Last updated on 2017-02-24 23:52:28.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.8-0 | 28.94 | 105.55 | 134.50 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.8-0 | 32.88 | 109.35 | 142.22 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.8-0 | 275.73 | NOTE | --no-stop-on-test-error | ||
| r-devel-linux-x86_64-fedora-gcc | 1.8-0 | 257.24 | NOTE | --no-stop-on-test-error | ||
| r-devel-macos-x86_64-clang | 1.8-0 | 186.10 | NOTE | --no-stop-on-test-error | ||
| r-devel-windows-ix86+x86_64 | 1.8-0 | 220.00 | 291.00 | 511.00 | NOTE | |
| r-patched-linux-x86_64 | 1.8-0 | 29.59 | 103.01 | 132.61 | NOTE | |
| r-patched-solaris-sparc | 1.8-0 | 781.70 | NOTE | --no-examples | ||
| r-patched-solaris-x86 | 1.8-0 | 280.40 | NOTE | |||
| r-release-linux-x86_64 | 1.8-0 | 29.61 | 97.72 | 127.33 | NOTE | |
| r-release-osx-x86_64-mavericks | 1.8-0 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 1.8-0 | 153.00 | 279.00 | 432.00 | NOTE | |
| r-oldrel-windows-ix86+x86_64 | 1.8-0 | 207.00 | 283.00 | 490.00 | NOTE |
Version: 1.8-0
Check: whether the namespace can be loaded with stated dependencies
Result: NOTE
Warning: no function found corresponding to methods exports from ‘GenABEL’ for: ‘show’
A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.
Probably some imports need to be declared in the NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-release-windows-ix86+x86_64
Version: 1.8-0
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls in package code:
‘DatABEL’ ‘genetics’ ‘haplo.stats’ ‘hglm’ ‘qvalue’
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages in Depends field not imported from:
‘GenABEL.data’ ‘MASS’ ‘methods’
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-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.8-0
Check: S3 generic/method consistency
Result: NOTE
Found the following apparent S3 methods exported but not registered:
as.character.snp.coding as.character.snp.strand merge.gwaa.data
merge.snp.data summary.snp.data_old
See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64
Version: 1.8-0
Check: R code for possible problems
Result: NOTE
GASurv: no visible global function definition for ‘is’
HWE.show: no visible global function definition for ‘is’
HWE.show: no visible global function definition for ‘pchisq’
LiLog: no visible global function definition for ‘binomial’
PGC: no visible global function definition for ‘median’
PGC: no visible global function definition for ‘qchisq’
PGC: no visible global function definition for ‘ppoints’
PGC: no visible global function definition for ‘quantile’
PGC : f2: no visible global function definition for ‘ks.test’
PGC : f2: no visible global function definition for ‘median’
PGC : f2: no visible global function definition for ‘qchisq’
PGC: no visible global function definition for ‘abline’
PGC: no visible global function definition for ‘lines’
VIFGC : Clust: no visible global function definition for ‘as.dist’
VIFGC : Clust: no visible global function definition for ‘cmdscale’
VIFGC : ClustN: no visible global function definition for ‘kmeans’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘ks.test’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘qchisq’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘median’
VIFGC : GC_VIF: no visible global function definition for ‘ks.test’
VIFGC : GC_VIF: no visible global function definition for ‘qchisq’
VIFGC : GC_VIF: no visible global function definition for ‘median’
VIFGC: no visible global function definition for ‘qchisq’
VIFGC: no visible global function definition for ‘median’
VIFGC: no visible global function definition for ‘ppoints’
VIFGC: no visible global function definition for ‘optimize’
VIFGC: no visible global function definition for ‘nlm’
VIFGC: no visible global function definition for ‘abline’
VIFGC: no visible global function definition for ‘lines’
VIFGC_ovdom : Clust: no visible global function definition for
‘as.dist’
VIFGC_ovdom : Clust: no visible global function definition for
‘cmdscale’
VIFGC_ovdom : ClustN: no visible global function definition for
‘kmeans’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘ks.test’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘qchisq’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘median’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘ks.test’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘qchisq’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘median’
VIFGC_ovdom: no visible global function definition for ‘qchisq’
VIFGC_ovdom: no visible global function definition for ‘ppoints’
VIFGC_ovdom: no visible global function definition for ‘optimize’
VIFGC_ovdom: no visible global function definition for ‘median’
VIFGC_ovdom: no visible global function definition for ‘nlm’
VIFGC_ovdom: no visible global function definition for ‘abline’
Xcheck: no visible global function definition for ‘is’
Xfix: no visible global function definition for ‘is’
Xfix.internal: no visible global function definition for ‘is’
add.phdata: no visible global function definition for ‘is’
add.plot: no visible global function definition for ‘is’
add.plot: no visible global function definition for ‘points’
add.plot: no visible global function definition for ‘image’
arrange_probabel_phe: no visible global function definition for
‘read.table’
arrange_probabel_phe: no visible global function definition for
‘databel’
arrange_probabel_phe: no visible global function definition for
‘write.table’
as.character.gwaa.data: no visible global function definition for ‘is’
as.character.snp.data: no visible global function definition for ‘is’
as.double.gwaa.data: no visible global function definition for ‘is’
as.double.snp.data: no visible global function definition for ‘is’
as.genotype.gwaa.data: no visible global function definition for ‘is’
as.genotype.snp.data: no visible global function definition for ‘is’
as.genotype.snp.data: no visible global function definition for
‘genotype’
as.hsgeno.gwaa.data: no visible global function definition for ‘is’
as.hsgeno.snp.data: no visible global function definition for ‘is’
as.raw.snp.data: no visible global function definition for ‘is’
as.raw.snp.mx: no visible global function definition for ‘is’
autosomal: no visible global function definition for ‘is’
blurGenotype: no visible global function definition for ‘is’
catable: no visible global function definition for ‘quantile’
catable: no visible global function definition for ‘is’
ccfast: no visible global function definition for ‘is’
ccfast: no visible global function definition for ‘flush.console’
ccfast: no visible global function definition for ‘pchisq’
ccfast: no visible global function definition for ‘new’
ccfast.new: no visible global function definition for ‘is’
check.marker: no visible global function definition for ‘is’
check.marker.internal: no visible global function definition for ‘is’
check.marker.internal: no visible global function definition for
‘flush.console’
check.marker.internal: no visible global function definition for
‘qvalue’
check.marker.internal: no visible global function definition for ‘sd’
check.marker.internal: no visible global function definition for
‘pchisq’
check.trait: no visible global function definition for ‘is’
checkphengen: no visible global function definition for ‘is’
cocohet: no visible global function definition for ‘is’
cocohet: no visible global function definition for ‘pchisq’
convert.snp.affymetrix: no visible global function definition for ‘is’
convert.snp.mach: no visible global function definition for
‘read.table’
