Last updated on 2017-07-31 01:47:29.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0-16 | 0.99 | 38.03 | 39.02 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.0-16 | 0.98 | 30.10 | 31.08 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.0-16 | 46.89 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0-16 | 48.28 | NOTE | |||
| r-devel-windows-ix86+x86_64 | 1.0-16 | 6.00 | 77.00 | 83.00 | NOTE | |
| r-patched-linux-x86_64 | 1.0-16 | 1.16 | 38.04 | 39.20 | NOTE | |
| r-patched-solaris-x86 | 1.0-16 | 63.30 | NOTE | |||
| r-release-linux-x86_64 | 1.0-16 | 1.09 | 38.62 | 39.71 | NOTE | |
| r-release-windows-ix86+x86_64 | 1.0-16 | 4.00 | 74.00 | 78.00 | NOTE | |
| r-release-osx-x86_64 | 1.0-16 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0-16 | 7.00 | 46.00 | 53.00 | NOTE | |
| r-oldrel-osx-x86_64 | 1.0-16 | WARN |
Version: 1.0-16
Check: top-level files
Result: NOTE
Non-standard file/directory found at top level:
‘CONTENTS’
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: 1.0-16
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls to packages already attached by Depends:
‘MASS’ ‘boot’ ‘lattice’ ‘splines’ ‘tcltk’
Please remove these calls from your code.
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-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0-16
Check: R code for possible problems
Result: NOTE
titan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 2): partial argument match of ‘nr’ to ‘nrow’
titan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 2): partial argument match of ‘nc’ to ‘ncol’
titan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 1): partial argument match of ‘nr’ to ‘nrow’
titan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 1): partial argument match of ‘nc’ to ‘ncol’
titan : titan.input : data.levels : dummy: warning in matrix(nr = len,
nc = nlevels): partial argument match of ‘nr’ to ‘nrow’
titan : titan.input : data.levels : dummy: warning in matrix(nr = len,
nc = nlevels): partial argument match of ‘nc’ to ‘ncol’
titan : titan.input : data.levels: warning in matrix(nr =
length(dat$x), nc = ncontr.rx): partial argument match of ‘nr’ to
‘nrow’
titan : titan.input : data.levels: warning in matrix(nr =
length(dat$x), nc = ncontr.rx): partial argument match of ‘nc’ to
‘ncol’
titan : titan.create.formulae: warning in matrix(NA, nr =
input$data$levels$ngene, nc = input$data$levels$ncontr.rx + 1):
partial argument match of ‘nr’ to ‘nrow’
titan : titan.create.formulae: warning in matrix(NA, nr =
input$data$levels$ngene, nc = input$data$levels$ncontr.rx + 1):
partial argument match of ‘nc’ to ‘ncol’
titan : titan.interpolate: warning in matrix(NA, nr =
length(gene.valid), nc = 1 + nrx1): partial argument match of ‘nr’ to
‘nrow’
titan : titan.interpolate: warning in matrix(NA, nr =
length(gene.valid), nc = 1 + nrx1): partial argument match of ‘nc’ to
‘ncol’
titan : titan.interpolate: warning in matrix(NA, nr = ngene1, nc =
nrx1): partial argument match of ‘nr’ to ‘nrow’
titan : titan.interpolate: warning in matrix(NA, nr = ngene1, nc =
nrx1): partial argument match of ‘nc’ to ‘ncol’
titan : titan.interpolate: warning in matrix(NA, nr = ngene0, nc =
nrx1): partial argument match of ‘nr’ to ‘nrow’
titan : titan.interpolate: warning in matrix(NA, nr = ngene0, nc =
nrx1): partial argument match of ‘nc’ to ‘ncol’
titan : titan.interpolate: warning in matrix(colMeans(log10fold.g0), nr
= ngene1, nc = nrx1, byrow = TRUE): partial argument match of ‘nr’ to
‘nrow’
titan : titan.interpolate: warning in matrix(colMeans(log10fold.g0), nr
= ngene1, nc = nrx1, byrow = TRUE): partial argument match of ‘nc’ to
‘ncol’
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene0,
nc = nrx1): partial argument match of ‘nr’ to ‘nrow’
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene0,
nc = nrx1): partial argument match of ‘nc’ to ‘ncol’
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene1,
nc = nrx1): partial argument match of ‘nr’ to ‘nrow’
