* using log directory 'd:/RCompile/CRANincoming/R-devel/RPANDA.Rcheck'
* using R Under development (unstable) (2024-12-10 r87437 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 'RPANDA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RPANDA' version '2.4'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [12s] NOTE
Maintainer: 'Hélène Morlon <helene.morlon@bio.ens.psl.eu>'

New submission

Package was archived on CRAN

Possibly misspelled words in DESCRIPTION:
  ANalyses (5:21)
  Aristide (46:5)
  Billaud (45:5)
  Clavel (42:108, 44:61)
  Condamine (39:36)
  DiversificAtion (5:33)
  Drury (41:58, 43:5, 44:5, 46:101, 47:174)
  Lamarque (47:11, 47:67)
  Lewitus (41:5, 43:54, 45:56)
  Maliet (44:111, 46:55)
  Manceau (40:51, 42:5)
  Mazet (47:123)
  Morlon (38:5, 38:62, 40:5, 41:15, 42:56, 42:117, 43:64, 46:16, 47:22)
  Phylogenetic (5:8)
  al (38:15, 38:72, 39:49, 40:15, 40:62, 41:67, 42:16, 42:66, 43:14, 44:14, 44:71, 44:121, 45:16, 45:67, 46:65, 46:110, 47:79, 47:132, 47:183)
  et (38:12, 38:69, 39:46, 40:12, 40:59, 41:64, 42:13, 42:63, 43:11, 44:11, 44:68, 44:118, 45:13, 45:64, 46:62, 46:107, 47:76, 47:129, 47:180)
  macroevolutionary (37:25)
  phylogenetic (37:55)

CRAN repository db overrides:
  X-CRAN-Comment: Archived on 2024-11-24 as issues were not corrected
    in time.
* 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 'RPANDA' can be installed ... OK
* used C compiler: 'gcc.exe (GCC) 13.3.0'
* 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 ... [12s] OK
* checking whether the package can be loaded with stated dependencies ... [13s] OK
* checking whether the package can be unloaded cleanly ... [12s] OK
* checking whether the namespace can be loaded with stated dependencies ... [11s] OK
* checking whether the namespace can be unloaded cleanly ... [13s] OK
* checking loading without being on the library search path ... [12s] 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 ... [126s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  CreateClassObject.Rd: make.simmap
  CreateGeoObject.Rd: make.simmap
  CreateGeobyClassObject.Rd: make.simmap
  GIC.Rd: mvgls
  ancestral.Rd: GIC
  fit_t_comp.Rd: make.simmap
  fit_t_comp_subgroup.Rd: make.simmap, spg
  fit_t_pl.Rd: mvgls
  fit_t_standard.Rd: make.simmap
  sim_t_tworegime.Rd: make.simmap
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 ... [12s] 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 examples ... [88s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [13s] OK
  Running 'test-all.R' [13s]
* checking PDF version of manual ... [28s] OK
* checking HTML version of manual ... [28s] OK
* DONE
Status: 2 NOTEs