convert.snp.mach: no visible global function definition for ‘new’
descriptives.marker: no visible global function definition for ‘is’
descriptives.marker: no visible global function definition for ‘sd’
descriptives.marker: no visible global function definition for
‘write.table’
descriptives.scan: no visible global function definition for ‘is’
descriptives.scan: no visible global function definition for
‘write.table’
descriptives.trait: no visible global function definition for ‘is’
descriptives.trait: no visible global function definition for ‘sd’
descriptives.trait: no visible global function definition for ‘t.test’
descriptives.trait: no visible global function definition for
‘kruskal.test’
descriptives.trait: no visible global function definition for
‘fisher.test’
descriptives.trait: no visible global function definition for
‘write.table’
dprfast: no visible global function definition for ‘is’
drop.out.points: no visible global function definition for ‘var’
dump.piece: no visible global function definition for ‘write.table’
egscore: no visible global function definition for ‘is’
egscore: no visible global function definition for ‘as’
egscore: no visible global function definition for ‘model.frame’
egscore: no visible binding for global variable ‘na.omit’
egscore: no visible global function definition for ‘model.response’
egscore: no visible global function definition for ‘model.matrix’
egscore: no visible global function definition for ‘glm.fit’
egscore: no visible global function definition for ‘lm’
egscore: no visible global function definition for ‘flush.console’
egscore: no visible global function definition for ‘pchisq’
egscore: no visible global function definition for ‘new’
egscore.old: no visible global function definition for ‘is’
egscore.old: no visible global function definition for ‘as’
egscore.old: no visible global function definition for ‘model.frame’
egscore.old: no visible binding for global variable ‘na.omit’
egscore.old: no visible global function definition for ‘model.response’
egscore.old: no visible global function definition for ‘model.matrix’
egscore.old: no visible global function definition for ‘glm.fit’
egscore.old: no visible global function definition for ‘lm’
egscore.old: no visible global function definition for ‘flush.console’
egscore.old: no visible global function definition for ‘pchisq’
estLambdaKS: no visible global function definition for ‘optimize’
estlambda: no visible global function definition for ‘qchisq’
estlambda: no visible global function definition for ‘ppoints’
estlambda: no visible global function definition for ‘lm’
estlambda: no visible global function definition for ‘median’
estlambda: no visible global function definition for ‘par’
estlambda: no visible global function definition for ‘abline’
export.impute: no visible global function definition for ‘is’
export.impute: no visible global function definition for ‘write.table’
export.merlin: no visible global function definition for ‘is’
export.merlin: no visible global function definition for ‘new’
export.merlin: no visible global function definition for ‘write.table’
export.plink: no visible global function definition for ‘write.table’
extract.annotation.impute: no visible global function definition for
‘extract_text_file_columns’
extract.annotation.mach: no visible global function definition for
‘extract_text_file_columns’
fcc: no visible global function definition for ‘is’
fcc.new: no visible global function definition for ‘is’
findRelatives: no visible global function definition for ‘is’
findRelatives: no visible global function definition for
‘txtProgressBar’
findRelatives: no visible global function definition for
‘setTxtProgressBar’
formetascore: no visible global function definition for ‘is’
formetascore: no visible global function definition for ‘as’
formetascore: no visible global function definition for ‘model.frame’
formetascore: no visible binding for global variable ‘na.omit’
generateOffspring : genSOG: no visible global function definition for
‘runif’
generateOffspring : infer: no visible global function definition for
‘rbinom’
generateOffspring: no visible global function definition for ‘rbinom’
get.snp.distr.plot: no visible global function definition for ‘na.omit’
get.snp.distr.plot: no visible global function definition for ‘bitmap’
get.snp.distr.plot: no visible global function definition for ‘par’
get.snp.distr.plot: no visible global function definition for
‘bartlett.test’
get.snp.distr.plot: no visible global function definition for ‘boxplot’
get.snp.distr.plot: no visible global function definition for ‘plot’
get.snp.distr.plot: no visible global function definition for ‘density’
get.snp.distr.plot: no visible global function definition for ‘dev.off’
grammar: no visible global function definition for ‘pchisq’
grammar.old: no visible global function definition for ‘is’
grammar.old: no visible global function definition for ‘flush.console’
grammar.old: no visible global function definition for ‘pchisq’
hom: no visible global function definition for ‘is’
hom.old: no visible global function definition for ‘is’
ibs: no visible global function definition for ‘is’
ibs.old: no visible global function definition for ‘is’
imphetcheck: no visible global function definition for ‘is’
impute2databel: no visible global function definition for
‘get_temporary_file_name’
impute2databel: no visible global function definition for
‘text2databel’
impute2databel: no visible global function definition for
‘get_dimnames’
impute2databel: no visible global function definition for ‘apply2dfo’
impute2databel: no visible global function definition for ‘databel’
impute2databel: no visible global function definition for
‘set_dimnames<-’
impute2databel: no visible global function definition for ‘disconnect’
impute2mach: no visible global function definition for ‘write.table’
impute2mach: no visible global function definition for ‘get_dimnames’
impute2mach: no visible global function definition for ‘as’
impute2mach: no visible global function definition for ‘disconnect’
load.gwaa.data: no visible global function definition for ‘read.table’
load.gwaa.data: no visible global function definition for ‘new’
lossFunctionLambdaKS: no visible global function definition for
‘ks.test’
mach2databel: no visible global function definition for
‘get_temporary_file_name’
mach2databel: no visible global function definition for ‘text2databel’
mach2databel: no visible global function definition for ‘get_dimnames’
makeTransitionMatrix: no visible global function definition for ‘is’
merge.gwaa.data: no visible global function definition for ‘is’
merge.gwaa.data: no visible global function definition for ‘new’
merge.snp.data: no visible global function definition for ‘is’
merge.snp.data: no visible global function definition for ‘write.table’
merge.snp.data: no visible global function definition for ‘new’
minimac2databel: no visible global function definition for
‘get_temporary_file_name’
minimac2databel: no visible global function definition for
‘text2databel’
minimac2databel: no visible global function definition for
‘get_dimnames’
mlreg: no visible global function definition for ‘is’
mlreg: no visible global function definition for ‘model.matrix’
mlreg: no visible global function definition for ‘model.extract’
mlreg: no visible global function definition for ‘pchisq’
mlreg: no visible global function definition for ‘new’
mlreg.p: no visible global function definition for ‘is’
mlreg.p: no visible global function definition for ‘model.matrix’
