Check results for 'PBSmapping'

using R version 2.14.1 Patched (2012-02-04 r58267)
using platform: i686-pc-linux-gnu (32-bit)
using session charset: UTF-8
checking for file ‘PBSmapping/DESCRIPTION’ ... OK
this is package ‘PBSmapping’ version ‘2.61.9’
checking package dependencies ... OK
checking if this is a source package ... OK
checking if there is a namespace ... NOTE
As from R 2.14.0 all packages need a namespace.
One will be generated on installation, but it is better to handcraft a
NAMESPACE file: R CMD build will produce a suitable starting point.
checking for executable files ... OK
checking whether package ‘PBSmapping’ can be installed ... OK
checking installed package size ... NOTE
installed size is 8.0Mb
sub-directories of 1Mb or more:
data 5.1Mb
doc 1.4Mb
checking package directory ... OK
checking for portable file names ... OK
checking for sufficient/correct file permissions ... OK
checking DESCRIPTION meta-information ... OK
checking top-level 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 for unstated 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 ... NOTE
File ‘PBSmapping/R/zzz.r’:
.First.lib calls:
cat("\nPBS Mapping", pkg_info$Version, "-- Copyright (C) 2003-2010 Fisheries and Oceans Canada\n\n-----------------------------------------------------------\nPBS Mapping comes with ABSOLUTELY NO WARRANTY;\nfor details see the file COPYING.\nThis is free software, and you are welcome to redistribute\nit under certain conditions, as outlined in the above file.\n-----------------------------------------------------------\n\nA complete user guide 'PBSmapping-UG.pdf' is located at \n", userguide_path, "\n\nTo see demos, type '.PBSfigs()'.\n\nPackaged on", pkg_date, "\nPacific Biological Station, Nanaimo\n\n")

Package startup functions should use ‘packageStartupMessage’ to
generate messages.
See section ‘Good practice’ in ?.onAttach.

.PBSfig01: no visible binding for global variable ‘PBSval’
.PBSfig01: no visible binding for global variable ‘worldLL’
.PBSfig01: no visible binding for global variable ‘nepacLL’
.PBSfig02: no visible binding for global variable ‘PBSval’
.PBSfig02: no visible binding for global variable ‘nepacLL’
.PBSfig03: no visible binding for global variable ‘PBSval’
.PBSfig03: no visible binding for global variable ‘nepacLL’
.PBSfig04: no visible binding for global variable ‘PBSval’
.PBSfig04: no visible binding for global variable ‘nepacLL’
.PBSfig05: no visible binding for global variable ‘PBSval’
.PBSfig05: warning in as.PolySet(joinPolys(polyA[[1]], polyA[[2]],
operation = "DIFF"), proj = 1): partial argument match of 'proj' to
'projection'
.PBSfig05: warning in plotMap(NULL, xlim = xlim, ylim = ylim, proj = 1,
xlab = "", ylab = "", axes = FALSE, plt = NULL): partial argument
match of 'proj' to 'projection'
.PBSfig06: no visible binding for global variable ‘PBSval’
.PBSfig06: no visible binding for global variable ‘bcBathymetry’
.PBSfig06: no visible binding for global variable ‘nepacLL’
.PBSfig07: no visible binding for global variable ‘PBSval’
.PBSfig07: no visible binding for global variable ‘towData’
.PBSfig07: no visible binding for global variable ‘nepacLL’
.PBSfig07: no visible binding for global variable ‘towTracks’
.PBSfig08: no visible binding for global variable ‘PBSval’
.PBSfig08: no visible binding for global variable ‘nepacLLhigh’
.PBSfig09: no visible binding for global variable ‘PBSval’
.PBSfig09: no visible binding for global variable ‘surveyData’
.PBSfig09: no visible binding for global variable ‘nepacLL’
.PBSfig10: no visible binding for global variable ‘PBSval’
.PBSfig10: no visible binding for global variable ‘pythagoras’
addBubbles: warning in symbols(leg[1], leg[2] + r[i] * ratio.y.x,
circle = r[i], inches = FALSE, add = TRUE, bg = symbol.bg, fg =
symbol.fg): partial argument match of 'circle' to 'circles'
addLines: warning in .createIDs(polyProps, col = c("PID", "SID"),
fastIDdig): partial argument match of 'col' to 'cols'
addLines: warning in .createIDs(polys, col = c("PID", "SID"),
fastIDdig): partial argument match of 'col' to 'cols'
addPolys: warning in .createIDs(pProps, col = c("PID", "SID"),
fastIDdig): partial argument match of 'col' to 'cols'
addPolys: warning in .createIDs(polylines, col = c("PID", "SID"),
fastIDdig): partial argument match of 'col' to 'cols'
addPolys: warning in .createIDs(polys, col = c("PID", "SID"),
fastIDdig): partial argument match of 'col' to 'cols'
calcSummary: warning in .createIDs(polys, col = c("PID", "SID"),
fastIDdig = NULL): partial argument match of 'col' to 'cols'
calcSummary: warning in matrix(unlist(dataX, use.names = FALSE), nc =
nCol, byrow = TRUE): partial argument match of 'nc' to 'ncol'
calcSummary: warning in matrix(unlist(dataY, use.names = FALSE), nc =
nCol, byrow = TRUE): partial argument match of 'nc' to 'ncol'
combineEvents: warning in matrix(output, byrow = TRUE, nc = colIDs):
partial argument match of 'nc' to 'ncol'
checking Rd files ... OK
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 ... OK
checking data for ASCII and uncompressed saves ... NOTE

Note: significantly better compression could be obtained
by using R CMD build --resave-data
old_size new_size compress
bcBathymetry.rda 776Kb 434Kb bzip2
nepacLL.rda 614Kb 322Kb xz
nepacLLhigh.rda 1.6Mb 842Kb xz
surveyData.rda 13Kb 8Kb xz
towTracks.rda 38Kb 22Kb xz
worldLL.rda 296Kb 177Kb xz
worldLLhigh.rda 1.7Mb 899Kb xz
checking line endings in C/C++/Fortran sources/headers ... OK
checking line endings in Makefiles ... OK
checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
checking compiled code ... NOTE
File ‘/home/hornik/tmp/R.check/r-patched/Work/build/Packages/PBSmapping/libs/PBSmapping.so’:
Found ‘exit’, possibly from ‘exit’ (C)
Found ‘stderr’, possibly from ‘stderr’ (C)

Compiled code should not call functions which might terminate R nor
write to stdout/stderr instead of to the console. The detected symbols
are linked into the code but might come from libraries and not actually
be called.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checking sizes of PDF files under ‘inst/doc’ ... OK
checking examples ... OK
checking for unstated dependencies in vignettes ... OK
checking package vignettes in ‘inst/doc’ ... OK
checking running R code from vignettes ... OK
checking re-building of vignette PDFs ... OK
checking PDF version of manual ... OK