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene1,
nc = nrx1): partial argument match of ‘nc’ to ‘ncol’
titan : titan.bootstrap : boot.fun: warning in
matrix(colMeans(theta.star.g0), nc = nrx1, nr = ngene1, byrow =
TRUE): partial argument match of ‘nr’ to ‘nrow’
titan : titan.bootstrap : boot.fun: warning in
matrix(colMeans(theta.star.g0), nc = nrx1, nr = ngene1, byrow =
TRUE): partial argument match of ‘nc’ to ‘ncol’
titan : titan.bootstrap.baselineonly : boot.fun: warning in matrix(NA,
nr = (ngene1 - 1) * ngene1/2, nc = 1): partial argument match of ‘nr’
to ‘nrow’
titan : titan.bootstrap.baselineonly : boot.fun: warning in matrix(NA,
nr = (ngene1 - 1) * ngene1/2, nc = 1): partial argument match of ‘nc’
to ‘ncol’
titan : print.titanboot: warning in matrix(NA, nr = len, nc = 7):
partial argument match of ‘nr’ to ‘nrow’
titan : print.titanboot: warning in matrix(NA, nr = len, nc = 7):
partial argument match of ‘nc’ to ‘ncol’
titan : titan.widget : widget2: no visible global function definition
for ‘runif’
titan : titan.input : data.levels: no visible global function
definition for ‘contr.treatment’
titan : titan.input: no visible global function definition for
‘relevel’
titan : titan.load.file: no visible global function definition for
‘read.table’
titan : titan.create.formulae: no visible global function definition
for ‘as.formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘drop.scope’
titan : titan.regression : dropWald: no visible global function
definition for ‘pt’
titan : titan.regression : dropWald: no visible global function
definition for ‘update.formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘as.formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘update’
titan : titan.regression: no visible global function definition for
‘coef’
titan : titan.find.coefs: no visible global function definition for
‘coef’
titan : titan.interpolate.line : pred.y: no visible global function
definition for ‘predict’
titan : titan.plot: no visible global function definition for ‘pdf’
titan : titan.plot: no visible global function definition for ‘dev.off’
titan : titan.plot: no visible global function definition for ‘par’
titan : titan.plot.gene : titan.plot.generx: no visible global function
definition for ‘predict’
titan : titan.plot.gene : titan.plot.generx: no visible global function
definition for ‘qt’
titan : titan.plot.gene: no visible global function definition for
‘par’
titan : titan.plot.gene: no visible global function definition for
‘plot.new’
titan : titan.plot.gene: no visible global function definition for
‘plot’
titan : titan.manualFlag: no visible global function definition for
‘par’
titan : titan.manualFlag: no visible global function definition for
‘write.table’
titan : titan.bootstrap : boot.fun: no visible global function
definition for ‘update’
titan : titan.bootstrap.baselineonly : boot.fun: no visible global
function definition for ‘update’
titan : titan.printreg: no visible global function definition for
‘coef’
titan : print.titanboot: no visible global function definition for
‘na.omit’
titan : print.titanboot: no visible global function definition for ‘sd’
Undefined global functions or variables:
as.formula coef contr.treatment dev.off drop.scope formula na.omit
par pdf plot plot.new predict pt qt read.table relevel runif sd
update update.formula write.table
Consider adding
importFrom("grDevices", "dev.off", "pdf")
importFrom("graphics", "par", "plot", "plot.new")
importFrom("stats", "as.formula", "coef", "contr.treatment",
"drop.scope", "formula", "na.omit", "predict", "pt", "qt",
"relevel", "runif", "sd", "update", "update.formula")
importFrom("utils", "read.table", "write.table")
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-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0-16
Check: dependencies in R code
Result: NOTE
Invalid MIT-MAGIC-COOKIE-1 key'library' or 'require' calls to packages already attached by Depends:
‘MASS’ ‘boot’ ‘lattice’ ‘splines’ ‘tcltk’
Please remove these calls from your code.
