- using R version 3.0.1 (2013-05-16)
- using platform: i686-pc-linux-gnu (32-bit)
- using session charset: UTF-8
- checking for file ‘PKgraph/DESCRIPTION’ ... OK
- this is package ‘PKgraph’ version ‘1.7’
- 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 ‘PKgraph’ 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 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
PKgraph: warning in ggroup(horizontal = FALSE, spacing = 0, cont = PKW,
expand = TRUE): partial argument match of 'cont' to 'container'
configFigureHandler: warning in ggroup(cont = gfigconfig.win,
horizontal = FALSE): partial argument match of 'cont' to 'container'
configFigureHandler: warning in glayout(cont = gf1): partial argument
match of 'cont' to 'container'
configFormatHandler: warning in ggroup(cont = gconfigsave.win,
horizontal = FALSE): partial argument match of 'cont' to 'container'
configFormatHandler: warning in glayout(cont = gf1): partial argument
match of 'cont' to 'container'
ggobi.diagose: warning in glabel("Step 1: Map data", cont = g1):
partial argument match of 'cont' to 'container'
ggobi.diagose: warning in gframe(horizontal = FALSE, expand = FALSE,
cont = g1): partial argument match of 'cont' to 'container'
ggobi.diagose: warning in glayout(cont = gf): partial argument match of
'cont' to 'container'
ggobi.diagose: warning in ggroup(cont = g1): partial argument match of
'cont' to 'container'
ggobi.diagose: warning in gbutton("Map Data", cont = bg1, handler =
NULL): partial argument match of 'cont' to 'container'
ggobi.diagose: warning in gbutton("Remove selection", cont = bg1,
handler = NULL): partial argument match of 'cont' to 'container'
ggobi.diagose: warning in glabel("Step 2: Configure plots", cont = g2):
partial argument match of 'cont' to 'container'
ggobi.diagose: warning in ggroup(horizontal = FALSE, expand = FALSE,
cont = g2): partial argument match of 'cont' to 'container'
ggobi.diagose: warning in gtable(items = c(letters[1:24]), cont = g22,
expand = TRUE): partial argument match of 'cont' to 'container'
ggobi.diagose: warning in ggroup(cont = g2): partial argument match of
'cont' to 'container'
ggobi.diagose: warning in gbutton("Plot selection", cont = bg2, handler
= NULL): partial argument match of 'cont' to 'container'
ggobi.diagose: warning in gbutton("Plot all", cont = bg2, handler =
NULL): partial argument match of 'cont' to 'container'
ggobi.diagose: warning in gbutton("Close plots", cont = bg2, handler =
NULL): partial argument match of 'cont' to 'container'
ggobi.map: warning in ggroup(cont = ggobi.map, horizontal = FALSE):
partial argument match of 'cont' to 'container'
ggobi.map: warning in glayout(cont = gf1): partial argument match of
'cont' to 'container'
ggobiPlotType: warning in ggroup(cont = ggobi.map, horizontal = FALSE):
partial argument match of 'cont' to 'container'
ggobiPlotType: warning in glayout(cont = gf1): partial argument match
of 'cont' to 'container'
openDataHandler: warning in ggroup(cont = gtmp.win, horizontal =
FALSE): partial argument match of 'cont' to 'container'
openDataHandler: warning in glayout(cont = gf1): partial argument match
of 'cont' to 'container'
selectDataDialog: warning in ggroup(cont = ggobi.gwin, horizontal =
FALSE): partial argument match of 'cont' to 'container'
selectDataDialog: warning in glabel(text = labelMessage1, cont =
ggobi.group): partial argument match of 'cont' to 'container'
selectDataDialog: warning in gframe(cont = ggobi.group): partial
argument match of 'cont' to 'container'
selectDataDialog: warning in gtable(alldata.name, cont = g1, expand =
TRUE): partial argument match of 'cont' to 'container'
selectDataDialog: warning in gbutton(">", cont = g1): partial argument
match of 'cont' to 'container'
selectDataDialog: warning in gtable(colnames(Theoph), cont = g1, expand
= TRUE): partial argument match of 'cont' to 'container'
selectDataDialog: warning in glabel(text = labelMessage2, cont =
ggobi.group): partial argument match of 'cont' to 'container'
selectDataDialog: warning in gbutton("Go to next step", cont =
ggobi.group): partial argument match of 'cont' to 'container'
subset.okButtonHandler: warning in glayout(cont = gframe.subset):
