• using R Under development (unstable) (2026-08-11 r90393)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-16 (Debian 16.1.0-3) 16.1.0     GNU Fortran (Debian 16.1.0-3) 16.1.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-08-12 15:07:06 UTC
• checking for file ‘geiger/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘geiger’ version ‘2.0.11’
• checking CRAN incoming feasibility ... [1s/2s] NOTE Maintainer: ‘Luke Harmon <lukeh@uidaho.edu>’ No Authors@R field in DESCRIPTION. Please add one, modifying   Authors@R: c(person(given = "Luke",                       family = "Harmon",                       role = c("aut", "cre"),                       email = "lukeh@uidaho.edu"),                person(given = "Matthew",                       family = "Pennell",                       role = "aut"),                person(given = "Chad",                       family = "Brock",                       role = "aut"),                person(given = "Joseph",                       family = "Brown",                       role = "aut"),                person(given = "Wendell",                       family = "Challenger",                       role = "aut"),                person(given = "Jon",                       family = "Eastman",                       role = "aut"),                person(given = "Rich",                       family = "FitzJohn",                       role = "aut"),                person(given = "Rich",                       family = "Glor",                       role = "aut"),                person(given = "Gene",                       family = "Hunt",                       role = "aut"),                person(given = "Liam",                       family = "Revell",                       role = "aut"),                person(given = "Graham",                       family = "Slater",                       role = "aut"),                person(given = "Josef",                       family = "Uyeda",                       role = "aut"),                person(given = "Jason",                       family = "Weir",                       role = "aut"),                person(given = "CRAN",                       family = "team",                       role = "aut",                       comment = "corrections in 2022")) as necessary.
• 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 executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking serialization versions ... OK
• checking whether package ‘geiger’ can be installed ... OK See the install log for details.
• used C compiler: ‘gcc-16 (Debian 16.1.0-3) 16.1.0’
• used C++ compiler: ‘g++-16 (Debian 16.1.0-3) 16.1.0’
• 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 ... [2s/3s] OK
• checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the package can be unloaded cleanly ... [2s/3s] OK
• checking whether the namespace can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the namespace can be unloaded cleanly ... [2s/3s] OK
• checking loading without being on the library search path ... [2s/3s] 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 ... [37s/46s] OK
• checking Rd files ... [1s/1s] NOTE checkRd: (-1) bd.ms.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) bd.ms.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) bd.ms.Rd:49-50: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) bd.ms.Rd:51-52: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dtt.Rd:30: Lost braces in \itemize; meant \describe ? checkRd: (-1) dtt.Rd:31: Lost braces in \itemize; meant \describe ? checkRd: (-1) dtt.Rd:32-33: Lost braces in \itemize; meant \describe ? checkRd: (-1) dtt.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dtt.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dtt.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dtt.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) fitContinuous.Rd:49-51: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:52-54: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:55-57: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:58: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:59-61: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:62-64: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:65-67: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:68: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitContinuous.Rd:69-70: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:40: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:42: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:43-44: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:54: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:55-57: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:58-60: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:61-63: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:64-66: Lost braces in \itemize; meant \describe ? checkRd: (-1) fitDiscrete.Rd:67: Lost braces in \itemize; meant \describe ?
• 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 ... INFO Exported functions without usage information:   PATHd8.phylo argn argn<- bf bm.lik cherries dlunif dtpois   edgelabels.auteur edges.phylo ess ex.jumpsimulator ex.ratesimulator   ex.traitgram exemplar.phylo hash.node hashes.phylo hashes.rjmcmc hdr   heights hme is.constrained is.extinct is.phylo is.root   make.bm.relaxed mkn.lik sem sim.mecca span.phylo uniqueMultiPhylo   white.mkn write.pathd8 write.r8s write.treePL
• 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 ... [0s/0s] 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 examples ... [2s/3s] OK
• checking PDF version of manual ... [5s/7s] OK
• checking HTML version of manual ... [2s/2s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 NOTEs