* using log directory ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/asht.Rcheck’
* using R Under development (unstable) (2025-02-25 r87824)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-14 (Debian 14.2.0-16) 14.2.0
    GNU Fortran (Debian 14.2.0-16) 14.2.0
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘asht/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘asht’ version ‘1.0.1’
* 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 ‘asht’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-gcc/asht-00install.html' 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 ... [2s/3s] OK
* checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
* checking whether the package can be unloaded cleanly ... [3s/3s] OK
* checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the namespace can be unloaded cleanly ... [2s/2s] 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 ... [16s/20s] OK
* checking Rd files ... [0s/0s] NOTE
checkRd: (-1) signTest.Rd:29: Lost braces
    29 | code{stat="ud"} gives 0, and \code{stat="cpp"} gives 0.5).
       |     ^
checkRd: (-1) simulateSS.Rd:46: Lost braces; missing escapes or markup?
    46 | and the total number of batches, $b_{tot}$.
       |                                     ^
checkRd: (-1) simulateSS.Rd:48: Lost braces; missing escapes or markup?
    48 | Then we use a normal approximation to estimate the target sample size, say $N_{norm}$. In step 2, we replicate $m$ data sets with sample size $N_2 = N_{norm}$
       |                                                                               ^
checkRd: (-1) simulateSS.Rd:48: Lost braces; missing escapes or markup?
    48 | Then we use a normal approximation to estimate the target sample size, say $N_{norm}$. In step 2, we replicate $m$ data sets with sample size $N_2 = N_{norm}$
       |                                                                                                                                                        ^
checkRd: (-1) simulateSS.Rd:49: Lost braces; missing escapes or markup?
    49 | to get the associated proportion of rejections, say $P_2$. We repeat 2 more batches with $N_3=N_{norm}/2$ and $N_4=2 N_{norm}$,
       |                                                                                                 ^
checkRd: (-1) simulateSS.Rd:49: Lost braces; missing escapes or markup?
    49 | to get the associated proportion of rejections, say $P_2$. We repeat 2 more batches with $N_3=N_{norm}/2$ and $N_4=2 N_{norm}$,
       |                                                                                                                        ^
checkRd: (-1) simulateSS.Rd:51: Lost braces; missing escapes or markup?
    51 | the sample size at the target power, $N_{target}$. We use that estimate of $N_{target}$ for our sample size for the next
       |                                         ^
checkRd: (-1) simulateSS.Rd:51: Lost braces; missing escapes or markup?
    51 | the sample size at the target power, $N_{target}$. We use that estimate of $N_{target}$ for our sample size for the next
       |                                                                               ^
checkRd: (-1) simulateSS.Rd:53: Lost braces; missing escapes or markup?
    53 | Wu (1985, see Section 3).   Step 4 is iterative, for the $i$th batch we repeat the isotonic regression, except now with $N_i$ estimated from the  first $(i-1)$ observation pairs.  We repeat step 4 until either the number of batches is $b_{tot}$,
       |                                                                                                                                                                                                                                               ^
checkRd: (-1) simulateSS.Rd:56: Lost braces; missing escapes or markup?
    56 | current sample size estimate, otherwise add 1. Continue with that up-and-down-like method until we reach the number of batches equal to $b_{tot}$. The up-and-down-like method was added because sometimes the algorithm would get stuck in too large of a sample size estimate.
       |                                                                                                                                            ^
* 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:
  meldCD.Rd: binomMeld.test
  signTest.Rd: mcnemarExactDP, binom.exact
  wmwTest.Rd: wilcox_test
  wsrTest.Rd: wilcoxsign_test
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 data for ASCII and uncompressed saves ... OK
* checking examples ... [5s/6s] OK
* checking PDF version of manual ... [5s/6s] OK
* checking HTML version of manual ... [1s/2s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 2 NOTEs