* using log directory 'd:/Rcompile/CRANpkg/local/4.4/tsdf.Rcheck' * using R version 4.4.0 RC (2024-04-16 r86468 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'tsdf/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'tsdf' version '1.1-8' * package encoding: UTF-8 * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'tsdf' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... 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[1s] NOTE checkRd: (-1) dec.sim.Rd:33: Lost braces; missing escapes or markup? 33 | Assume there are $d$ dose levels to be studied. Denote the cumulative number of patients treated and cumulative number of DLTs at the current dose level are $n_i$ and $m_i$, respectively. $n_{max}$ is the maximum number of patients permitted to be treated at each dose level. The procedure is as follows | ^ checkRd: (-1) dec.sim.Rd:35: Lost braces in \itemize; meant \describe ? checkRd: (-1) dec.sim.Rd:36: Lost braces in \itemize; meant \describe ? checkRd: (-1) dec.sim.Rd:36: Lost braces; missing escapes or markup? 36 | \item{Step 2 : }{If $n_i = n_{max}$, declare dose i as the MTD; otherwise, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1.} | ^ checkRd: (-1) dec.sim.Rd:37: Lost braces in \itemize; meant \describe ? checkRd: (-1) dec.sim.Rd:37: Lost braces; missing escapes or markup? 37 | \item{Step 3 : }{If the current dose level is the highest dose level, then: if n_i < n_max, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the current dose is not the lowest dose, then: if $n_{i-1} < n_{max}$, update $m_{i-1}$ and $n_{i-1}$ with additional cohort of patients and set the current dose level to be the next lower dose level, and go to Step 1; otherwise, stop the trial and declare the next lower dose level is the MTD; Additionally, if the decision is ``DU'', record this dose level as DU and never treat additional patients at the current dose level again.} | ^ checkRd: (-1) dec.sim.Rd:37: Lost braces; missing escapes or markup? 37 | \item{Step 3 : }{If the current dose level is the highest dose level, then: if n_i < n_max, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the current dose is not the lowest dose, then: if $n_{i-1} < n_{max}$, update $m_{i-1}$ and $n_{i-1}$ with additional cohort of patients and set the current dose level to be the next lower dose level, and go to Step 1; otherwise, stop the trial and declare the next lower dose level is the MTD; Additionally, if the decision is ``DU'', record this dose level as DU and never treat additional patients at the current dose level again.} | ^ checkRd: (-1) dec.sim.Rd:37: Lost braces; missing escapes or markup? 37 | \item{Step 3 : }{If the current dose level is the highest dose level, then: if n_i < n_max, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the current dose is not the lowest dose, then: if $n_{i-1} < n_{max}$, update $m_{i-1}$ and $n_{i-1}$ with additional cohort of patients and set the current dose level to be the next lower dose level, and go to Step 1; otherwise, stop the trial and declare the next lower dose level is the MTD; Additionally, if the decision is ``DU'', record this dose level as DU and never treat additional patients at the current dose level again.} | ^ checkRd: (-1) dec.sim.Rd:37: Lost braces; missing escapes or markup? 37 | \item{Step 3 : }{If the current dose level is the highest dose level, then: if n_i < n_max, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the current dose is not the lowest dose, then: if $n_{i-1} < n_{max}$, update $m_{i-1}$ and $n_{i-1}$ with additional cohort of patients and set the current dose level to be the next lower dose level, and go to Step 1; otherwise, stop the trial and declare the next lower dose level is the MTD; Additionally, if the decision is ``DU'', record this dose level as DU and never treat additional patients at the current dose level again.} | ^ checkRd: (-1) dec.sim.Rd:38: Lost braces in \itemize; meant \describe ? checkRd: (-1) dec.sim.Rd:38: Lost braces; missing escapes or markup? 38 | \item{Step 4 : }{If the current dose level is the highest dose level, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the next higher dose level is of status DU, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to step 1; otherwise stop, the current dose level is MTD; Otherwise: if $n_{i+1} < n_{max}$, update $m_{i+1}$ and $n_{i+1}$ with additional cohort of patients, set the current dose level to be next higher dose level, and go to step 1; else, the current dose level is the MTD. } | ^ checkRd: (-1) dec.sim.Rd:38: Lost braces; missing escapes or markup? 38 | \item{Step 4 : }{If the current dose level is the highest dose level, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the next higher dose level is of status DU, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to step 1; otherwise stop, the current dose level is MTD; Otherwise: if $n_{i+1} < n_{max}$, update $m_{i+1}$ and $n_{i+1}$ with additional cohort of patients, set the current dose level to be next higher dose level, and go to step 1; else, the current dose level is the MTD. } | ^ checkRd: (-1) dec.sim.Rd:38: Lost braces; missing escapes or markup? 38 | \item{Step 4 : }{If the current dose level is the highest dose level, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the next higher dose level is of status DU, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to step 1; otherwise stop, the current dose level is MTD; Otherwise: if $n_{i+1} < n_{max}$, update $m_{i+1}$ and $n_{i+1}$ with additional cohort of patients, set the current dose level to be next higher dose level, and go to step 1; else, the current dose level is the MTD. } | ^ checkRd: (-1) dec.sim.Rd:38: Lost braces; missing escapes or markup? 38 | \item{Step 4 : }{If the current dose level is the highest dose level, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the next higher dose level is of status DU, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to step 1; otherwise stop, the current dose level is MTD; Otherwise: if $n_{i+1} < n_{max}$, update $m_{i+1}$ and $n_{i+1}$ with additional cohort of patients, set the current dose level to be next higher dose level, and go to step 1; else, the current dose level is the MTD. } | ^ checkRd: (-1) dec.sim.Rd:38: Lost braces; missing escapes or markup? 38 | \item{Step 4 : }{If the current dose level is the highest dose level, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the next higher dose level is of status DU, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to step 1; otherwise stop, the current dose level is MTD; Otherwise: if $n_{i+1} < n_{max}$, update $m_{i+1}$ and $n_{i+1}$ with additional cohort of patients, set the current dose level to be next higher dose level, and go to step 1; else, the current dose level is the MTD. } | ^ checkRd: (-1) dec.sim.Rd:38: Lost braces; missing escapes or markup? 38 | \item{Step 4 : }{If the current dose level is the highest dose level, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to Step 1; otherwise, stop the trial and declare that the MTD is higher than the highest dose level (inconclusive); If the next higher dose level is of status DU, then: if $n_i < n_{max}$, update $m_i$ and $n_i$ with additional cohort of patients and go to step 1; otherwise stop, the current dose level is MTD; Otherwise: if $n_{i+1} < n_{max}$, update $m_{i+1}$ and $n_{i+1}$ with additional cohort of patients, set the current dose level to be next higher dose level, and go to step 1; else, the current dose level is the MTD. } | ^ * checking Rd metadata ... 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 LazyData ... NOTE 'LazyData' is specified without a 'data' directory * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... [4s] OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [1s] OK * checking PDF version of manual ... [22s] OK * checking HTML version of manual ... [2s] OK * DONE Status: 2 NOTEs