partial argument match of 'cont' to 'container'
subset.okButtonHandler: warning in gbutton(text = "Subset", border =
TRUE, cont = gframe.subset, handler = function(h, ...) {: partial
argument match of 'cont' to 'container'
subset.okButtonHandler: warning in sapply(1:length(subset.var),
function(i) {: partial argument match of 'cont' to 'container'
subset.okButtonHandler: warning in currentData <<-
subset.f1(svalue(tbl.value[[i * 3 - 2]]), svalue(tbl.value[[i * 3 -
1]]), svalue(tbl.value[[i * 3]]), currentData): partial argument
match of 'cont' to 'container'
subset.okButtonHandler: warning in }): partial argument match of 'cont'
to 'container'
subset.okButtonHandler: warning in thisDatano <- getTotalDataLen() + 1:
partial argument match of 'cont' to 'container'
subset.okButtonHandler: warning in datatype <- "Subset": partial
argument match of 'cont' to 'container'
subset.okButtonHandler: warning in thisDataName <-
paste(getTotalDataLen() + 1, "_", datatype, sep = ""): partial
argument match of 'cont' to 'container'
subset.okButtonHandler: warning in setDatasets(currentData,
thisDatano): partial argument match of 'cont' to 'container'
subset.okButtonHandler: warning in setCurrentDataType(datatype,
thisDataName): partial argument match of 'cont' to 'container'
subset.okButtonHandler: warning in ptable = gtable(currentData,
multiple = TRUE, expand = TRUE): partial argument match of 'cont' to
'container'
subset.okButtonHandler: warning in pkmain.add(ptable,
as.character(thisDataName), override.closebutton = TRUE): partial
argument match of 'cont' to 'container'
subset.okButtonHandler: warning in dispose(gwin.subset): partial
argument match of 'cont' to 'container'
subset.okButtonHandler: warning in svalue(PKENV$pmg.statusBar) <-
"Subset sucessfully!": partial argument match of 'cont' to
'container'
subset.okButtonHandler: warning in }): partial argument match of 'cont'
to 'container'
cleanFigureButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
com.hist.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
com.hist.okButtonHandler.0125: no visible binding for global variable
‘pk.dialog.notebook’
com.scatter.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
com.scatter.okButtonHandler.0125: no visible binding for global
variable ‘pk.dialog.notebook’
com.time.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
com.time.okButtonHandler.back: no visible binding for global variable
‘pk.dialog.notebook’
compare.pred.ggobiImageHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.cov.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.ggobiImageHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.gof.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.ind.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.para.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.random.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.resid.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
model.struct.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
openDataHandler : <anonymous> : <anonymous>: no visible binding for
'<<-' assignment to ‘test’
openDataHandler : <anonymous> : <anonymous>: no visible binding for
global variable ‘test’
psn.bootstrap: no visible binding for global variable
‘minimization.successful’
psn.bootstrap: no visible binding for global variable
‘covariance.step.successful’
psn.bootstrap: no visible binding for global variable
‘covariance.step.warnings’
psn.bootstrap: no visible binding for global variable
‘estimate.near.boundary’
psn.bootstrap: no visible binding for global variable
‘pk.dialog.notebook’
psn.bootstrap.sum.okButtonHandler: no visible binding for global
variable ‘pk.dialog.notebook’
psn.bootstrap.sum.okButtonHandler: no visible binding for global
variable ‘minimization.successful’
psn.bootstrap.sum.okButtonHandler: no visible binding for global
variable ‘covariance.step.successful’
psn.bootstrap.sum.okButtonHandler: no visible binding for global
variable ‘covariance.step.warnings’
psn.bootstrap.sum.okButtonHandler: no visible binding for global
variable ‘estimate.near.boundary’
psn.bootstrap.vis.okButtonHandler: no visible binding for global
variable ‘pk.dialog.notebook’
