CRAN Package Check Results for Maintainer ‘Michael P. Fay <mfay at niaid.nih.gov>’

Last updated on 2025-04-12 20:52:21 CEST.

Package	NOTE	OK
asht	11	3
binseqtest		14
bpcp		14
choplump		14
csci		14
exact2x2	4	10
exactci	4	10
hbim	11	3
interval	11	3
MChtest	14
nivm	4	11
oceCens		15
perm		15
rateratio.test		15
saws		15
ssanv		15

Package asht

Current CRAN status: NOTE: 11, OK: 3

Version: 1.0.1
Check: Rd files
Result: 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. | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-arm64, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

Version: 1.0.1
Check: Rd cross-references
Result: 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. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Package binseqtest

Current CRAN status: OK: 14

Package bpcp

Current CRAN status: OK: 14

Package choplump

Current CRAN status: OK: 14

Package csci

Current CRAN status: OK: 14

Package exact2x2

Current CRAN status: NOTE: 4, OK: 10

Version: 1.6.9
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: power2x2.Rd: uniroot.integer, ss.nonadh unirootGrid.Rd: uniroot.integer Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Package exactci

Current CRAN status: NOTE: 4, OK: 10

Version: 1.4-4
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: powerBinom.Rd: uniroot.integer Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Package hbim

Current CRAN status: NOTE: 11, OK: 3

Version: 1.1.2
Check: Rd files
Result: NOTE checkRd: (-1) deff.sigma.Rd:28: Lost braces in \itemize; meant \describe ? checkRd: (-1) deff.sigma.Rd:29: Lost braces in \itemize; meant \describe ? checkRd: (-1) deff.sigma.Rd:30: Lost braces in \itemize; meant \describe ? checkRd: (-1) deff.sigma.Rd:31: Lost braces in \itemize; meant \describe ? checkRd: (-1) deff.sigma.Rd:32: Lost braces in \itemize; meant \describe ? checkRd: (-1) deff.sigma.Rd:33: Lost braces in \itemize; meant \describe ? checkRd: (-1) deff.sigma.Rd:34: Lost braces in \itemize; meant \describe ? checkRd: (-1) deff.sigma.Rd:35: Lost braces in \itemize; meant \describe ? Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-arm64, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

Package interval

Current CRAN status: NOTE: 11, OK: 3

Version: 1.1-1.0
Check: Rd files
Result: NOTE checkRd: (-1) interval-internal.Rd:40: Lost braces 40 | \item{dqfunc}{function, density of the results of the quantile function, e.g., function(x){dnorm(qnorm(x))} (used for 'general' scores, | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-arm64, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

Package MChtest

Current CRAN status: NOTE: 14

Version: 1.0-3
Check: Rd files
Result: NOTE checkRd: (-1) MCbound.precalc1.Rd:16: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:17: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:18: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:19: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:20: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:21: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:22: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:23: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:24: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCbound.precalc1.Rd:27: Lost braces in \itemize; meant \describe ? checkRd: (-1) MCtest.Rd:39: Escaped LaTeX specials: \# checkRd: (-1) MCtest.Rd:40: Escaped LaTeX specials: \# Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-arm64, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

Version: 1.0-3
Check: Rd files
Result: NOTE checkRd: (-1) MCtest.Rd:39: Escaped LaTeX specials: \# checkRd: (-1) MCtest.Rd:40: Escaped LaTeX specials: \# Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package nivm

Current CRAN status: NOTE: 4, OK: 11

Version: 0.5
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: nicqControl.Rd: bpcp, quantile.kmciLR nicqTest.Rd: bpcp, quantile.kmciLR powerNicqTest.Rd: uniroot.integer Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Package oceCens

Current CRAN status: OK: 15

Package perm

Current CRAN status: OK: 15

Package rateratio.test

Current CRAN status: OK: 15

Package saws

Current CRAN status: OK: 15

Package ssanv

Current CRAN status: OK: 15