- using R version 4.5.0 beta (2025-03-29 r88074)
- using platform: x86_64-apple-darwin20
- R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
- running under: macOS Ventura 13.3.1
- 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 whether package ‘DMRnet’ can be installed ... [4s/5s] OK
See the install log for details.
- 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/0s] 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/0s] OK
- checking whether startup messages can be suppressed ... [0s/0s] 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 ... [6s/9s] OK
- checking Rd files ... [0s/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}.}
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checkRd: (-1) promoter.Rd:12: Lost braces; missing escapes or markup?
12 | \item{X2}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:13: Lost braces; missing escapes or markup?
13 | \item{X3}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:14: Lost braces; missing escapes or markup?
14 | \item{X4}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:15: Lost braces; missing escapes or markup?
15 | \item{X5}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:16: Lost braces; missing escapes or markup?
16 | \item{X6}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:17: Lost braces; missing escapes or markup?
17 | \item{X7}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:18: Lost braces; missing escapes or markup?
18 | \item{X8}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:19: Lost braces; missing escapes or markup?
19 | \item{X9}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:20: Lost braces; missing escapes or markup?
20 | \item{X10}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:21: Lost braces; missing escapes or markup?
21 | \item{X11}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:22: Lost braces; missing escapes or markup?
22 | \item{X12}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:23: Lost braces; missing escapes or markup?
23 | \item{X13}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:24: Lost braces; missing escapes or markup?
24 | \item{X14}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:25: Lost braces; missing escapes or markup?
25 | \item{X15}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:26: Lost braces; missing escapes or markup?
26 | \item{X16}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:27: Lost braces; missing escapes or markup?
27 | \item{X17}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:28: Lost braces; missing escapes or markup?
28 | \item{X18}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:29: Lost braces; missing escapes or markup?
29 | \item{X19}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:30: Lost braces; missing escapes or markup?
30 | \item{X20}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:31: Lost braces; missing escapes or markup?
31 | \item{X21}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:32: Lost braces; missing escapes or markup?
32 | \item{X22}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:33: Lost braces; missing escapes or markup?
33 | \item{X23}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:34: Lost braces; missing escapes or markup?
34 | \item{X24}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:35: Lost braces; missing escapes or markup?
35 | \item{X25}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:36: Lost braces; missing escapes or markup?
36 | \item{X26}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:37: Lost braces; missing escapes or markup?
37 | \item{X27}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:38: Lost braces; missing escapes or markup?
38 | \item{X28}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:39: Lost braces; missing escapes or markup?
39 | \item{X29}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:40: Lost braces; missing escapes or markup?
40 | \item{X30}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:41: Lost braces; missing escapes or markup?
41 | \item{X31}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:42: Lost braces; missing escapes or markup?
42 | \item{X32}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:43: Lost braces; missing escapes or markup?
43 | \item{X33}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:44: Lost braces; missing escapes or markup?
44 | \item{X34}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:45: Lost braces; missing escapes or markup?
45 | \item{X35}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:46: Lost braces; missing escapes or markup?
46 | \item{X36}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:47: Lost braces; missing escapes or markup?
47 | \item{X37}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:48: Lost braces; missing escapes or markup?
48 | \item{X38}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:49: Lost braces; missing escapes or markup?
49 | \item{X39}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:50: Lost braces; missing escapes or markup?
50 | \item{X40}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:51: Lost braces; missing escapes or markup?
51 | \item{X41}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:52: Lost braces; missing escapes or markup?
52 | \item{X42}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:53: Lost braces; missing escapes or markup?
53 | \item{X43}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:54: Lost braces; missing escapes or markup?
54 | \item{X44}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:55: Lost braces; missing escapes or markup?
55 | \item{X45}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:56: Lost braces; missing escapes or markup?
56 | \item{X46}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:57: Lost braces; missing escapes or markup?
57 | \item{X47}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:58: Lost braces; missing escapes or markup?
58 | \item{X48}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:59: Lost braces; missing escapes or markup?
59 | \item{X49}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:60: Lost braces; missing escapes or markup?
60 | \item{X50}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:61: Lost braces; missing escapes or markup?
61 | \item{X51}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:62: Lost braces; missing escapes or markup?
62 | \item{X52}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:63: Lost braces; missing escapes or markup?
63 | \item{X53}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:64: Lost braces; missing escapes or markup?
64 | \item{X54}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:65: Lost braces; missing escapes or markup?
65 | \item{X55}{Sequence; filled by one of {a, g, t, c}.}
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checkRd: (-1) promoter.Rd:66: Lost braces; missing escapes or markup?
66 | \item{X56}{Sequence; filled by one of {a, g, t, c}.}
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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/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 ... [13s/22s] OK
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [22s/35s] OK
- checking PDF version of manual ... [6s/9s] OK
- DONE
Status: 1 NOTE
- using check arguments '--no-clean-on-error '