psn.bootstrap.vis.okButtonHandler: no visible binding for global
variable ‘ID’
psn.bootstrap.vis.okButtonHandler: no visible binding for global
variable ‘resampleID’
psn.bootstrap.vis.okButtonHandler: no visible binding for global
variable ‘para’
psn.bootstrap.vis.okButtonHandler: no visible binding for global
variable ‘VAR’
psn.cdd: no visible binding for global variable
‘minimization.successful’
psn.cdd: no visible binding for global variable
‘covariance.step.successful’
psn.cdd: no visible binding for global variable
‘covariance.step.warnings’
psn.cdd: no visible binding for global variable
‘estimate.near.boundary’
psn.cdd: no visible binding for global variable ‘outside.n.sd’
psn.outlier.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
psn.outlier.okButtonHandler: no visible binding for global variable
‘ID’
psn.outlier.okButtonHandler: no visible binding for global variable
‘cook.scores’
psn.outlier.okButtonHandler: no visible binding for global variable
‘cov.ratios’
saveImageHandler: no visible binding for global variable
‘pk.dialog.notebook’
saveImageHandler.matrix: no visible binding for global variable
‘pk.dialog.notebook’
saveImageHandler.pkmodel: no visible binding for global variable
‘pk.dialog.notebook’
summary.bi.ggobiImageHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.bi.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.heat.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.matrix.ggobiImageHandler: no visible binding for global
variable ‘pk.dialog.notebook’
summary.matrix.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.para.ggobiImageHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.para.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.tri.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.uni.ggobiImageHandler: no visible binding for global variable
‘pk.dialog.notebook’
summary.uni.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
val.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
validation.ggobiImageHandler: no visible binding for global variable
‘pk.dialog.notebook’
vis.outlier.okButtonHandler: no visible binding for global variable
‘pk.dialog.notebook’
vis.outlier.okButtonHandler: no visible binding for global variable
‘runID’
vis.outlier.okButtonHandler: no visible binding for global variable
‘deleteID’
vis.outlier.okButtonHandler: no visible binding for global variable
‘ID’
vis.outlier.okButtonHandler: no visible binding for global variable
‘para’
vis.outlier.okButtonHandler: no visible binding for global variable
‘resampleID’
vis.outlier.okButtonHandler: no visible global function definition for
‘namerows’
vis.outlier.okButtonHandler: no visible global function definition for
‘melt’
vis.outlier.okButtonHandler: no visible global function definition for
‘ddply’
vis.outlier.okButtonHandler: no visible binding for global variable
‘variable’
vis.outlier.okButtonHandler: no visible global function definition for
‘rescaler’
vis.outlier.okButtonHandler: no visible binding for global variable
‘value’
vis.outlier.okButtonHandler: no visible binding for global variable
‘rng’
vis.outlier.okButtonHandler: no visible binding for global variable
‘cor1’
vis.outlier.okButtonHandler: no visible binding for global variable
‘cor2’
- checking Rd files ... NOTE
prepare_Rd: PKgraph.Rd:11-13: Dropping empty section \arguments
prepare_Rd: PKgraph.Rd:17-19: Dropping empty section \examples
prepare_Rd: pkdata.Rd:9-11: Dropping empty section \format
prepare_Rd: pkdata.Rd:14-16: Dropping empty section \examples
prepare_Rd: pkdata2.Rd:9-11: Dropping empty section \format
prepare_Rd: pkdata2.Rd:14-16: Dropping empty section \examples
- 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 ... OK
- checking sizes of PDF files under ‘inst/doc’ ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking examples ... NONE
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in ‘inst/doc’ ... OK
- checking running R code from vignettes ... [0s/0s] OK
- checking re-building of vignette PDFs ... [1s/2s] OK
- checking PDF version of manual ... OK
NOTE: There were 2 notes.
See
‘/home/hornik/tmp/R.check/r-release/Work/PKGS/PKgraph.Rcheck/00check.log’
for details.