- 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 ‘texmex/DESCRIPTION’ ... OK
- checking extension type ... Package
- this is package ‘texmex’ version ‘1.2’
- 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 ‘texmex’ 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 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
.ismev.gpd.fit: multiple local function definitions for ‘gpd.lik’ with
different formal arguments
bgpdSetSeed: possible error in assign(".Random.seed", x$seed, where =
1): unused argument(s) (where = 1)
gpd : proposal: possible error in rmvnorm(1, mean, cov = sigma): unused
argument(s) (cov = sigma)
mexDependence : qfun: warning in filled.contour(a.grid, b.grid,
-NegProfLik, main = paste("Profile likelihood", PlotLikTitle), color
= terrain.colors, xlab = "a", ylab = "b", plot.axes = {: partial
argument match of 'color' to 'color.palette'
mexDependence : qfun: warning in axis(1): partial argument match of
'color' to 'color.palette'
mexDependence : qfun: warning in axis(2): partial argument match of
'color' to 'color.palette'
mexDependence : qfun: warning in points(o$par[1], o$par[2]): partial
argument match of 'color' to 'color.palette'
mexDependence : qfun: warning in }): partial argument match of 'color'
to 'color.palette'
plot.bgpd: no visible global function definition for ‘bandwidth.hb’
test.bootgpd: warning in checkEqualsNumeric(cse[1], bse[1], tol = tol,
msg = "bootgpd: rain se(sigma) matches Coles"): partial argument
match of 'tol' to 'tolerance'
test.bootgpd: warning in checkEqualsNumeric(cse[2], bse[2], tol = tol,
msg = "bootgpd: rain se(xi) matches Coles"): partial argument match
of 'tol' to 'tolerance'
test.bootgpd: warning in checkEqualsNumeric(cest[1], best[1], tol =
tol, msg = "bootgpd: rain median of sigma matches point estimate"):
partial argument match of 'tol' to 'tolerance'
test.bootgpd: warning in checkEqualsNumeric(cest[2], best[2], tol =
tol, msg = "bootgpd: rain medians of xi matches point estimate"):
partial argument match of 'tol' to 'tolerance'
test.bootgpd: no visible binding for global variable ‘ALT.M’
test.bootgpd: no visible binding for global variable ‘ALT.B’
test.bootmex: warning in migpd(wavesurge, mq = 0.7): partial argument
match of 'mq' to 'mqu'
test.dgpd : <anonymous>: warning in rgpd(nsim, sig = p[i, 1], xi = p[i,
2], u = thresh[i]): partial argument match of 'sig' to 'sigma'
test.gpd: no visible binding for global variable ‘rainfall’
test.gpd: no visible binding for global variable ‘ALT.M’
test.gpd: no visible binding for global variable ‘ALT.B’
test.gpd: no visible binding for global variable ‘y’
test.gpd: warning in require(MASS, quiet = TRUE): partial argument
match of 'quiet' to 'quietly'
test.gpd: no visible binding for global variable ‘resids’
test.info.gpd: no visible binding for global variable ‘ALT.M’
test.info.gpd: no visible binding for global variable ‘y’
test.mexDependence: warning in checkEqualsNumeric(jhWdepO3,
myWdepO3$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Winter O3"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhWdepNO2,
myWdepNO2$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Winter NO2"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhWdepNO,
myWdepNO$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Winter NO"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhWdepSO2,
myWdepSO2$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Winter SO2"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhWdepPM10,
myWdepPM10$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Winter PM10"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhSdepO3,
mySdepO3$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Summer O3"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhSdepNO2,
mySdepNO2$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Summer NO2"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhSdepNO,
mySdepNO$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Summer NO"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhSdepSO2,
mySdepSO2$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Summer SO2"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in checkEqualsNumeric(jhSdepPM10,
mySdepPM10$dependence$coefficients[1:4, ], tol = tol, msg =
"mexDependence: Summer PM10"): partial argument match of 'tol' to
'tolerance'
test.mexDependence: warning in migpd(wavesurge, mq = 0.7): partial
argument match of 'mq' to 'mqu'
test.mexDependence: warning in
checkEqualsNumeric(summer.mex1$dependence$coefficients,
