* using log directory ‘/srv/hornik/tmp/CRAN/curesurv.Rcheck’ * using R Under development (unstable) (2024-06-18 r86781) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 18.1.5 (2) Debian flang-new version 18.1.5 (2) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘curesurv/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘curesurv’ version ‘0.1.1’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [4s/5s] NOTE Maintainer: ‘Juste Goungounga ’ New submission License components with restrictions and base license permitting such: GPL (>= 3) + file LICENSE File 'LICENSE': YEAR: 2022 COPYRIGHT HOLDER: curesurv authors Possibly misspelled words in DESCRIPTION: Boussari (15:322) al (15:135, 15:334) et (15:132, 15:331) variaty (15:21) 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. Found the following (possibly) invalid URLs: URL: https://www.jstatsoft.org/article/view/v003i01/beta.der.pdf (moved to https://www.jstatsoft.org/htaccess.php?volume=003&type=i&issue=01&filename=paper) From: man/inc.beta.deriv.Rd Status: 301 Message: Moved Permanently For content that is 'Moved Permanently', please change http to https, add trailing slashes, or replace the old by the new URL. Found the following (possibly) invalid file URIs: URI: www.jstor.org/stable/1269735 From: man/cumLexc_alphaeweibull.Rd URI: www.jstor.org/stable/1269735 From: man/lexc_alphaeweibull.Rd URI: www.jstor.org/stable/1269735 From: man/lexc_alphaweibull.Rd * 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 whether package ‘curesurv’ can be installed ... [14s/14s] 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 code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [1s/1s] OK * checking whether the package can be loaded with stated dependencies ... [1s/1s] OK * checking whether the package can be unloaded cleanly ... [1s/1s] OK * checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK * checking whether the namespace can be unloaded cleanly ... [1s/1s] OK * checking loading without being on the library search path ... [1s/1s] 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 ... [33s/33s] OK * checking Rd files ... [0s/0s] NOTE checkRd: (-1) inc.beta.deriv.Rd:63: Lost braces; missing escapes or markup? 63 | differentiating the aproximants of I_{x,p,q} formula in terms of forward | ^ checkRd: (-1) inc.beta.deriv.Rd:64: Lost braces; missing escapes or markup? 64 | recurrence relations where the the n^{th} approximant can be expressed as : | ^ checkRd: (-1) inc.beta.deriv.Rd:37: Lost braces; missing escapes or markup? 37 | \item{I }{I_{x,p,q}. This equal to the output of | ^ checkRd: (-1) inc.beta.deriv.Rd:39: Lost braces; missing escapes or markup? 39 | \item{I_p }{I_{x,p,q}^{p} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:39: Lost braces; missing escapes or markup? 39 | \item{I_p }{I_{x,p,q}^{p} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:41: Lost braces; missing escapes or markup? 41 | \item{I_{pp}}{I_{x,p,q}^{pp} denotes the second derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:41: Lost braces; missing escapes or markup? 41 | \item{I_{pp}}{I_{x,p,q}^{pp} denotes the second derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:41: Lost braces; missing escapes or markup? 41 | \item{I_{pp}}{I_{x,p,q}^{pp} denotes the second derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:43: Lost braces; missing escapes or markup? 43 | \item{I_{q}}{I_{x,p,q}^{q} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:43: Lost braces; missing escapes or markup? 43 | \item{I_{q}}{I_{x,p,q}^{q} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:43: Lost braces; missing escapes or markup? 43 | \item{I_{q}}{I_{x,p,q}^{q} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:45: Lost braces; missing escapes or markup? 