Last updated on 2020-08-07 01:50:15 CEST.
| Package | NOTE |
|---|---|
| CoxBoost | 12 |
| GAMBoost | 12 |
Current CRAN status:
Version: 1.4
Check: DESCRIPTION meta-information
Result: NOTE
Malformed Description field: should contain one or more complete sentences.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.4
Check: top-level files
Result: NOTE
Non-standard file/directory found at top level:
'changeLog'
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.4
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls in package code:
'parallel' 'snowfall'
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages in Depends field not imported from:
'Matrix' 'prodlim'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.4
Check: foreign function calls
Result: NOTE
Calls with DUP:
.C("find_best01", x.double.vec, as.integer(n), as.integer(p),
uncens.C, as.integer(length(uncens)), as.double(actual.beta),
as.double(actual.risk.score), as.double(actual.linear.predictor),
weight.double.vec, max.nz.vec, max.1.vec, as.double(weightmat.times.risk),
as.double(weightmat.times.risk.sum), as.double(penalty),
warncount = integer(1), min.index = integer(1), min.deviance = double(1),
min.beta.delta = double(1), score.vec = double(p), DUP = FALSE,
NAOK = TRUE)
.C("find_best", x.double.vec, as.integer(n), as.integer(p), uncens.C,
as.integer(length(uncens)), as.double(actual.beta), as.double(actual.risk.score),
as.double(actual.linear.predictor), weight.double.vec, max.nz.vec,
max.1.vec, as.double(weightmat.times.risk), as.double(weightmat.times.risk.sum),
as.double(penalty), as.integer(criterion == "pscore" || criterion ==
"hpscore"), warncount = integer(1), min.index = integer(1),
min.deviance = double(1), min.beta.delta = double(1), score.vec = double(p),
DUP = FALSE, NAOK = TRUE)
.C("find_best_candidate", x.double.vec, as.integer(n), as.integer(p),
uncens.C, as.integer(length(uncens)), as.double(actual.beta),
as.double(actual.risk.score), as.double(actual.linear.predictor),
weight.double.vec, max.nz.vec, max.1.vec, as.double(weightmat.times.risk),
as.double(weightmat.times.risk.sum), as.double(penalty),
as.integer(criterion == "pscore" || criterion == "hpscore"),
as.integer(presel.index - 1), as.integer(length(presel.index)),
warncount = integer(1), min.index = integer(1), min.deviance = double(1),
min.beta.delta = double(1), score.vec = double(p), DUP = FALSE,
NAOK = TRUE)
.C("find_best_candidate", x.double.vec, as.integer(n), as.integer(p),
uncens.C, as.integer(length(uncens)), as.double(actual.beta),
as.double(actual.risk.score), as.double(actual.linear.predictor),
weight.double.vec, max.nz.vec, max.1.vec, as.double(weightmat.times.risk),
as.double(weightmat.times.risk.sum), as.double(penalty),
as.integer(criterion == "pscore"), as.integer(new.candidates -
1), as.integer(length(new.candidates)), warncount = integer(1),
min.index = integer(1), min.deviance = double(1), min.beta.delta = double(1),
score.vec = double(p), DUP = FALSE, NAOK = TRUE)
.C("get_I_vec", as.double(x[subset.time.order, pen.index[I.index]]),
as.integer(n), as.integer(length(I.index)), as.integer(length(uncens)),
as.double(weightmat.times.risk), as.double(weightmat.times.risk.sum),
I.vec = double(length(I.index)), DUP = FALSE)
DUP is no longer supported and will be ignored.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.4
Check: R code for possible problems
Result: NOTE
CoxBoost: no visible global function definition for 'Matrix'
CoxBoost: no visible binding for global variable 'sd'
CoxBoost: no visible global function definition for 'predict'
cv.CoxBoost : eval.fold: no visible global function definition for
'predict'
cv.CoxBoost: no visible global function definition for 'mclapply'
cv.CoxBoost: no visible binding for global variable 'sd'
estimPVal: no visible global function definition for 'mclapply'
iCoxBoost: no visible global function definition for 'terms'
iCoxBoost: no visible global function definition for 'model.response'
iCoxBoost: no visible global function definition for 'model.frame'