mlreg.p: no visible global function definition for ‘model.extract’
mlreg.p: no visible global function definition for ‘pchisq’
mmscore: no visible global function definition for ‘is’
mmscore: no visible global function definition for ‘flush.console’
mmscore: no visible global function definition for ‘pchisq’
mmscore: no visible global function definition for ‘new’
palinear2LiLog: no visible global function definition for ‘read.table’
palinear2LiLog: no visible global function definition for ‘write.table’
patch_strand: no visible global function definition for ‘new’
perid.summary: no visible global function definition for ‘is’
plot.check.marker: no visible global function definition for ‘is’
plot.check.marker: no visible global function definition for ‘plot’
plot.check.marker: no visible global function definition for ‘text’
plot.check.marker: no visible global function definition for ‘lines’
plot.check.marker: no visible global function definition for ‘points’
plot.check.marker: no visible global function definition for ‘abline’
plot.check.marker: no visible global function definition for ‘rug’
plot.scan.gwaa: no visible global function definition for ‘is’
plot.scan.gwaa: no visible global function definition for ‘plot’
plot.scan.gwaa: no visible global function definition for ‘points’
plot.scan.gwaa: no visible global function definition for ‘axis’
plot.scan.gwaa.2D: no visible global function definition for ‘image’
polygenic: no visible global function definition for ‘is’
polygenic: no visible global function definition for ‘gaussian’
polygenic: no visible global function definition for ‘binomial’
polygenic: no visible global function definition for ‘as’
polygenic: no visible global function definition for ‘model.frame’
polygenic: no visible binding for global variable ‘na.omit’
polygenic: no visible global function definition for ‘as.formula’
polygenic: no visible global function definition for ‘model.response’
polygenic: no visible global function definition for ‘sd’
polygenic: no visible global function definition for ‘model.matrix’
polygenic: no visible global function definition for ‘glm’
polygenic: no visible global function definition for ‘var’
polygenic: no visible global function definition for ‘ginv’
polygenic: no visible global function definition for ‘flush.console’
polygenic: no visible global function definition for ‘nlm’
polygenic: no visible global function definition for ‘optim’
polygenic: no visible global function definition for ‘runif’
polygenic_hglm: no visible global function definition for ‘gaussian’
polygenic_hglm: no visible global function definition for ‘is’
polygenic_hglm: no visible global function definition for ‘as.formula’
polygenic_hglm: no visible global function definition for ‘model.frame’
polygenic_hglm: no visible binding for global variable ‘na.omit’
polygenic_hglm: no visible global function definition for
‘model.response’
polygenic_hglm: no visible global function definition for
‘model.matrix’
polygenic_hglm: no visible global function definition for ‘hglm’
polygenic_hglm: no visible global function definition for ‘ginv’
qqplot.plot: no visible global function definition for ‘na.omit’
qqplot.plot: no visible global function definition for ‘rchisq’
qqplot.plot: no visible global function definition for ‘bitmap’
qqplot.plot: no visible global function definition for ‘qqplot’
qqplot.plot: no visible global function definition for ‘abline’
qqplot.plot: no visible global function definition for ‘dev.off’
qqplot.plot: no visible global function definition for ‘pchisq’
qtscore: no visible global function definition for ‘is’
qtscore: no visible global function definition for ‘as’
qtscore: no visible global function definition for ‘model.frame’
qtscore: no visible binding for global variable ‘na.omit’
qtscore: no visible global function definition for ‘model.response’
qtscore: no visible global function definition for ‘gaussian’
qtscore: no visible global function definition for ‘binomial’
qtscore: no visible global function definition for ‘model.matrix’
qtscore: no visible global function definition for ‘glm.fit’
qtscore: no visible global function definition for ‘residuals’
qtscore: no visible global function definition for ‘txtProgressBar’
qtscore: no visible global function definition for ‘setTxtProgressBar’
qtscore: no visible global function definition for ‘pchisq’
qtscore: no visible global function definition for ‘new’
r2fast: no visible global function definition for ‘is’
r2fast.old: no visible global function definition for ‘is’
reconstructNPs: no visible global function definition for ‘is’
redundant: no visible global function definition for ‘is’
refresh.gwaa.data: no visible global function definition for ‘is’
refresh.gwaa.data: no visible global function definition for ‘new’
rhofast: no visible global function definition for ‘is’
rntransform: no visible binding for global variable ‘gaussian’
rntransform: no visible global function definition for ‘is’
rntransform: no visible global function definition for ‘as’
rntransform: no visible global function definition for ‘qnorm’
save.gwaa.data: no visible global function definition for ‘write.table’
save.snp.data: no visible global function definition for ‘is’
scan.glm: no visible global function definition for ‘gaussian’
scan.glm: no visible global function definition for ‘is’
scan.glm: no visible global function definition for ‘as.formula’
scan.glm: no visible global function definition for ‘glm’
scan.glm: no visible global function definition for ‘anova’
scan.glm: no visible global function definition for ‘lm’
scan.glm: no visible global function definition for ‘flush.console’
scan.glm: no visible global function definition for ‘median’
scan.glm: no visible global function definition for ‘qchisq’
scan.glm.2D: no visible global function definition for ‘gaussian’
scan.glm.2D: no visible global function definition for ‘is’
scan.glm.2D: no visible global function definition for ‘as.formula’
scan.glm.2D: no visible global function definition for ‘glm’
scan.glm.2D: no visible global function definition for ‘anova’
scan.glm.2D: no visible global function definition for ‘lm’
scan.glm.2D: no visible global function definition for ‘flush.console’
scan.glm.2D: no visible global function definition for ‘median’
scan.glm.2D: no visible global function definition for ‘qchisq’
scan.haplo: no visible global function definition for ‘is’
scan.haplo: no visible global function definition for ‘as.formula’
scan.haplo: no visible global function definition for
‘haplo.score.slide’
scan.haplo: no visible global function definition for ‘flush.console’
scan.haplo: no visible global function definition for ‘new’
scan.haplo.2D: no visible global function definition for ‘is’
scan.haplo.2D: no visible global function definition for ‘as.formula’
scan.haplo.2D: no visible global function definition for
‘haplo.score.slide’
scan.haplo.2D: no visible global function definition for
‘score.sim.control’
scan.haplo.2D: no visible global function definition for
‘flush.console’
show.ncbi: no visible global function definition for ‘browseURL’
show.ncbi: no visible global function definition for ‘is’
snp.data: no visible global function definition for ‘new’
snp.names: no visible global function definition for ‘is’
snp.names.gwaa.data: no visible global function definition for ‘is’
snp.subset: no visible global function definition for ‘is’
snp.subset.scan.gwaa: no visible global function definition for ‘new’
summary.snp.data: no visible global function definition for ‘is’
