- using R Under development (unstable) (2012-02-23 r58468)
- using platform: i686-pc-linux-gnu (32-bit)
- using session charset: UTF-8
- checking for file ‘xpose4data/DESCRIPTION’ ... OK
- this is package ‘xpose4data’ version ‘4.3.2’
- 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 whether package ‘xpose4data’ can be installed ... OK
- checking installed package size ... OK
- 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 whether the namespace can be loaded with stated dependencies ... OK
- checking whether the namespace 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 ‘xpose4data/R/zzz.R’:
.First.lib calls:
require(Hmisc, warn.conflicts = FALSE, quietly = TRUE)
require(gam, warn.conflicts = FALSE, quietly = TRUE)
Package startup functions should not change the search path.
See section ‘Good practice’ in ?.onAttach.
SData<-: warning in Data(object, incl = TRUE): partial argument match
of 'incl' to 'inclZeroWRES'
add.absval: warning in assign(paste("xpdb", object@Runno, sep = ""),
object, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
add.dichot: warning in assign(paste("xpdb", object@Runno, sep = ""),
object, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
add.exp: warning in assign(paste("xpdb", object@Runno, sep = ""),
object, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
add.log: warning in assign(paste("xpdb", object@Runno, sep = ""),
object, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
add.tad: warning in assign(paste("xpdb", object@Runno, sep = ""), data,
immediate = T, env = .GlobalEnv): partial argument match of 'env' to
'envir'
change.ab.graph.par: warning in assign(paste("xpdb", object@Runno, sep
= ""), data, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.bw.graph.par: warning in assign(paste("xpdb", object@Runno, sep
= ""), data, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.cat.cont: warning in assign(paste("xpdb", object@Runno, sep =
""), object, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.cat.levels: warning in assign(paste("xpdb", object@Runno, sep =
""), object, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.cond.graph.par: warning in assign(paste("xpdb", object@Runno,
sep = ""), data, immediate = T, env = .GlobalEnv): partial argument
match of 'env' to 'envir'
change.dil.graph.par: warning in assign(paste("xpdb", object@Runno, sep
= ""), data, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.dv.cat.levels: warning in assign(paste("xpdb", object@Runno, sep
= ""), object, immediate = T, env = .GlobalEnv): partial argument
match of 'env' to 'envir'
change.label.par: warning in assign(paste("xpdb", object@Runno, sep =
""), data, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.lm.graph.par: warning in assign(paste("xpdb", object@Runno, sep
= ""), data, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.misc.graph.par: warning in assign(paste("xpdb", object@Runno,
sep = ""), data, immediate = T, env = .GlobalEnv): partial argument
match of 'env' to 'envir'
change.miss: warning in assign(paste("xpdb", object@Runno, sep = ""),
data, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
change.parm: warning in assign(paste("xpdb", object@Runno, sep = ""),
data, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
change.pi.graph.par: warning in assign(paste("xpdb", object@Runno, sep
= ""), data, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.smooth.graph.par: warning in assign(paste("xpdb", object@Runno,
sep = ""), data, immediate = T, env = .GlobalEnv): partial argument
match of 'env' to 'envir'
change.subset: warning in assign(paste("xpdb", object@Runno, sep = ""),
data, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
change.var.name: warning in assign(paste("xpdb", object@Runno, sep =
""), data, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
change.xlabel: warning in assign("object", dat, immediate = T, env =
.GlobalEnv): partial argument match of 'env' to 'envir'
change.xlabel: warning in assign(paste("xpdb", object@Runno, sep = ""),
dat, immediate = T, env = .GlobalEnv): partial argument match of
'env' to 'envir'
change.xvardef: warning in assign(paste("xpdb", object@Runno, sep =
""), object, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
import.graph.par: warning in assign(paste("xpdb", xpobj@Runno, sep =
""), xpobj, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
import.graph.par: no visible binding for global variable ‘xpboj’
import.variable.definitions: warning in assign(paste("xpdb",
object@Runno, sep = ""), data, immediate = T, env = .GlobalEnv):
partial argument match of 'env' to 'envir'
is.readable.file: no visible global function definition for ‘platform’
is.readable.file: no visible global function definition for ‘access’
is.readable.file: no visible binding for global variable ‘unix’
make.sb.data: no visible global function definition for ‘xpose.bin’
read.lst: no visible global function definition for ‘platform’
read.lst6: no visible global function definition for ‘platform’
read.lst7: warning in read.table(rawfile, skip = 1, h = T): partial
argument match of 'h' to 'header'
read.nm.tables: warning in read.table(tempfile, skip = 2, h = T, sep =
sep.char): partial argument match of 'h' to 'header'
read.nm.tables: warning in read.table(filename, skip = 1, h = T, sep =
