/lines:
    A great change in the algorithm which calculates the CIRE in C code
  Cannot process chunk/lines:
    in order to be even more computationally eficient and fast.
  Cannot process chunk/lines:
    A new method of fusion of circular order has been implemented
  Cannot process chunk/lines:
    and added to:
  Cannot process chunk/lines:
    FOCO
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    CLM
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    Now, all the methodology is computationally eficient.
  Cannot process chunk/lines:
    Some new functions have been incorporated:
  Cannot process chunk/lines:
    FOCO
  Cannot process chunk/lines:
    CLM
  Cannot process chunk/lines:
    cirKendall
  Cannot process chunk/lines:
    cirktau
  Cannot process chunk/lines:
    cirsce
  Cannot process chunk/lines:
    naiveSCE
  Cannot process chunk/lines:
    These functions have the implementation of different methodologies
  Cannot process chunk/lines:
    to fuse circular orders.
  Cannot process chunk/lines:
    cond.test and mrl can now deal properly with missing data.
  Cannot process chunk/lines:
    Some bugs are solved in CIRE function.
  Cannot process chunk/lines:
    CIRE can deal with missing values in the data. There is also an improvement 
  Cannot process chunk/lines:
    in its control of arguments.
  Cannot process chunk/lines:
    An improvement in the C code that is part of the function CIRE
  Cannot process chunk/lines:
    Some specific changes that make the package more user-friendly.
  Cannot process chunk/lines:
    Removed the functions cirmean, cirkappa since analogous functions
  Cannot process chunk/lines:
    are available in an existing package circular.
  Cannot process chunk/lines:
    Rewrited all the remaining functions to improve their speed.
  Cannot process chunk/lines:
    Renamed most of the functions for clarity as follows:
  Cannot process chunk/lines:
    CIREi --> CIRE
  Cannot process chunk/lines:
    CTi -->cond.test
  Cannot process chunk/lines:
    cirSCE --> sce
  Cannot process chunk/lines:
    plotcircularm --> plot.isocir
  Cannot process chunk/lines:
    Changed the name of the argument of former CTi function
  Cannot process chunk/lines:
    from levels to groups.
  Cannot process chunk/lines:
    Added isocir/src/funCIRE.C in order to improve the speed of CIRE.
  Cannot process chunk/lines:
    Created the S3 class isocir and the methods: isocir, is.isocir,
  Cannot process chunk/lines:
    print.isocir and plot.isocir, related to this class.
  Cannot process chunk/lines:
    Generated again the random data set with replications
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    that is called datareplic.
  Cannot process chunk/lines:
    Released the version 1.0 in the CRAN.
  Cannot process chunk/lines:
    Sandra Barragan
  Cannot process chunk/lines:
    Departmento de Estadistica e Investigacion Operativa
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    Universidad de Valladolid
  Cannot process chunk/lines:
    Spain
  Cannot process chunk/lines:
    http://www.eio.uva.es/~sandra
    <sandraba@eio.uva.es>
* 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 whether startup messages can be suppressed ... 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
Found if() conditions comparing class() to string:
File 'isocir/R/plot.isocir.R': if (class(x) != "isocir") ...
Use inherits() (or maybe is()) instead.
* 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 ... 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 ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... 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' ... WARNING
  'gs+qpdf' made some significant size reductions:
     compacted 'isocir.pdf' from 614Kb to 175Kb
  consider running tools::compactPDF(gs_quality = "ebook") on these files,
  or build the source package with --compact-vignettes=both
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [18s] OK
* checking PDF version of manual ... [13s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 WARNING, 3 NOTEs