summer.mex2$dependence$coefficients, tol = tol, msg = "mexDependence:
summer starting values: class(start)='mex'"): partial argument match
of 'tol' to 'tolerance'
test.mexDependence: warning in
checkEqualsNumeric(summer.mex1$dependence$coefficients,
summer.mex3$dependence$coefficients, tol = tol, msg = "mexDependence:
summer starting values: start= matrix "): partial argument match of
'tol' to 'tolerance'
test.mexDependence: warning in
checkEqualsNumeric(summer.mex1$dependence$coefficients,
summer.mex4$dependence$coefficients, tol = tol, msg = "mexDependence:
summer starting values: start= vector"): partial argument match of
'tol' to 'tolerance'
test.mexDependence: warning in checkEqualsNumeric(KTPest, HTSest, tol =
tol, mesg = paste("mexDependence: constrained estimation threshold",
i)): partial argument match of 'tol' to 'tolerance'
test.mexRangeFit: warning in migpd(wavesurge, mq = 0.7): partial
argument match of 'mq' to 'mqu'
test.migpd: warning in checkEqualsNumeric(htsummer[i, ], summer.gpd[i,
], tol = tol[i], msg = paste("migpd: Table 4 summer", i)): partial
argument match of 'tol' to 'tolerance'
test.migpd: warning in checkEqualsNumeric(htwinter[i, ], winter.gpd[i,
], tol = tol[i], msg = paste("migpd: Table 4 winter", i)): partial
argument match of 'tol' to 'tolerance'
test.migpd: warning in migpd(wavesurge, mq = 0.7): partial argument
match of 'mq' to 'mqu'
test.migpd: warning in
checkEqualsNumeric(wavesurge.fit$models$wave$loglik,
gpd(wavesurge$wave, qu = 0.7)$loglik, tol = 0.001, msg = "migpd: 2-d
data gpd fit wave"): partial argument match of 'tol' to 'tolerance'
test.migpdCoefs: warning in require(MASS, quiet = TRUE): partial
argument match of 'quiet' to 'quietly'
test.migpdCoefs: no visible binding for global variable ‘alt’
test.migpdCoefs: no visible binding for global variable ‘ast’
test.migpdCoefs: warning in migpdCoefs(Dmod, which = c("alt", "ast"),
coef = list(altco, astco)): partial argument match of 'coef' to
'coefs'
test.pgpd : <anonymous>: warning in rgpd(nsim, sig = p[i, 1], xi = p[i,
2], u = thresh[i]): partial argument match of 'sig' to 'sigma'
test.plot.predict.mex: warning in mex(winter, mqu = 0.7, penalty =
"none", wh = "NO", dqu = 0.7, margins = "gumbel", constrain = FALSE):
partial argument match of 'wh' to 'which'
test.plot.predict.mex: warning in mex(wavesurge, mq = 0.7, which = 1,
margins = "laplace"): partial argument match of 'mq' to 'mqu'
test.predict.mex: warning in checkEqualsNumeric(Table5summer,
resSummer, tol = tol, msg = "predict.mex: Table 5 summer data"):
partial argument match of 'tol' to 'tolerance'
test.predict.mex: warning in checkEqualsNumeric(Table5winter,
resWinter, tol = tol, msg = "predict.mex: Table 5 winter data"):
partial argument match of 'tol' to 'tolerance'
test.predict.mex: warning in checkEqualsNumeric(pointEstSummer,
resSummer[1, ], tol = tol, msg = "predict.mex: point est vs boot,
summer data"): partial argument match of 'tol' to 'tolerance'
test.predict.mex: warning in checkEqualsNumeric(pointEstWinter,
resWinter[1, ], tol = tol, msg = "predict.mex: point est vs boot,
winter data"): partial argument match of 'tol' to 'tolerance'
test.predict.mex: warning in mex(wavesurge, mq = 0.7, dqu = 0.7,
margins = "laplace", which = 1): partial argument match of 'mq' to
'mqu'
test.predict.mex: warning in checkEqualsNumeric(lap.ans, gum.ans, tol =
tol, msg = paste("predict.mex Laplace predictions equal to Gumbel,
test replicate", i)): partial argument match of 'tol' to 'tolerance'
test.revTransform: warning in checkEqualsNumeric(x.l.e, x, tol = 1e-04,
msg = "revTransform: empirical transformation, laplace target"):
partial argument match of 'tol' to 'tolerance'
test.revTransform: warning in checkEqualsNumeric(x.l.m, x, tol = 1e-04,
msg = "revTransform: mixture transformation, laplace target"):
partial argument match of 'tol' to 'tolerance'
test.revTransform: warning in checkEqualsNumeric(x.g.e, x, tol = 1e-04,
msg = "revTransform: empirical transformation, gumbel target"):
partial argument match of 'tol' to 'tolerance'
test.revTransform: warning in checkEqualsNumeric(x.g.m, x, tol = 1e-04,
msg = "revTransform: mixture transformation, gumbel target"): partial
argument match of 'tol' to 'tolerance'
- 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 ... OK
- checking examples ... [123s/123s] OK
- checking PDF version of manual ... OK
NOTE: There were 2 notes.
See
‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/texmex.Rcheck/00check.log’
for details.