sep.char): partial argument match of 'h' to 'header'
reset.graph.par: warning in assign(paste("xpdb", xpobj@Runno, sep =
""), xpobj, immediate = T, env = .GlobalEnv): partial argument match
of 'env' to 'envir'
reset.graph.par: no visible binding for global variable ‘xpboj’
set.doc: warning in assign(paste("xpdb", object@Runno, sep = ""), dat,
immediate = T, env = .GlobalEnv): partial argument match of 'env' to
'envir'
- checking Rd files ... NOTE
prepare_Rd: change.parm.Rd:30-31: Dropping empty section \examples
prepare_Rd: functions.Rd:59-60: Dropping empty section \examples
prepare_Rd: make.sb.data.Rd:35-37: Dropping empty section \details
prepare_Rd: make.sb.data.Rd:38-39: Dropping empty section \value
prepare_Rd: make.sb.data.Rd:45-46: Dropping empty section \note
prepare_Rd: make.sb.data.Rd:40-41: Dropping empty section \references
prepare_Rd: make.sb.data.Rd:47-48: Dropping empty section \seealso
prepare_Rd: make.sb.data.Rd:49-51: Dropping empty section \examples
prepare_Rd: nsim.Rd:41-42: Dropping empty section \value
prepare_Rd: read.TTE.sim.data.Rd:34-35: Dropping empty section \details
prepare_Rd: read.TTE.sim.data.Rd:36-39: Dropping empty section \value
prepare_Rd: read.TTE.sim.data.Rd:45-46: Dropping empty section \note
prepare_Rd: read.TTE.sim.data.Rd:40-41: Dropping empty section \references
prepare_Rd: read.TTE.sim.data.Rd:48-49: Dropping empty section \seealso
prepare_Rd: read.TTE.sim.data.Rd:50-51: Dropping empty section \examples
prepare_Rd: read.nm.output.Rd:98-99: Dropping empty section \examples
prepare_Rd: read.npc.vpc.results.Rd:68-69: Dropping empty section \note
prepare_Rd: read.npc.vpc.results.Rd:66: Dropping empty section \references
prepare_Rd: read.npc.vpc.results.Rd:74-75: Dropping empty section \examples
prepare_Rd: read.vpctab.Rd:64-65: Dropping empty section \details
prepare_Rd: read.vpctab.Rd:70-71: Dropping empty section \note
prepare_Rd: xpose.data-class.Rd:74-75: Dropping empty section \examples
prepare_Rd: xpose.prefs-class.Rd:152-153: Dropping empty section \examples
- checking Rd metadata ... OK
- checking Rd cross-references ... WARNING
Missing link(s) in documentation object ‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/xpose4data/man/change.graphical.parameters.Rd’:
‘reorder.factor’
See the information in section ‘Cross-references’ of the ‘Writing R
Extensions’ manual.
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... WARNING
Assignments in \usage in documentation object 'Data':
dataframe <- Data(object, inclZeroWRES = FALSE, onlyfirst = FALSE,
subset = NULL)
dataframe <- SData(object, inclZeroWRES = FALSE, onlyfirst = FALSE,
subset = NULL, samp = NULL)
Assignments in \usage in documentation object 'add.functions':
object <- add.absval(object, listall = TRUE, classic = FALSE)
object <- add.dichot(object, listall = TRUE, classic = FALSE)
object <- add.exp(object, listall = TRUE, classic = FALSE)
object <- add.log(object, listall = TRUE, classic = FALSE)
object <- add.tad(object, classic = FALSE)
Assignments in \usage in documentation object 'change.graphical.parameters':
object <- change.ab.graph.par(object, classic = FALSE)
object <- change.bw.graph.par(object, classic = FALSE)
object <- change.cond.graph.par(object, classic = FALSE)
object <- change.dil.graph.par(object, classic = FALSE)
object <- change.label.par(object, classic = FALSE)
object <- change.lm.graph.par(object, classic = FALSE)
object <- change.misc.graph.par(object, classic = FALSE)
object <- change.pi.graph.par(object, classic = FALSE)
object <- change.smooth.graph.par(object, classic = FALSE)
Assignments in \usage in documentation object 'change.misc.parameters':
object <- change.cat.levels(object, classic = FALSE, cat.limit = NULL,
...)
object <- change.dv.cat.levels(object, classic = FALSE, dv.cat.limit = NULL,
...)
object <- change.cat.cont(object, listall = TRUE, classic = FALSE,
to.cat.vec = NULL, to.cont.vec = NULL, change.type.vec = NULL,
...)
object <- change.miss(object, classic = FALSE)
object <- change.subset(object, classic = FALSE)
object <- set.doc(object, classic = FALSE)
Assignments in \usage in documentation object 'change.var.name':
object <- change.var.name(object, classic = FALSE)
Assignments in \usage in documentation object 'change.xlabel':
object <- change.xlabel(object, listall = FALSE, classic = FALSE)
Assignments in \usage in documentation object 'import.graph.par':
object <- import.graph.par(object, classic = FALSE)
object <- xpose.read(object, file = "xpose.ini")
Assignments in \usage in documentation object 'import.variable.definitions':
object <- import.variable.definitions(object, classic = FALSE)
Assignments in \usage in documentation object 'xlabel':
xlabel(object) <- c(x, newlabel)
Assignments in \usage in documentation object 'reset':
object <- reset.graph.par(object, classic = FALSE)
object <- reset.variables(object, classic = FALSE)
Assignments in \usage in documentation object 'xvardef':
xvardef(object) <- c(x, newdef)
Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking examples ... [1s/1s] OK
- checking PDF version of manual ... OK
WARNING: There were 2 warnings.
NOTE: There were 2 notes.
See
‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/xpose4data.Rcheck/00check.log’
for details.