summary.snp.data: no visible global function definition for ‘pchisq’
summary.snp.data_old: no visible global function definition for ‘is’
summary.snp.data_old: no visible global function definition for
‘pchisq’
ztransform: no visible binding for global variable ‘gaussian’
ztransform: no visible global function definition for ‘is’
ztransform: no visible global function definition for ‘as’
ztransform: no visible global function definition for ‘model.frame’
ztransform: no visible binding for global variable ‘na.pass’
ztransform: no visible global function definition for ‘complete.cases’
ztransform: no visible global function definition for ‘model.response’
ztransform: no visible global function definition for ‘model.matrix’
ztransform: no visible global function definition for ‘glm.fit’
ztransform: no visible global function definition for ‘sd’
[,gwaa.data-ANY-ANY-ANY: no visible global function definition for
‘new’
[,snp.coding-ANY-missing-missing: no visible global function definition
for ‘new’
[,snp.data-ANY-ANY-ANY: no visible global function definition for ‘new’
[,snp.mx-ANY-ANY-ANY: no visible global function definition for ‘new’
[,snp.strand-ANY-missing-missing: no visible global function definition
for ‘new’
coding<-,snp.data: no visible global function definition for ‘new’
results,scan.gwaa: no visible global function definition for ‘pchisq’
show,gwaa.data: no visible global function definition for ‘show’
show,snp.data: no visible global function definition for ‘show’
Undefined global functions or variables:
abline anova apply2dfo as as.dist as.formula axis bartlett.test
binomial bitmap boxplot browseURL cmdscale complete.cases databel
density dev.off disconnect extract_text_file_columns fisher.test
flush.console gaussian genotype get_dimnames get_temporary_file_name
ginv glm glm.fit haplo.score.slide hglm image is kmeans kruskal.test
ks.test lines lm median model.extract model.frame model.matrix
model.response na.omit na.pass new nlm optim optimize par pchisq plot
points ppoints qchisq qnorm qqplot quantile qvalue rbinom rchisq
read.table residuals rug runif score.sim.control sd setTxtProgressBar
set_dimnames<- show t.test text text2databel txtProgressBar var
write.table
Consider adding
importFrom("grDevices", "bitmap", "dev.off")
importFrom("graphics", "abline", "axis", "boxplot", "image", "lines",
"par", "plot", "points", "rug", "text")
importFrom("methods", "as", "is", "new", "show")
importFrom("stats", "anova", "as.dist", "as.formula", "bartlett.test",
"binomial", "cmdscale", "complete.cases", "density",
"fisher.test", "gaussian", "glm", "glm.fit", "kmeans",
"kruskal.test", "ks.test", "lm", "median", "model.extract",
"model.frame", "model.matrix", "model.response", "na.omit",
"na.pass", "nlm", "optim", "optimize", "pchisq", "ppoints",
"qchisq", "qnorm", "qqplot", "quantile", "rbinom", "rchisq",
"residuals", "runif", "sd", "t.test", "var")
importFrom("utils", "browseURL", "flush.console", "read.table",
"setTxtProgressBar", "txtProgressBar", "write.table")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64
Version: 1.8-0
Check: line endings in Makefiles
Result: NOTE
Found the following Makefile(s) without a final LF:
inst/unitTests/Makefile
Some ‘make’ programs ignore lines not ending in LF.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.8-0
Check: compiled code
Result: NOTE
File ‘GenABEL/libs/GenABEL.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-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.8-0
Flags: --no-stop-on-test-error
Check: installed package size
Result: NOTE
installed size is 7.5Mb
sub-directories of 1Mb or more:
doc 2.3Mb
libs 4.3Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 1.8-0
Flags: --no-stop-on-test-error
Check: whether the namespace can be loaded with stated dependencies
Result: NOTE
Warning: no function found corresponding to methods exports from ‘GenABEL’ for: ‘show’
A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.
Probably some imports need to be declared in the NAMESPACE file.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang
Version: 1.8-0
Flags: --no-stop-on-test-error
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls in package code:
‘DatABEL’ ‘genetics’ ‘haplo.stats’ ‘hglm’ ‘qvalue’
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages in Depends field not imported from:
‘GenABEL.data’ ‘MASS’ ‘methods’
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-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang
Version: 1.8-0
Flags: --no-stop-on-test-error
Check: S3 generic/method consistency
Result: NOTE
Found the following apparent S3 methods exported but not registered:
as.character.snp.coding as.character.snp.strand merge.gwaa.data
merge.snp.data summary.snp.data_old
See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang
Version: 1.8-0
Flags: --no-stop-on-test-error
Check: R code for possible problems
Result: NOTE
GASurv: no visible global function definition for ‘is’
HWE.show: no visible global function definition for ‘is’
HWE.show: no visible global function definition for ‘pchisq’
LiLog: no visible global function definition for ‘binomial’
PGC: no visible global function definition for ‘median’
PGC: no visible global function definition for ‘qchisq’
PGC: no visible global function definition for ‘ppoints’
PGC: no visible global function definition for ‘quantile’
PGC : f2: no visible global function definition for ‘ks.test’
PGC : f2: no visible global function definition for ‘median’
PGC : f2: no visible global function definition for ‘qchisq’
PGC: no visible global function definition for ‘abline’
PGC: no visible global function definition for ‘lines’
VIFGC : Clust: no visible global function definition for ‘as.dist’
VIFGC : Clust: no visible global function definition for ‘cmdscale’
VIFGC : ClustN: no visible global function definition for ‘kmeans’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘ks.test’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘qchisq’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘median’
VIFGC : GC_VIF: no visible global function definition for ‘ks.test’
VIFGC : GC_VIF: no visible global function definition for ‘qchisq’
VIFGC : GC_VIF: no visible global function definition for ‘median’
VIFGC: no visible global function definition for ‘qchisq’
VIFGC: no visible global function definition for ‘median’
VIFGC: no visible global function definition for ‘ppoints’
VIFGC: no visible global function definition for ‘optimize’
VIFGC: no visible global function definition for ‘nlm’
VIFGC: no visible global function definition for ‘abline’
VIFGC: no visible global function definition for ‘lines’
VIFGC_ovdom : Clust: no visible global function definition for
‘as.dist’
VIFGC_ovdom : Clust: no visible global function definition for
‘cmdscale’
VIFGC_ovdom : ClustN: no visible global function definition for
‘kmeans’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘ks.test’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘qchisq’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘median’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘ks.test’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘qchisq’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘median’
VIFGC_ovdom: no visible global function definition for ‘qchisq’
VIFGC_ovdom: no visible global function definition for ‘ppoints’
VIFGC_ovdom: no visible global function definition for ‘optimize’
VIFGC_ovdom: no visible global function definition for ‘median’
VIFGC_ovdom: no visible global function definition for ‘nlm’
