Last updated on 2017-07-21 07:46:22.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.5 | 3.02 | 68.97 | 71.98 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.0.5 | 3.02 | 65.51 | 68.53 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.0.5 | 150.83 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.5 | 167.64 | NOTE | |||
| r-devel-windows-ix86+x86_64 | 1.0.5 | 11.00 | 113.00 | 124.00 | NOTE | |
| r-patched-linux-x86_64 | 1.0.5 | 3.35 | 67.64 | 70.99 | NOTE | |
| r-patched-solaris-x86 | 1.0.5 | 172.30 | NOTE | |||
| r-release-linux-x86_64 | 1.0.5 | 3.14 | 70.91 | 74.05 | NOTE | |
| r-release-windows-ix86+x86_64 | 1.0.5 | 11.00 | 140.00 | 151.00 | NOTE | |
| r-release-osx-x86_64 | 1.0.5 | ERROR | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0.5 | 8.00 | 137.00 | 145.00 | NOTE | |
| r-oldrel-osx-x86_64 | 1.0.5 | NOTE |
Version: 1.0.5
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls to packages already attached by Depends:
‘Biobase’ ‘combinat’ ‘impute’ ‘tools’
Please remove these calls from your code.
Packages in Depends field not imported from:
‘Biobase’ ‘combinat’ ‘impute’ ‘survival’ ‘tools’
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-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64
Version: 1.0.5
Check: R code for possible problems
Result: NOTE
CDF.rop : <anonymous> : <anonymous>: no visible global function
definition for ‘dmnom’
CDF.rop: no visible global function definition for ‘pbinom’
Match.gene : IQR.f: no visible binding for global variable ‘IQR’
MetaDE.Read: no visible global function definition for ‘read.table’
MetaDE.Read: no visible global function definition for ‘read.csv’
MetaDE.filter: no visible global function definition for ‘quantile’
MetaDE.impute: no visible global function definition for ‘impute.knn’
MetaDE.rawdata: no visible binding for global variable ‘data’
cal.logrank : get.stat: no visible global function definition for
‘coxph’
cal.minMCC: no visible global function definition for ‘combn’
cal.modt: no visible global function definition for ‘median’
cal.p.logrank : get.p: no visible global function definition for
‘coxph’
count.DEnumber : <anonymous>: no visible global function definition for
‘p.adjust’
draw.DEnumber : <anonymous>: no visible global function definition for
‘p.adjust’
draw.DEnumber : get.c: no visible global function definition for ‘dist’
draw.DEnumber: no visible global function definition for ‘plot’
draw.DEnumber: no visible global function definition for ‘points’
draw.DEnumber: no visible global function definition for ‘lines’
draw.DEnumber: no visible global function definition for ‘legend’
get.AW: no visible global function definition for ‘runif’
get.AW: no visible global function definition for ‘p.adjust’
get.AW.OC: no visible global function definition for ‘runif’
get.AW.OC: no visible global function definition for ‘p.adjust’
get.FEM: no visible global function definition for ‘pnorm’
get.FEM: no visible global function definition for ‘p.adjust’
get.FEM2: no visible global function definition for ‘pnorm’
get.FEM2: no visible global function definition for ‘p.adjust’
get.PR: no visible global function definition for ‘p.adjust’
get.PR: no visible global function definition for ‘runif’
get.REM: no visible global function definition for ‘pchisq’
get.REM: no visible global function definition for ‘pnorm’
get.REM: no visible global function definition for ‘p.adjust’
get.REM2: no visible global function definition for ‘pchisq’
get.REM2: no visible global function definition for ‘pnorm’
get.REM2: no visible global function definition for ‘p.adjust’
get.RP: no visible binding for global variable ‘na.rm’
get.RP: no visible global function definition for ‘NaReplace2’
get.RP: no visible global function definition for ‘p.adjust’
get.SR: no visible global function definition for ‘p.adjust’
get.SR: no visible global function definition for ‘runif’
get.Stouff : <anonymous>: no visible global function definition for
‘qnorm’
get.Stouff: no visible global function definition for ‘p.adjust’
get.Stouff : <anonymous>: no visible global function definition for
