R Development Page

omnr.gillnet log file (check_x86_64_windows)

* using log directory 'R:/run/building/build_2018-04-14-19-44/RF_PKG_CHECK/PKGS/omnr.gillnet.Rcheck'
* using R version 3.4.3 Patched (2018-02-28 r74319)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--as-cran'
* checking for file 'omnr.gillnet/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'omnr.gillnet' version '1.2'
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Steve Walker '

New submission

The Title field should be in title case, current version then in title case:
'Gillnet size selectivity analysis'
'Gillnet Size Selectivity Analysis'

The Date field is over a month old.
* 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 'omnr.gillnet' can be installed ... OK
* checking installed package size ... OK
* checking package 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 R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... WARNING
cbind:
  function(..., deparse.level)
cbind.rep:
  function(x, times)

rbind:
  function(..., deparse.level)
rbind.rep:
  function(x, times)

See section 'Generic functions and methods' in the 'Writing R
Extensions' manual.

Found the following apparent S3 methods exported but not registered:
  cbind.rep rbind.rep
See section 'Registering S3 methods' in the 'Writing R Extensions'
manual.
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
AIC.fit.catch: no visible global function definition for 'deviance'
AIC.fit.catch.compare: no visible binding for global variable 'AIC'
comparemodels: no visible global function definition for 'AIC'
deviance.fit.catch.compare: no visible binding for global variable
  'deviance'
dispparam: no visible global function definition for 'deviance'
fit.catch: no visible global function definition for 'glm'
fit.catch: no visible binding for global variable 'poisson'
fit.catch: no visible binding for global variable 'quasipoisson'
fit.catch: no visible global function definition for 'dpois'
fit.catch: no visible global function definition for 'optim'
fit.catch.compare: no visible global function definition for 'data'
fit.catch.compare: no visible binding for global variable 'sel.curves'
fit.catch.compare: no visible global function definition for 'glm'
fit.catch.compare: no visible binding for global variable 'poisson'
fit.catch.compare: no visible global function definition for 'dpois'
make.catch: no visible global function definition for 'hist'
plot.catch: no visible global function definition for 'par'
plot.catch: no visible global function definition for 'plot'
plot.catch: no visible global function definition for 'axis'
plot.catch: no visible global function definition for 'rect'
plot.catch: no visible global function definition for 'legend'
plot.catch: no visible global function definition for 'mtext'
plot.fit.catch: no visible global function definition for 'par'
plot.fit.catch: no visible global function definition for 'plot'
plot.fit.catch: no visible global function definition for 'title'
plot.fit.catch: no visible global function definition for 'lines'
plot.fit.catch: no visible global function definition for 'legend'
plot.fit.catch: no visible global function definition for 'grey'
plot.fit.catch: no visible global function definition for 'qpois'
plot.fit.catch: no visible global function definition for 'abline'
plot.fit.catch.compare: no visible global function definition for 'par'
plot.fit.catch.compare: no visible binding for global variable 'plot'
print.fit.catch: no visible global function definition for 'coef'
print.fit.catch: no visible global function definition for 'deviance'
print.fit.catch: no visible global function definition for 'AIC'
print.fit.catch.compare: no visible global function definition for
  'deviance'
summary.fit.catch.compare: no visible global function definition for
  'AIC'
Undefined global functions or variables:
  AIC abline axis coef data deviance dpois glm grey hist legend lines
  mtext optim par plot poisson qpois quasipoisson rect sel.curves title
Consider adding
  importFrom("grDevices", "grey")
  importFrom("graphics", "abline", "axis", "hist", "legend", "lines",
             "mtext", "par", "plot", "rect", "title")
  importFrom("stats", "AIC", "coef", "deviance", "dpois", "glm", "optim",
             "poisson", "qpois", "quasipoisson")
  importFrom("utils", "data")
to your NAMESPACE file.

Found the following calls to data() loading into the global environment:
File 'omnr.gillnet/R/fit.catch.compare.R':
  data(sel.curves, package = "omnr.gillnet")
See section 'Good practice' in '?data'.
* checking Rd files ... OK
* 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 ... NOTE
S3 methods shown with full name in documentation object 'rbind.rep':
  'rbind.rep' 'cbind.rep'

The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  'R:/run/building/build_2018-04-14-19-44/RF_PKG_CHECK/PKGS/omnr.gillnet.Rcheck/00check.log'
for details.


Run time: 33.84 seconds.