VIFGC_ovdom: no visible global function definition for ‘abline’
Xcheck: no visible global function definition for ‘is’
Xfix: no visible global function definition for ‘is’
Xfix.internal: no visible global function definition for ‘is’
add.phdata: no visible global function definition for ‘is’
add.plot: no visible global function definition for ‘is’
add.plot: no visible global function definition for ‘points’
add.plot: no visible global function definition for ‘image’
arrange_probabel_phe: no visible global function definition for
‘read.table’
arrange_probabel_phe: no visible global function definition for
‘databel’
arrange_probabel_phe: no visible global function definition for
‘write.table’
as.character.gwaa.data: no visible global function definition for ‘is’
as.character.snp.data: no visible global function definition for ‘is’
as.double.gwaa.data: no visible global function definition for ‘is’
as.double.snp.data: no visible global function definition for ‘is’
as.genotype.gwaa.data: no visible global function definition for ‘is’
as.genotype.snp.data: no visible global function definition for ‘is’
as.genotype.snp.data: no visible global function definition for
‘genotype’
as.hsgeno.gwaa.data: no visible global function definition for ‘is’
as.hsgeno.snp.data: no visible global function definition for ‘is’
as.raw.snp.data: no visible global function definition for ‘is’
as.raw.snp.mx: no visible global function definition for ‘is’
autosomal: no visible global function definition for ‘is’
blurGenotype: no visible global function definition for ‘is’
catable: no visible global function definition for ‘quantile’
catable: no visible global function definition for ‘is’
ccfast: no visible global function definition for ‘is’
ccfast: no visible global function definition for ‘flush.console’
ccfast: no visible global function definition for ‘pchisq’
ccfast: no visible global function definition for ‘new’
ccfast.new: no visible global function definition for ‘is’
check.marker: no visible global function definition for ‘is’
check.marker.internal: no visible global function definition for ‘is’
check.marker.internal: no visible global function definition for
‘flush.console’
check.marker.internal: no visible global function definition for
‘qvalue’
check.marker.internal: no visible global function definition for ‘sd’
check.marker.internal: no visible global function definition for
‘pchisq’
check.trait: no visible global function definition for ‘is’
checkphengen: no visible global function definition for ‘is’
cocohet: no visible global function definition for ‘is’
cocohet: no visible global function definition for ‘pchisq’
convert.snp.affymetrix: no visible global function definition for ‘is’
convert.snp.mach: no visible global function definition for
‘read.table’
convert.snp.mach: no visible global function definition for ‘new’
descriptives.marker: no visible global function definition for ‘is’
descriptives.marker: no visible global function definition for ‘sd’
descriptives.marker: no visible global function definition for
‘write.table’
descriptives.scan: no visible global function definition for ‘is’
descriptives.scan: no visible global function definition for
‘write.table’
descriptives.trait: no visible global function definition for ‘is’
descriptives.trait: no visible global function definition for ‘sd’
descriptives.trait: no visible global function definition for ‘t.test’
descriptives.trait: no visible global function definition for
‘kruskal.test’
descriptives.trait: no visible global function definition for
‘fisher.test’
descriptives.trait: no visible global function definition for
‘write.table’
dprfast: no visible global function definition for ‘is’
drop.out.points: no visible global function definition for ‘var’
dump.piece: no visible global function definition for ‘write.table’
egscore: no visible global function definition for ‘is’
egscore: no visible global function definition for ‘as’
egscore: no visible global function definition for ‘model.frame’
egscore: no visible binding for global variable ‘na.omit’
egscore: no visible global function definition for ‘model.response’
egscore: no visible global function definition for ‘model.matrix’
egscore: no visible global function definition for ‘glm.fit’
egscore: no visible global function definition for ‘lm’
egscore: no visible global function definition for ‘flush.console’
egscore: no visible global function definition for ‘pchisq’
egscore: no visible global function definition for ‘new’
egscore.old: no visible global function definition for ‘is’
egscore.old: no visible global function definition for ‘as’
egscore.old: no visible global function definition for ‘model.frame’
egscore.old: no visible binding for global variable ‘na.omit’
egscore.old: no visible global function definition for ‘model.response’
egscore.old: no visible global function definition for ‘model.matrix’
egscore.old: no visible global function definition for ‘glm.fit’
egscore.old: no visible global function definition for ‘lm’
egscore.old: no visible global function definition for ‘flush.console’
egscore.old: no visible global function definition for ‘pchisq’
estLambdaKS: no visible global function definition for ‘optimize’
estlambda: no visible global function definition for ‘qchisq’
estlambda: no visible global function definition for ‘ppoints’
estlambda: no visible global function definition for ‘lm’
estlambda: no visible global function definition for ‘median’
estlambda: no visible global function definition for ‘par’
estlambda: no visible global function definition for ‘abline’
export.impute: no visible global function definition for ‘is’
export.impute: no visible global function definition for ‘write.table’
export.merlin: no visible global function definition for ‘is’
export.merlin: no visible global function definition for ‘new’
export.merlin: no visible global function definition for ‘write.table’
export.plink: no visible global function definition for ‘write.table’
extract.annotation.impute: no visible global function definition for
‘extract_text_file_columns’
extract.annotation.mach: no visible global function definition for
‘extract_text_file_columns’
fcc: no visible global function definition for ‘is’
fcc.new: no visible global function definition for ‘is’
findRelatives: no visible global function definition for ‘is’
findRelatives: no visible global function definition for
‘txtProgressBar’
findRelatives: no visible global function definition for
‘setTxtProgressBar’
formetascore: no visible global function definition for ‘is’
formetascore: no visible global function definition for ‘as’
formetascore: no visible global function definition for ‘model.frame’
formetascore: no visible binding for global variable ‘na.omit’
generateOffspring : genSOG: no visible global function definition for
‘runif’
generateOffspring : infer: no visible global function definition for
‘rbinom’
generateOffspring: no visible global function definition for ‘rbinom’
get.snp.distr.plot: no visible global function definition for ‘na.omit’
get.snp.distr.plot: no visible global function definition for ‘bitmap’
get.snp.distr.plot: no visible global function definition for ‘par’
get.snp.distr.plot: no visible global function definition for
‘bartlett.test’
get.snp.distr.plot: no visible global function definition for ‘boxplot’
get.snp.distr.plot: no visible global function definition for ‘plot’
get.snp.distr.plot: no visible global function definition for ‘density’
get.snp.distr.plot: no visible global function definition for ‘dev.off’
grammar: no visible global function definition for ‘pchisq’