iCoxBoost: no visible global function definition for 'model.matrix'
iCoxBoost: no visible global function definition for 'Matrix'
plot.CoxBoost: no visible global function definition for 'lines'
plot.CoxBoost: no visible global function definition for 'text'
predict.iCoxBoost: no visible global function definition for
'model.response'
predict.iCoxBoost: no visible global function definition for
'model.frame'
predict.iCoxBoost: no visible global function definition for
'model.matrix'
Undefined global functions or variables:
Matrix lines mclapply model.frame model.matrix model.response predict
sd terms text
Consider adding
importFrom("graphics", "lines", "text")
importFrom("stats", "model.frame", "model.matrix", "model.response",
"predict", "sd", "terms")
to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64
Version: 1.4
Check: compiled code
Result: NOTE
File ‘CoxBoost/libs/CoxBoost.so’:
Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
It is good practice to register native routines and to disable symbol
search.
See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 1.4
Check: R code for possible problems
Result: NOTE
CoxBoost: no visible global function definition for ‘Matrix’
CoxBoost: no visible binding for global variable ‘sd’
CoxBoost: no visible global function definition for ‘predict’
cv.CoxBoost : eval.fold: no visible global function definition for
‘predict’
cv.CoxBoost: no visible global function definition for ‘mclapply’
cv.CoxBoost: no visible binding for global variable ‘sd’
estimPVal: no visible global function definition for ‘mclapply’
iCoxBoost: no visible global function definition for ‘terms’
iCoxBoost: no visible global function definition for ‘model.response’
iCoxBoost: no visible global function definition for ‘model.frame’
iCoxBoost: no visible global function definition for ‘model.matrix’
iCoxBoost: no visible global function definition for ‘Matrix’
plot.CoxBoost: no visible global function definition for ‘plot’
plot.CoxBoost: no visible global function definition for ‘lines’
plot.CoxBoost: no visible global function definition for ‘text’
predict.iCoxBoost: no visible global function definition for
‘model.response’
predict.iCoxBoost: no visible global function definition for
‘model.frame’
predict.iCoxBoost: no visible global function definition for
‘model.matrix’
Undefined global functions or variables:
Matrix lines mclapply model.frame model.matrix model.response plot
predict sd terms text
Consider adding
importFrom("graphics", "lines", "plot", "text")
importFrom("stats", "model.frame", "model.matrix", "model.response",
"predict", "sd", "terms")
to your NAMESPACE file.
Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Current CRAN status:
Version: 1.2-3
Check: DESCRIPTION meta-information
Result: NOTE
Malformed Description field: should contain one or more complete sentences.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.2-3
Check: top-level files
Result: NOTE
Non-standard files/directories found at top level:
'changeLog' 'gnugpl2.txt'
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.2-3
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls in package code:
'parallel' 'snowfall'
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
Package in Depends field not imported from: 'Matrix'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.2-3
Check: foreign function calls
Result: NOTE
Calls with DUP:
.C("get_min_score_dev_binary_index", x.linear, as.integer(length(y)),
as.integer(componentwise.no), as.integer(nrow(x.linear)),
subset.index, linpen.index, as.double(y), as.double(actual.mu),
as.double(actual.eta), as.double(D), as.double(weights),
double(length(y)), as.double(fstruct$penalty.linear[linear.is.penalized]),
double(componentwise.no), index = integer(1), score = double(componentwise.no),
dev = double(1), DUP = FALSE)
.C("calc_dev_binary_index", x.linear, as.integer(length(y)),
as.integer(componentwise.no), as.integer(nrow(x.linear)),
subset.index, linpen.index, as.double(y), as.double(actual.mu),