Flavor: r-oldrel-osx-x86_64
Version: 1.0-16
Check: S3 generic/method consistency
Result: WARN
Invalid MIT-MAGIC-COOKIE-1 key
See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-osx-x86_64
Version: 1.0-16
Check: replacement functions
Result: WARN
Invalid MIT-MAGIC-COOKIE-1 key
The argument of a replacement function which corresponds to the right
hand side must be named ‘value’.
Flavor: r-oldrel-osx-x86_64
Version: 1.0-16
Check: foreign function calls
Result: NOTE
Invalid MIT-MAGIC-COOKIE-1 key
See chapter ‘System and foreign language interfaces’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-osx-x86_64
Version: 1.0-16
Check: R code for possible problems
Result: NOTE
Invalid MIT-MAGIC-COOKIE-1 keytitan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 2): partial argument match of 'nr' to 'nrow'
titan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 2): partial argument match of 'nc' to 'ncol'
titan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 1): partial argument match of 'nr' to 'nrow'
titan : titan.widget : widget2: warning in matrix(FALSE, nr = ngene, nc
= 1): partial argument match of 'nc' to 'ncol'
titan : titan.input : data.levels : dummy: warning in matrix(nr = len,
nc = nlevels): partial argument match of 'nr' to 'nrow'
titan : titan.input : data.levels : dummy: warning in matrix(nr = len,
nc = nlevels): partial argument match of 'nc' to 'ncol'
titan : titan.input : data.levels: warning in matrix(nr =
length(dat$x), nc = ncontr.rx): partial argument match of 'nr' to
'nrow'
titan : titan.input : data.levels: warning in matrix(nr =
length(dat$x), nc = ncontr.rx): partial argument match of 'nc' to
'ncol'
titan : titan.create.formulae: warning in matrix(NA, nr =
input$data$levels$ngene, nc = input$data$levels$ncontr.rx + 1):
partial argument match of 'nr' to 'nrow'
titan : titan.create.formulae: warning in matrix(NA, nr =
input$data$levels$ngene, nc = input$data$levels$ncontr.rx + 1):
partial argument match of 'nc' to 'ncol'
titan : titan.interpolate: warning in matrix(NA, nr =
length(gene.valid), nc = 1 + nrx1): partial argument match of 'nr' to
'nrow'
titan : titan.interpolate: warning in matrix(NA, nr =
length(gene.valid), nc = 1 + nrx1): partial argument match of 'nc' to
'ncol'
titan : titan.interpolate: warning in matrix(NA, nr = ngene1, nc =
nrx1): partial argument match of 'nr' to 'nrow'
titan : titan.interpolate: warning in matrix(NA, nr = ngene1, nc =
nrx1): partial argument match of 'nc' to 'ncol'
titan : titan.interpolate: warning in matrix(NA, nr = ngene0, nc =
nrx1): partial argument match of 'nr' to 'nrow'
titan : titan.interpolate: warning in matrix(NA, nr = ngene0, nc =
nrx1): partial argument match of 'nc' to 'ncol'
titan : titan.interpolate: warning in matrix(colMeans(log10fold.g0), nr
= ngene1, nc = nrx1, byrow = TRUE): partial argument match of 'nr' to
'nrow'
titan : titan.interpolate: warning in matrix(colMeans(log10fold.g0), nr
= ngene1, nc = nrx1, byrow = TRUE): partial argument match of 'nc' to
'ncol'
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene0,
nc = nrx1): partial argument match of 'nr' to 'nrow'
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene0,
nc = nrx1): partial argument match of 'nc' to 'ncol'
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene1,
nc = nrx1): partial argument match of 'nr' to 'nrow'
titan : titan.bootstrap : boot.fun: warning in matrix(NA, nr = ngene1,
nc = nrx1): partial argument match of 'nc' to 'ncol'
titan : titan.bootstrap : boot.fun: warning in
matrix(colMeans(theta.star.g0), nc = nrx1, nr = ngene1, byrow =
TRUE): partial argument match of 'nr' to 'nrow'
titan : titan.bootstrap : boot.fun: warning in
matrix(colMeans(theta.star.g0), nc = nrx1, nr = ngene1, byrow =
TRUE): partial argument match of 'nc' to 'ncol'
