* using log directory ‘/srv/hornik/tmp/CRAN/debar.Rcheck’ * using R Under development (unstable) (2024-01-10 r85799) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 17.0.6 (3) Debian flang-new version 17.0.6 (3) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘debar/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘debar’ version ‘0.1.1’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [3s/4s] NOTE Maintainer: ‘Cameron M. Nugent ’ New submission Package was archived on CRAN Possibly misspelled words in DESCRIPTION: Barcode (3:46) COI (3:39, 8:79, 14:27) Denoiser (3:26) Durbin (11:73) PHMM (11:12, 13:72) Viterbi (11:28) al (11:83) barcode (8:40, 14:31) cytochrome (8:55) denoising (7:71) et (11:80) indel (15:53) CRAN repository db overrides: X-CRAN-Comment: Archived on 2023-08-19 as email to the maintainer is undeliverable. The Title field should be in title case. Current version is: ‘A Post-Clustering Denoiser for COI-5P Barcode Data’ In title case that is: ‘A Post-Clustering Denoiser for COI-5p Barcode Data’ * 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 ‘debar’ can be installed ... [1s/1s] 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 R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [0s/0s] OK * checking whether the package can be loaded with stated dependencies ... [0s/0s] OK * checking whether the package can be unloaded cleanly ... [0s/0s] OK * checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK * checking whether the namespace can be unloaded cleanly ... [0s/0s] OK * checking loading without being on the library search path ... [0s/0s] 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 ... [3s/3s] OK * checking Rd files ... [0s/0s] NOTE checkRd: (-1) aa_check.Rd:26: Lost braces 26 | a class object of code{"ccs_reads"} | ^ checkRd: (-1) adjust.Rd:23: Lost braces 23 | a class object of code{"ccs_reads"} | ^ checkRd: (-1) denoise.Rd:87: Lost braces 87 | a class object of code{"DNAseq"} | ^ checkRd: (-1) frame.Rd:37: Lost braces 37 | a class object of code{"DNAseq"} | ^ checkRd: (-1) outseq.Rd:29: Lost braces 29 | a class object of code{"ccs_reads"} | ^ checkRd: (-1) write_fasta.Rd:24: Lost braces 24 | a class object of code{"DNAseq"} | ^ checkRd: (-1) write_fastq.Rd:28: Lost braces 28 | a class object of code{"DNAseq"} | ^ checkRd: (-1) write_wrapper.Rd:31: Lost braces 31 | a class object of code{"DNAseq"} | ^ * 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 R/sysdata.rda ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [11s/11s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [30s/30s] OK Running ‘testthat.R’ [29s/29s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [6s/6s] OK * checking PDF version of manual ... [3s/3s] OK * checking HTML version of manual ... [1s/1s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 2 NOTEs