grammar.old: no visible global function definition for ‘is’
grammar.old: no visible global function definition for ‘flush.console’
grammar.old: no visible global function definition for ‘pchisq’
hom: no visible global function definition for ‘is’
hom.old: no visible global function definition for ‘is’
ibs: no visible global function definition for ‘is’
ibs.old: no visible global function definition for ‘is’
imphetcheck: no visible global function definition for ‘is’
impute2databel: no visible global function definition for
‘get_temporary_file_name’
impute2databel: no visible global function definition for
‘text2databel’
impute2databel: no visible global function definition for
‘get_dimnames’
impute2databel: no visible global function definition for ‘apply2dfo’
impute2databel: no visible global function definition for ‘databel’
impute2databel: no visible global function definition for
‘set_dimnames<-’
impute2databel: no visible global function definition for ‘disconnect’
impute2mach: no visible global function definition for ‘write.table’
impute2mach: no visible global function definition for ‘get_dimnames’
impute2mach: no visible global function definition for ‘as’
impute2mach: no visible global function definition for ‘disconnect’
load.gwaa.data: no visible global function definition for ‘read.table’
load.gwaa.data: no visible global function definition for ‘new’
lossFunctionLambdaKS: no visible global function definition for
‘ks.test’
mach2databel: no visible global function definition for
‘get_temporary_file_name’
mach2databel: no visible global function definition for ‘text2databel’
mach2databel: no visible global function definition for ‘get_dimnames’
makeTransitionMatrix: no visible global function definition for ‘is’
merge.gwaa.data: no visible global function definition for ‘is’
merge.gwaa.data: no visible global function definition for ‘new’
merge.snp.data: no visible global function definition for ‘is’
merge.snp.data: no visible global function definition for ‘write.table’
merge.snp.data: no visible global function definition for ‘new’
minimac2databel: no visible global function definition for
‘get_temporary_file_name’
minimac2databel: no visible global function definition for
‘text2databel’
minimac2databel: no visible global function definition for
‘get_dimnames’
mlreg: no visible global function definition for ‘is’
mlreg: no visible global function definition for ‘model.matrix’
mlreg: no visible global function definition for ‘model.extract’
mlreg: no visible global function definition for ‘pchisq’
mlreg: no visible global function definition for ‘new’
mlreg.p: no visible global function definition for ‘is’
mlreg.p: no visible global function definition for ‘model.matrix’
mlreg.p: no visible global function definition for ‘model.extract’
mlreg.p: no visible global function definition for ‘pchisq’
mmscore: no visible global function definition for ‘is’
mmscore: no visible global function definition for ‘flush.console’
mmscore: no visible global function definition for ‘pchisq’
mmscore: no visible global function definition for ‘new’
palinear2LiLog: no visible global function definition for ‘read.table’
palinear2LiLog: no visible global function definition for ‘write.table’
patch_strand: no visible global function definition for ‘new’
perid.summary: no visible global function definition for ‘is’
plot.check.marker: no visible global function definition for ‘is’
plot.check.marker: no visible global function definition for ‘plot’
plot.check.marker: no visible global function definition for ‘text’
plot.check.marker: no visible global function definition for ‘lines’
plot.check.marker: no visible global function definition for ‘points’
plot.check.marker: no visible global function definition for ‘abline’
plot.check.marker: no visible global function definition for ‘rug’
plot.scan.gwaa: no visible global function definition for ‘is’
plot.scan.gwaa: no visible global function definition for ‘plot’
plot.scan.gwaa: no visible global function definition for ‘points’
plot.scan.gwaa: no visible global function definition for ‘axis’
plot.scan.gwaa.2D: no visible global function definition for ‘image’
polygenic: no visible global function definition for ‘is’
polygenic: no visible global function definition for ‘gaussian’
polygenic: no visible global function definition for ‘binomial’
polygenic: no visible global function definition for ‘as’
polygenic: no visible global function definition for ‘model.frame’
polygenic: no visible binding for global variable ‘na.omit’
polygenic: no visible global function definition for ‘as.formula’
polygenic: no visible global function definition for ‘model.response’
polygenic: no visible global function definition for ‘sd’
polygenic: no visible global function definition for ‘model.matrix’
polygenic: no visible global function definition for ‘glm’
polygenic: no visible global function definition for ‘var’
polygenic: no visible global function definition for ‘ginv’
polygenic: no visible global function definition for ‘flush.console’
polygenic: no visible global function definition for ‘nlm’
polygenic: no visible global function definition for ‘optim’
polygenic: no visible global function definition for ‘runif’
polygenic_hglm: no visible global function definition for ‘gaussian’
polygenic_hglm: no visible global function definition for ‘is’
polygenic_hglm: no visible global function definition for ‘as.formula’
polygenic_hglm: no visible global function definition for ‘model.frame’
polygenic_hglm: no visible binding for global variable ‘na.omit’
polygenic_hglm: no visible global function definition for
‘model.response’
polygenic_hglm: no visible global function definition for
‘model.matrix’
polygenic_hglm: no visible global function definition for ‘hglm’
polygenic_hglm: no visible global function definition for ‘ginv’
qqplot.plot: no visible global function definition for ‘na.omit’
qqplot.plot: no visible global function definition for ‘rchisq’
qqplot.plot: no visible global function definition for ‘bitmap’
qqplot.plot: no visible global function definition for ‘qqplot’
qqplot.plot: no visible global function definition for ‘abline’
qqplot.plot: no visible global function definition for ‘dev.off’
qqplot.plot: no visible global function definition for ‘pchisq’
qtscore: no visible global function definition for ‘is’
qtscore: no visible global function definition for ‘as’
qtscore: no visible global function definition for ‘model.frame’
qtscore: no visible binding for global variable ‘na.omit’
qtscore: no visible global function definition for ‘model.response’
qtscore: no visible global function definition for ‘gaussian’
qtscore: no visible global function definition for ‘binomial’
qtscore: no visible global function definition for ‘model.matrix’
qtscore: no visible global function definition for ‘glm.fit’
qtscore: no visible global function definition for ‘residuals’
qtscore: no visible global function definition for ‘txtProgressBar’
qtscore: no visible global function definition for ‘setTxtProgressBar’
qtscore: no visible global function definition for ‘pchisq’
qtscore: no visible global function definition for ‘new’
r2fast: no visible global function definition for ‘is’
r2fast.old: no visible global function definition for ‘is’
reconstructNPs: no visible global function definition for ‘is’
redundant: no visible global function definition for ‘is’
refresh.gwaa.data: no visible global function definition for ‘is’
refresh.gwaa.data: no visible global function definition for ‘new’