as.double(actual.eta), as.double(D), as.double(weights),
double(length(y)), as.double(fstruct$penalty.linear[linear.is.penalized]),
double(componentwise.no), double(componentwise.no), res = double(componentwise.no),
DUP = FALSE)
.C("pre_sum_index", x.linear, as.integer(length(D)), as.integer(componentwise.no),
as.integer(nrow(x.linear)), subset.index, linpen.index, as.double(D),
as.double(weights), res = double(componentwise.no), DUP = FALSE)
.C("get_min_score_dev_gaussian_index", x.linear, as.integer(length(y)),
as.integer(componentwise.no), as.integer(nrow(x.linear)),
subset.index, linpen.index, as.double(y), as.double(actual.mu),
as.double(actual.eta), as.double(D), as.double(weights),
double(length(y)), as.double(fstruct$penalty.linear[linear.is.penalized]),
pre.sum, index = integer(1), score = double(componentwise.no),
dev = double(1), DUP = FALSE)
.C("get_min_score_dev_general_index", x.linear, as.integer(length(y)),
as.integer(componentwise.no), as.integer(nrow(x.linear)),
subset.index, linpen.index, as.double(y), as.double(actual.mu),
as.double(actual.eta), as.double(D), as.double(weights),
double(length(y)), as.double(fstruct$penalty.linear[linear.is.penalized]),
double(componentwise.no), index = integer(1), score = double(componentwise.no),
beta.delta = double(1), DUP = FALSE)
DUP is no longer supported and will be ignored.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.2-3
Check: R code for possible problems
Result: NOTE
GAMBoost: no visible global function definition for 'binomial'
GAMBoost: no visible global function definition for 'gaussian'
GAMBoost: no visible global function definition for 'poisson'
GAMBoost: no visible binding for global variable 'sd'
GAMBoost: no visible global function definition for 'Matrix'
calc.confidence.bands: no visible global function definition for
'predict'
cv.GAMBoost: no visible global function definition for 'binomial'
cv.GAMBoost : eval.fold: no visible global function definition for
'predict'
cv.GAMBoost: no visible global function definition for 'mclapply'
cv.GAMBoost: no visible binding for global variable 'var'
estimPVal: no visible global function definition for 'mclapply'
plot.GAMBoost: no visible global function definition for 'lines'
Undefined global functions or variables:
Matrix binomial gaussian lines mclapply poisson predict sd var
Consider adding
importFrom("graphics", "lines")
importFrom("stats", "binomial", "gaussian", "poisson", "predict", "sd",
"var")
to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64
Version: 1.2-3
Check: compiled code
Result: NOTE
File ‘GAMBoost/libs/GAMBoost.so’:
Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
It is good practice to register native routines and to disable symbol
search.
See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 1.2-3
Check: R code for possible problems
Result: NOTE
GAMBoost: no visible global function definition for ‘binomial’
GAMBoost: no visible global function definition for ‘gaussian’
GAMBoost: no visible global function definition for ‘poisson’
GAMBoost: no visible binding for global variable ‘sd’
GAMBoost: no visible global function definition for ‘Matrix’
calc.confidence.bands: no visible global function definition for
‘predict’
cv.GAMBoost: no visible global function definition for ‘binomial’
cv.GAMBoost : eval.fold: no visible global function definition for
‘predict’
cv.GAMBoost: no visible global function definition for ‘mclapply’
cv.GAMBoost: no visible binding for global variable ‘var’
estimPVal: no visible global function definition for ‘mclapply’
plot.GAMBoost: no visible global function definition for ‘plot’
plot.GAMBoost: no visible global function definition for ‘lines’
Undefined global functions or variables:
Matrix binomial gaussian lines mclapply plot poisson predict sd var
Consider adding
importFrom("graphics", "lines", "plot")
importFrom("stats", "binomial", "gaussian", "poisson", "predict", "sd",
"var")
to your NAMESPACE file.
Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64