titan : titan.bootstrap.baselineonly : boot.fun: warning in matrix(NA,
nr = (ngene1 - 1) * ngene1/2, nc = 1): partial argument match of 'nr'
to 'nrow'
titan : titan.bootstrap.baselineonly : boot.fun: warning in matrix(NA,
nr = (ngene1 - 1) * ngene1/2, nc = 1): partial argument match of 'nc'
to 'ncol'
titan : print.titanboot: warning in matrix(NA, nr = len, nc = 7):
partial argument match of 'nr' to 'nrow'
titan : print.titanboot: warning in matrix(NA, nr = len, nc = 7):
partial argument match of 'nc' to 'ncol'
titan : titan.widget : widget2: no visible global function definition
for ‘runif’
titan : titan.input : data.levels: no visible global function
definition for ‘contr.treatment’
titan : titan.input: no visible global function definition for
‘relevel’
titan : titan.load.file: no visible global function definition for
‘read.table’
titan : titan.create.formulae: no visible global function definition
for ‘as.formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘drop.scope’
titan : titan.regression : dropWald: no visible global function
definition for ‘pt’
titan : titan.regression : dropWald: no visible global function
definition for ‘update.formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘as.formula’
titan : titan.regression : dropWald: no visible global function
definition for ‘update’
titan : titan.regression: no visible global function definition for
‘coef’
titan : titan.find.coefs: no visible global function definition for
‘coef’
titan : titan.interpolate.line : pred.y: no visible global function
definition for ‘predict’
titan : titan.plot: no visible global function definition for ‘pdf’
titan : titan.plot: no visible global function definition for ‘dev.off’
titan : titan.plot: no visible global function definition for ‘par’
titan : titan.plot.gene : titan.plot.generx: no visible global function
definition for ‘predict’
titan : titan.plot.gene : titan.plot.generx: no visible global function
definition for ‘qt’
titan : titan.plot.gene: no visible global function definition for
‘par’
titan : titan.plot.gene: no visible global function definition for
‘plot.new’
titan : titan.plot.gene: no visible global function definition for
‘plot’
titan : titan.manualFlag: no visible global function definition for
‘par’
titan : titan.manualFlag: no visible global function definition for
‘write.table’
titan : titan.bootstrap : boot.fun: no visible global function
definition for ‘update’
titan : titan.bootstrap.baselineonly : boot.fun: no visible global
function definition for ‘update’
titan : titan.printreg: no visible global function definition for
‘coef’
titan : print.titanboot: no visible global function definition for
‘na.omit’
titan : print.titanboot: no visible global function definition for ‘sd’
Undefined global functions or variables:
as.formula coef contr.treatment dev.off drop.scope formula na.omit
par pdf plot plot.new predict pt qt read.table relevel runif sd
update update.formula write.table
Consider adding
importFrom("grDevices", "dev.off", "pdf")
importFrom("graphics", "par", "plot", "plot.new")
importFrom("stats", "as.formula", "coef", "contr.treatment",
"drop.scope", "formula", "na.omit", "predict", "pt", "qt",
"relevel", "runif", "sd", "update", "update.formula")
importFrom("utils", "read.table", "write.table")
to your NAMESPACE file.
Flavor: r-oldrel-osx-x86_64
Version: 1.0-16
Check: for missing documentation entries
Result: WARN
Invalid MIT-MAGIC-COOKIE-1 key
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-osx-x86_64
Version: 1.0-16
Check: for code/documentation mismatches
Result: WARN
Invalid MIT-MAGIC-COOKIE-1 key
Invalid MIT-MAGIC-COOKIE-1 key
Invalid MIT-MAGIC-COOKIE-1 key
Flavor: r-oldrel-osx-x86_64
Version: 1.0-16
Check: Rd \usage sections
Result: NOTE
Invalid MIT-MAGIC-COOKIE-1 key
The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-osx-x86_64