rhofast: no visible global function definition for ‘is’
rntransform: no visible binding for global variable ‘gaussian’
rntransform: no visible global function definition for ‘is’
rntransform: no visible global function definition for ‘as’
rntransform: no visible global function definition for ‘qnorm’
save.gwaa.data: no visible global function definition for ‘write.table’
save.snp.data: no visible global function definition for ‘is’
scan.glm: no visible global function definition for ‘gaussian’
scan.glm: no visible global function definition for ‘is’
scan.glm: no visible global function definition for ‘as.formula’
scan.glm: no visible global function definition for ‘glm’
scan.glm: no visible global function definition for ‘anova’
scan.glm: no visible global function definition for ‘lm’
scan.glm: no visible global function definition for ‘flush.console’
scan.glm: no visible global function definition for ‘median’
scan.glm: no visible global function definition for ‘qchisq’
scan.glm.2D: no visible global function definition for ‘gaussian’
scan.glm.2D: no visible global function definition for ‘is’
scan.glm.2D: no visible global function definition for ‘as.formula’
scan.glm.2D: no visible global function definition for ‘glm’
scan.glm.2D: no visible global function definition for ‘anova’
scan.glm.2D: no visible global function definition for ‘lm’
scan.glm.2D: no visible global function definition for ‘flush.console’
scan.glm.2D: no visible global function definition for ‘median’
scan.glm.2D: no visible global function definition for ‘qchisq’
scan.haplo: no visible global function definition for ‘is’
scan.haplo: no visible global function definition for ‘as.formula’
scan.haplo: no visible global function definition for
‘haplo.score.slide’
scan.haplo: no visible global function definition for ‘flush.console’
scan.haplo: no visible global function definition for ‘new’
scan.haplo.2D: no visible global function definition for ‘is’
scan.haplo.2D: no visible global function definition for ‘as.formula’
scan.haplo.2D: no visible global function definition for
‘haplo.score.slide’
scan.haplo.2D: no visible global function definition for
‘score.sim.control’
scan.haplo.2D: no visible global function definition for
‘flush.console’
show.ncbi: no visible global function definition for ‘browseURL’
show.ncbi: no visible global function definition for ‘is’
snp.data: no visible global function definition for ‘new’
snp.names: no visible global function definition for ‘is’
snp.names.gwaa.data: no visible global function definition for ‘is’
snp.subset: no visible global function definition for ‘is’
snp.subset.scan.gwaa: no visible global function definition for ‘new’
summary.snp.data: no visible global function definition for ‘is’
summary.snp.data: no visible global function definition for ‘pchisq’
summary.snp.data_old: no visible global function definition for ‘is’
summary.snp.data_old: no visible global function definition for
‘pchisq’
ztransform: no visible binding for global variable ‘gaussian’
ztransform: no visible global function definition for ‘is’
ztransform: no visible global function definition for ‘as’
ztransform: no visible global function definition for ‘model.frame’
ztransform: no visible binding for global variable ‘na.pass’
ztransform: no visible global function definition for ‘complete.cases’
ztransform: no visible global function definition for ‘model.response’
ztransform: no visible global function definition for ‘model.matrix’
ztransform: no visible global function definition for ‘glm.fit’
ztransform: no visible global function definition for ‘sd’
[,gwaa.data-ANY-ANY-ANY: no visible global function definition for
‘new’
[,snp.coding-ANY-missing-missing: no visible global function definition
for ‘new’
[,snp.data-ANY-ANY-ANY: no visible global function definition for ‘new’
[,snp.mx-ANY-ANY-ANY: no visible global function definition for ‘new’
[,snp.strand-ANY-missing-missing: no visible global function definition
for ‘new’
coding<-,snp.data: no visible global function definition for ‘new’
results,scan.gwaa: no visible global function definition for ‘pchisq’
show,gwaa.data: no visible global function definition for ‘show’
show,snp.data: no visible global function definition for ‘show’
Undefined global functions or variables:
abline anova apply2dfo as as.dist as.formula axis bartlett.test
binomial bitmap boxplot browseURL cmdscale complete.cases databel
density dev.off disconnect extract_text_file_columns fisher.test
flush.console gaussian genotype get_dimnames get_temporary_file_name
ginv glm glm.fit haplo.score.slide hglm image is kmeans kruskal.test
ks.test lines lm median model.extract model.frame model.matrix
model.response na.omit na.pass new nlm optim optimize par pchisq plot
points ppoints qchisq qnorm qqplot quantile qvalue rbinom rchisq
read.table residuals rug runif score.sim.control sd setTxtProgressBar
set_dimnames<- show t.test text text2databel txtProgressBar var
write.table
Consider adding
importFrom("grDevices", "bitmap", "dev.off")
importFrom("graphics", "abline", "axis", "boxplot", "image", "lines",
"par", "plot", "points", "rug", "text")
importFrom("methods", "as", "is", "new", "show")
importFrom("stats", "anova", "as.dist", "as.formula", "bartlett.test",
"binomial", "cmdscale", "complete.cases", "density",
"fisher.test", "gaussian", "glm", "glm.fit", "kmeans",
"kruskal.test", "ks.test", "lm", "median", "model.extract",
"model.frame", "model.matrix", "model.response", "na.omit",
"na.pass", "nlm", "optim", "optimize", "pchisq", "ppoints",
"qchisq", "qnorm", "qqplot", "quantile", "rbinom", "rchisq",
"residuals", "runif", "sd", "t.test", "var")
importFrom("utils", "browseURL", "flush.console", "read.table",
"setTxtProgressBar", "txtProgressBar", "write.table")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang
Version: 1.8-0
Flags: --no-stop-on-test-error
Check: line endings in Makefiles
Result: NOTE
Found the following Makefile(s) without a final LF:
inst/unitTests/Makefile
Some ‘make’ programs ignore lines not ending in LF.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang
Version: 1.8-0
Flags: --no-stop-on-test-error
Check: compiled code
Result: NOTE
File ‘GenABEL/libs/GenABEL.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, r-devel-macos-x86_64-clang
Version: 1.8-0
Check: installed package size
Result: NOTE
installed size is 5.5Mb
sub-directories of 1Mb or more:
doc 2.2Mb
libs 2.3Mb
Flavors: r-devel-windows-ix86+x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.8-0
Flags: --no-examples
Check: whether the namespace can be loaded with stated dependencies
Result: NOTE
Warning: no function found corresponding to methods exports from ‘GenABEL’ for: ‘show’
A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.
Probably some imports need to be declared in the NAMESPACE file.
Flavor: r-patched-solaris-sparc
Version: 1.8-0
Flags: --no-examples
Check: dependencies in R code
Result: NOTE
'library' or 'require' calls in package code:
‘DatABEL’ ‘genetics’ ‘haplo.stats’ ‘hglm’ ‘qvalue’
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
Packages in Depends field not imported from:
‘GenABEL.data’ ‘MASS’ ‘methods’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
Flavor: r-patched-solaris-sparc
Version: 1.8-0
Flags: --no-examples
Check: S3 generic/method consistency
Result: NOTE
Found the following apparent S3 methods exported but not registered:
as.character.snp.coding as.character.snp.strand merge.gwaa.data
merge.snp.data summary.snp.data_old
See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
manual.