‘pnorm’
get.Stouff.OC : <anonymous>: no visible global function definition for
‘qnorm’
get.Stouff.OC: no visible global function definition for ‘p.adjust’
get.Stouff.OC : <anonymous>: no visible global function definition for
‘pnorm’
get.fisher: no visible global function definition for ‘p.adjust’
get.fisher : <anonymous>: no visible global function definition for
‘pchisq’
get.fisher.OC: no visible global function definition for ‘runif’
get.fisher.OC: no visible global function definition for ‘p.adjust’
get.maxP: no visible global function definition for ‘p.adjust’
get.maxP : <anonymous>: no visible global function definition for
‘pbeta’
get.maxP.OC: no visible global function definition for ‘p.adjust’
get.minMCC: no visible global function definition for ‘p.adjust’
get.minP: no visible global function definition for ‘p.adjust’
get.minP : <anonymous>: no visible global function definition for
‘pbeta’
get.minP.OC: no visible global function definition for ‘p.adjust’
get.p.F: no visible global function definition for ‘pf’
get.p.pairedt: no visible global function definition for ‘pt’
get.p.pearsonr: no visible global function definition for ‘pt’
get.p.regt: no visible global function definition for ‘p.adjust’
get.p.regt: no visible global function definition for ‘pt’
get.p.spearmanr: no visible global function definition for ‘pt’
get.roP: no visible global function definition for ‘p.adjust’
get.roP : <anonymous>: no visible global function definition for
‘pbeta’
get.roP.OC: no visible global function definition for ‘p.adjust’
order.genes.AW: no visible global function definition for ‘hclust’
order.genes.AW: no visible global function definition for ‘dist’
order.genes.simple: no visible global function definition for ‘hclust’
order.genes.simple: no visible global function definition for ‘dist’
perm.lab: no visible global function definition for ‘rbinom’
plot.matrix: no visible global function definition for
‘colorRampPalette’
plot.matrix: no visible global function definition for ‘layout’
plot.matrix: no visible global function definition for ‘par’
plot.matrix: no visible global function definition for ‘image’
plot.matrix: no visible global function definition for ‘axis’
plot.matrix: no visible global function definition for ‘abline’
Undefined global functions or variables:
IQR NaReplace2 abline axis colorRampPalette combn coxph data dist
dmnom hclust image impute.knn layout legend lines median na.rm
p.adjust par pbeta pbinom pchisq pf plot pnorm points pt qnorm
quantile rbinom read.csv read.table runif
Consider adding
importFrom("grDevices", "colorRampPalette")
importFrom("graphics", "abline", "axis", "image", "layout", "legend",
"lines", "par", "plot", "points")
importFrom("stats", "IQR", "dist", "hclust", "median", "p.adjust",
"pbeta", "pbinom", "pchisq", "pf", "pnorm", "pt", "qnorm",
"quantile", "rbinom", "runif")
importFrom("utils", "combn", "data", "read.csv", "read.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-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64
Version: 1.0.5
Check: Rd line widths
Result: NOTE
Rd file 'MetaDE.filter.Rd':
\examples lines wider than 100 characters:
meta.res<-MetaDE.rawdata(mydata.filtered,ind.method=c("regt","regt"),meta.method="Fisher",ind.tail="abs",nperm=10,paired=rep(FALSE,2))
Rd file 'MetaDE.pvalue.Rd':
\examples lines wider than 100 characters:
#--then you can use meta analysis method to combine the above p-values:here I used the Fisher's method
Rd file 'MetaDE.rawdata.Rd':
\examples lines wider than 100 characters:
test2 <-list(list(x=exp1,y=time1,censoring.status=event1),list(x=exp2,y=time2,censoring.status=event2))
Rd file 'ind.analysis.Rd':
\examples lines wider than 100 characters:
test3<-list(list(x=exp1,y=time1,censoring.status=event1),list(x=exp2,y=time2,censoring.status=event2),
These lines will be truncated in the PDF manual.
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: 1.0.5
Check: package dependencies
Result: ERROR
Package required but not available: ‘impute’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-release-osx-x86_64