45 | \item{I_{qq}}{I_{x,p,q}^{qq} denotes the second derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:45: Lost braces; missing escapes or markup? 45 | \item{I_{qq}}{I_{x,p,q}^{qq} denotes the second derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:45: Lost braces; missing escapes or markup? 45 | \item{I_{qq}}{I_{x,p,q}^{qq} denotes the second derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:47: Lost braces; missing escapes or markup? 47 | \item{I_{pq}}{I_{x,p,q}^{pq} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:47: Lost braces; missing escapes or markup? 47 | \item{I_{pq}}{I_{x,p,q}^{pq} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:47: Lost braces; missing escapes or markup? 47 | \item{I_{pq}}{I_{x,p,q}^{pq} denotes the first derivative of the incomplete | ^ checkRd: (-1) inc.beta.deriv.Rd:54: Lost braces; missing escapes or markup? 54 | \item{digamma.pq}{ psi_{p+q}} | ^ checkRd: (-1) inc.beta.deriv.Rd:55: Lost braces; missing escapes or markup? 55 | \item{trigamma.pq}{ psi_{p+q}^'} | ^ * 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: curesurv.Rd: Surv 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 ... [0s/0s] OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [6s/6s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [1s/1s] OK Running ‘testthat.R’ [1s/1s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [1s/1s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘Vignette_tneh.Rmd’ using rmarkdown Error: processing vignette 'Vignette_tneh.Rmd' failed with diagnostics: there is no package called ‘bookdown’ --- failed re-building ‘Vignette_tneh.Rmd’ --- re-building ‘vignette_mixture.Rmd’ using rmarkdown Error: processing vignette 'vignette_mixture.Rmd' failed with diagnostics: there is no package called ‘bookdown’ --- failed re-building ‘vignette_mixture.Rmd’ SUMMARY: processing the following files failed: ‘Vignette_tneh.Rmd’ ‘vignette_mixture.Rmd’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [6s/6s] WARNING LaTeX errors when creating PDF version. This typically indicates Rd problems. LaTeX errors found: ! Missing { inserted. \mathop l.368 ... (t) ^{\gamma}\}) ^ \exp(\{\delta Z\})}{} . ! Missing } inserted. } l.368 ... (t) ^{\gamma}\}) ^ \exp(\{\delta Z\})}{} . ! Missing $ inserted. $ l.371 ...beta) + (1 - \pi(z;\beta)) * S_{u}(t)}}{} . ! Text line contains an invalid character. l.573 ^^? A funny symbol that I can't read has just been input. Continue, and I'll forget that it ever happened. ! Undefined control sequence. frac{d ln(\Tau (x))}{dx} = \frac {\Tau ^'(x)}{\Tau (x)} l.871 ...u(x))}{dx} = \frac{\Tau^'(x)}{\Tau(x)}}{} . ! Undefined control sequence. \Tau ^'(x) l.871 ...u(x))}{dx} = \frac{\Tau^'(x)}{\Tau(x)}}{} . ! Missing { inserted. ^ l.871 ...u(x))}{dx} = \frac{\Tau^'(x)}{\Tau(x)}}{} . ! Missing } inserted. } l.871 ...u(x))}{dx} = \frac{\Tau^'(x)}{\Tau(x)}}{} . ! Undefined control sequence. \Tau (x) l.871 ...u(x))}{dx} = \frac{\Tau^'(x)}{\Tau(x)}}{} . ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ! LaTeX Error: Unicode character ≥ (U+2265) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. * checking PDF version of manual without index ... ERROR * checking HTML version of manual ... [2s/2s] NOTE Found the following math rendering problems: curesurv.Rd:203: Got function '\exp' with no arguments as superscript in ...^{\gamma}\}) ^ \exp(\{\delta Z\}) curesurv.Rd:206: Undefined control sequence: \eqn in \eqn{S_{E}(t) = \pi... digamma.Rd:17: Expected group after '^' in ...x} = \frac{\Tau^'(x)}{\Tau(x)} * checking for non-standard things in the check directory ... NOTE Found the following files/directories: ‘curesurv-manual.tex’ * checking for detritus in the temp directory ... OK * DONE Status: 2 ERRORs, 1 WARNING, 5 NOTEs