* using log directory 'd:/Rcompile/CRANpkg/local/4.4/DMRnet.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 'DMRnet/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'DMRnet' version '0.4.0' * 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 'DMRnet' 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 ... 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] OK * checking whether the package can be loaded with stated dependencies ... [0s] OK * checking whether the package can be unloaded cleanly ... [0s] OK * checking whether the namespace can be loaded with stated dependencies ... [0s] OK * checking whether the namespace can be unloaded cleanly ... [0s] OK * checking loading without being on the library search path ... [0s] OK * checking whether startup messages can be suppressed ... [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 ... [9s] OK * checking Rd files ... [1s] NOTE checkRd: (-1) promoter.Rd:76: Lost braces; missing escapes or markup? 76 | It consists of E. coli promoter gene sequences starting at position -50 (p-50) and ending at position +7 (p7). Each of these 57 Fields is filled by one of {a, g, t, c}. The task is to recognize promoters, which are genetic regions which initiate the first step in the expression of adjacent genes (transcription). There are 53 promoters and 53 non-promoter sequences. | ^ checkRd: (-1) promoter.Rd:11: Lost braces; missing escapes or markup? 11 | \item{X1}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:12: Lost braces; missing escapes or markup? 12 | \item{X2}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:13: Lost braces; missing escapes or markup? 13 | \item{X3}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:14: Lost braces; missing escapes or markup? 14 | \item{X4}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:15: Lost braces; missing escapes or markup? 15 | \item{X5}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:16: Lost braces; missing escapes or markup? 16 | \item{X6}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:17: Lost braces; missing escapes or markup? 17 | \item{X7}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:18: Lost braces; missing escapes or markup? 18 | \item{X8}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:19: Lost braces; missing escapes or markup? 19 | \item{X9}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:20: Lost braces; missing escapes or markup? 20 | \item{X10}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:21: Lost braces; missing escapes or markup? 21 | \item{X11}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:22: Lost braces; missing escapes or markup? 22 | \item{X12}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:23: Lost braces; missing escapes or markup? 23 | \item{X13}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:24: Lost braces; missing escapes or markup? 24 | \item{X14}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:25: Lost braces; missing escapes or markup? 25 | \item{X15}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:26: Lost braces; missing escapes or markup? 26 | \item{X16}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:27: Lost braces; missing escapes or markup? 27 | \item{X17}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:28: Lost braces; missing escapes or markup? 28 | \item{X18}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:29: Lost braces; missing escapes or markup? 29 | \item{X19}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:30: Lost braces; missing escapes or markup? 30 | \item{X20}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:31: Lost braces; missing escapes or markup? 31 | \item{X21}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:32: Lost braces; missing escapes or markup? 32 | \item{X22}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:33: Lost braces; missing escapes or markup? 33 | \item{X23}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:34: Lost braces; missing escapes or markup? 34 | \item{X24}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:35: Lost braces; missing escapes or markup? 35 | \item{X25}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:36: Lost braces; missing escapes or markup? 36 | \item{X26}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:37: Lost braces; missing escapes or markup? 37 | \item{X27}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:38: Lost braces; missing escapes or markup? 38 | \item{X28}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:39: Lost braces; missing escapes or markup? 39 | \item{X29}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:40: Lost braces; missing escapes or markup? 40 | \item{X30}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:41: Lost braces; missing escapes or markup? 41 | \item{X31}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:42: Lost braces; missing escapes or markup? 42 | \item{X32}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:43: Lost braces; missing escapes or markup? 43 | \item{X33}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:44: Lost braces; missing escapes or markup? 44 | \item{X34}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:45: Lost braces; missing escapes or markup? 45 | \item{X35}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:46: Lost braces; missing escapes or markup? 46 | \item{X36}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:47: Lost braces; missing escapes or markup? 47 | \item{X37}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:48: Lost braces; missing escapes or markup? 48 | \item{X38}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:49: Lost braces; missing escapes or markup? 49 | \item{X39}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:50: Lost braces; missing escapes or markup? 50 | \item{X40}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:51: Lost braces; missing escapes or markup? 51 | \item{X41}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:52: Lost braces; missing escapes or markup? 52 | \item{X42}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:53: Lost braces; missing escapes or markup? 53 | \item{X43}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:54: Lost braces; missing escapes or markup? 54 | \item{X44}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:55: Lost braces; missing escapes or markup? 55 | \item{X45}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:56: Lost braces; missing escapes or markup? 56 | \item{X46}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:57: Lost braces; missing escapes or markup? 57 | \item{X47}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:58: Lost braces; missing escapes or markup? 58 | \item{X48}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:59: Lost braces; missing escapes or markup? 59 | \item{X49}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:60: Lost braces; missing escapes or markup? 60 | \item{X50}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:61: Lost braces; missing escapes or markup? 61 | \item{X51}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:62: Lost braces; missing escapes or markup? 62 | \item{X52}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:63: Lost braces; missing escapes or markup? 63 | \item{X53}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:64: Lost braces; missing escapes or markup? 64 | \item{X54}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:65: Lost braces; missing escapes or markup? 65 | \item{X55}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:66: Lost braces; missing escapes or markup? 66 | \item{X56}{Sequence; filled by one of {a, g, t, c}.} | ^ checkRd: (-1) promoter.Rd:67: Lost braces; missing escapes or markup? 67 | \item{X57}{Sequence; filled by one of {a, g, t, c}.}} | ^ * 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 contents of 'data' directory ... OK * checking data for non-ASCII characters ... [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 ... [21s] OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [0s] OK * checking PDF version of manual ... [21s] OK * checking HTML version of manual ... [4s] OK * DONE Status: 1 NOTE