- using R Under development (unstable) (2025-07-10 r88399)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
gcc-14 (Debian 14.2.0-19) 14.2.0
GNU Fortran (Debian 14.2.0-19) 14.2.0
- running under: Debian GNU/Linux 13 (trixie)
- using session charset: UTF-8
- checking for file ‘preseqR/DESCRIPTION’ ... OK
- checking extension type ... Package
- this is package ‘preseqR’ version ‘4.0.0’
- checking CRAN incoming feasibility ... [1s/1s] NOTE
Maintainer: ‘Chao Deng <chaodeng@usc.edu>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Chao",
family = "Deng",
role = c("aut", "cre"),
email = "chaodeng@usc.edu"),
person(given = "Timothy",
family = "Daley",
role = "aut"),
person(given = c("Andrew", "D."),
family = "Smith",
role = "aut"))
as necessary.
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.
The Description field contains
Deng C, et al. (2018) <arXiv:1607.02804v3>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Found the following \keyword or \concept entries
which likely give several index terms:
File ‘bbc.rSAC.Rd’:
\keyword{ estimator, r-SAC, nonparametric }
File ‘cs.rSAC.Rd’:
\keyword{ estimator, r-SAC, nonparametric }
File ‘ds.rSAC.Rd’:
\keyword{ estimator, r-SAC, RFA, nonparametric}
File ‘ds.rSAC.bootsrap.Rd’:
\keyword{ estimator, r-SAC, RFA, bootstrap, nonpar [TRUNCATED]
File ‘fisher.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric }
File ‘kmer.frac.curve.Rd’:
\keyword{k-mer, sample coverage, high-throughput, [TRUNCATED]
File ‘kmer.frac.curve.bootstrap.Rd’:
\keyword{k-mer, sample coverage, bootstrap, high-t [TRUNCATED]
File ‘preseqR.interpolate.rSAC.Rd’:
\keyword{ interpolation, r-SAC}
File ‘preseqR.optimal.sequencing.Rd’:
\keyword{WGS, high-throughput, benefit-cost ratio} [TRUNCATED]
File ‘preseqR.rSAC.Rd’:
\keyword{ estimator, r-SAC, RFA, ZTNB, best practi [TRUNCATED]
File ‘preseqR.rSAC.bootstrap.Rd’:
\keyword{ estimator, r-SAC, bootstrap, best practi [TRUNCATED]
File ‘preseqR.rSAC.sequencing.rmdup.Rd’:
\keyword{r-SAC, duplicates, WES, WGS, high-through [TRUNCATED]
File ‘preseqR.sample.cov.Rd’:
\keyword{ estimator, RFA, sample coverage}
File ‘preseqR.sample.cov.bootstrap.Rd’:
\keyword{ estimator, RFA, bootstrap, sample covera [TRUNCATED]
File ‘preseqR.simu.hist.Rd’:
\keyword{ simulation, sampling, mixture of Poisson [TRUNCATED]
File ‘preseqR.ztnb.em.Rd’:
\keyword{ negative binomial, EM}
File ‘ztnb.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, negative b [TRUNCATED]
File ‘ztp.rSAC.Rd’:
\keyword{ estimator, r-SAC, parametric, Poisson}
- 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 ‘preseqR’ can be installed ... OK
See the install log for details.
- 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 ... [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 ... [5s/6s] OK
- checking Rd files ... [0s/0s] 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 ... [0s/0s] OK
- checking data for ASCII and uncompressed saves ... OK
- checking examples ... [1s/1s] OK
- checking PDF version of manual ... [4s/5s] OK
- checking HTML version of manual ... [1s/2s] OK
- checking for non-standard things in the check directory ... OK
- DONE
Status: 1 NOTE