• using R Under development (unstable) (2024-11-20 r87352)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 19.1.3 (2)     Debian flang-new version 19.1.3 (2)
• running under: Debian GNU/Linux trixie/sid
• 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 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 ‘DMRnet’ can be installed ... OK See the install log for details.
• 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 ... [0s/1s] OK
• checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the package can be unloaded cleanly ... [0s/0s] OK
• checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
• checking loading without being on the library search path ... [0s/1s] OK
• checking whether startup messages can be suppressed ... [0s/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 ... [15s/20s] OK
• checking Rd files ... [1s/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 line widths ... 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/1s] 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/26s] OK Examples with CPU (user + system) or elapsed time > 5s         user system elapsed DMRnet 4.766 0.1 5.481
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [0s/1s] OK
• checking PDF version of manual ... [5s/8s] OK
• checking HTML version of manual ... [1s/2s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 NOTE