Flavor: r-patched-solaris-sparc
Version: 1.8-0
Flags: --no-examples
Check: R code for possible problems
Result: NOTE
GASurv: no visible global function definition for ‘is’
HWE.show: no visible global function definition for ‘is’
HWE.show: no visible global function definition for ‘pchisq’
LiLog: no visible global function definition for ‘binomial’
PGC: no visible global function definition for ‘median’
PGC: no visible global function definition for ‘qchisq’
PGC: no visible global function definition for ‘ppoints’
PGC: no visible global function definition for ‘quantile’
PGC : f2: no visible global function definition for ‘ks.test’
PGC : f2: no visible global function definition for ‘median’
PGC : f2: no visible global function definition for ‘qchisq’
PGC: no visible global function definition for ‘abline’
PGC: no visible global function definition for ‘lines’
VIFGC : Clust: no visible global function definition for ‘as.dist’
VIFGC : Clust: no visible global function definition for ‘cmdscale’
VIFGC : ClustN: no visible global function definition for ‘kmeans’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘ks.test’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘qchisq’
VIFGC : GC_VIF_nlm: no visible global function definition for ‘median’
VIFGC : GC_VIF: no visible global function definition for ‘ks.test’
VIFGC : GC_VIF: no visible global function definition for ‘qchisq’
VIFGC : GC_VIF: no visible global function definition for ‘median’
VIFGC: no visible global function definition for ‘qchisq’
VIFGC: no visible global function definition for ‘median’
VIFGC: no visible global function definition for ‘ppoints’
VIFGC: no visible global function definition for ‘optimize’
VIFGC: no visible global function definition for ‘nlm’
VIFGC: no visible global function definition for ‘abline’
VIFGC: no visible global function definition for ‘lines’
VIFGC_ovdom : Clust: no visible global function definition for
‘as.dist’
VIFGC_ovdom : Clust: no visible global function definition for
‘cmdscale’
VIFGC_ovdom : ClustN: no visible global function definition for
‘kmeans’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘ks.test’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘qchisq’
VIFGC_ovdom : GC_VIF_nlm: no visible global function definition for
‘median’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘ks.test’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘qchisq’
VIFGC_ovdom : GC_VIF: no visible global function definition for
‘median’
VIFGC_ovdom: no visible global function definition for ‘qchisq’
VIFGC_ovdom: no visible global function definition for ‘ppoints’
VIFGC_ovdom: no visible global function definition for ‘optimize’
VIFGC_ovdom: no visible global function definition for ‘median’
VIFGC_ovdom: no visible global function definition for ‘nlm’
VIFGC_ovdom: no visible global function definition for ‘abline’
Xcheck: no visible global function definition for ‘is’
Xfix: no visible global function definition for ‘is’
Xfix.internal: no visible global function definition for ‘is’
add.phdata: no visible global function definition for ‘is’
add.plot: no visible global function definition for ‘is’
add.plot: no visible global function definition for ‘points’
add.plot: no visible global function definition for ‘image’
arrange_probabel_phe: no visible global function definition for
‘read.table’
arrange_probabel_phe: no visible global function definition for
‘databel’
arrange_probabel_phe: no visible global function definition for
‘write.table’
as.character.gwaa.data: no visible global function definition for ‘is’
as.character.snp.data: no visible global function definition for ‘is’
as.double.gwaa.data: no visible global function definition for ‘is’
as.double.snp.data: no visible global function definition for ‘is’
as.genotype.gwaa.data: no visible global function definition for ‘is’
as.genotype.snp.data: no visible global function definition for ‘is’
as.genotype.snp.data: no visible global function definition for
‘genotype’
as.hsgeno.gwaa.data: no visible global function definition for ‘is’
as.hsgeno.snp.data: no visible global function definition for ‘is’
as.raw.snp.data: no visible global function definition for ‘is’
as.raw.snp.mx: no visible global function definition for ‘is’
autosomal: no visible global function definition for ‘is’
blurGenotype: no visible global function definition for ‘is’
catable: no visible global function definition for ‘quantile’
catable: no visible global function definition for ‘is’
ccfast: no visible global function definition for ‘is’
ccfast: no visible global function definition for ‘flush.console’
ccfast: no visible global function definition for ‘pchisq’
ccfast: no visible global function definition for ‘new’
ccfast.new: no visible global function definition for ‘is’
check.marker: no visible global function definition for ‘is’
check.marker.internal: no visible global function definition for ‘is’
check.marker.internal: no visible global function definition for
‘flush.console’
check.marker.internal: no visible global function definition for
‘qvalue’
check.marker.internal: no visible global function definition for ‘sd’
check.marker.internal: no visible global function definition for
‘pchisq’
check.trait: no visible global function definition for ‘is’
checkphengen: no visible global function definition for ‘is’
cocohet: no visible global function definition for ‘is’
cocohet: no visible global function definition for ‘pchisq’
convert.snp.affymetrix: no visible global function definition for ‘is’
convert.snp.mach: no visible global function definition for
‘read.table’
convert.snp.mach: no visible global function definition for ‘new’
descriptives.marker: no visible global function definition for ‘is’
descriptives.marker: no visible global function definition for ‘sd’
descriptives.marker: no visible global function definition for
‘write.table’
descriptives.scan: no visible global function definition for ‘is’
descriptives.scan: no visible global function definition for
‘write.table’
descriptives.trait: no visible global function definition for ‘is’
descriptives.trait: no visible global function definition for ‘sd’
descriptives.trait: no visible global function definition for ‘t.test’
descriptives.trait: no visible global function definition for
‘kruskal.test’
descriptives.trait: no visible global function definition for
‘fisher.test’
descriptives.trait: no visible global function definition for
‘write.table’
dprfast: no visible global function definition for ‘is’
drop.out.points: no visible global function definition for ‘var’
dump.piece: no visible global function definition for ‘write.table’
egscore: no visible global function definition for ‘is’
egscore: no visible global function definition for ‘as’
egscore: no visible global function definition for ‘model.frame’
egscore: no visible binding for global variable ‘na.omit’
egscore: no visible global function definition for ‘model.response’
egscore: no visible global function definition for ‘model.matrix’
egscore: no visible global function definition for ‘glm.fit’
egscore: no visible global function definition for ‘lm’
egscore: no visible global function definition for ‘flush.console’
egscore: no visible global function definition for ‘pchisq’
egscore: no visible global function definition for ‘new’
egscore.old: no visible global function definition for ‘is’
egscore.old: no visible global function definition for ‘as’
egscore.old: no visible global function definition for ‘model.frame’
egscore.old: no visible binding for global variable ‘na.omit’
egscore.old: no visible global function definition for ‘model.response’
egscore.old: no visible global function definition for ‘model.matrix’
egscore.old: no visible global function definition for ‘glm.fit’
egscore.old: no visible global function definition for ‘lm’
egscore.old: no visible global function definition for ‘flush.console’
egscore.old: no visible global function definition for ‘pchisq’
estLambdaKS: no visible global function definition for ‘optimize’
estlambda: no visible global function definition for ‘qchisq’
estlambda: no visible global function definition for ‘ppoints’
estlambda: no visible global function definition for ‘lm’
estlambda: no visible global function definition for ‘median’
estlambda: no visible global function definition for ‘par’
estlambda: no visible global function definition for ‘abline’
export.impute: no visible global function definition for ‘is’
export.impute: no visible global function definition for ‘write.table’
export.merlin: no visible global function definition for ‘is’
export.merlin: no visible global function definition for ‘new’
export.merlin: no visible global function definition for ‘write.table’
export.plink: no visible global function definition for ‘write.table’
extract.annotation.impute: no visible global function definition for
‘extract_text_file_columns’
extract.annotation.mach: no visible global function definition for
‘extract_text_file_columns’
fcc: no visible global function definition for ‘is’
fcc.new: no visible global function definition for ‘is’
findRelatives: no visible global function definition for ‘is’
findRelatives: no visible global function definition for
‘txtProgressBar’
findRelatives: no visible global function definition for
‘setTxtProgressBar’
formetascore: no visible global function definition for ‘is’
formetascore: no visible global function definition for ‘as’
formetascore: no visible global function definition for ‘model.frame’
formetascore: no visible binding for global variable ‘na.omit’
generateOffspring : genSOG: no visible global function definition for
‘runif’
generateOffspring : infer: no visible global function definition for
‘rbinom’
generateOffspring: no visible global function definition for ‘rbinom’
get.snp.distr.plot: no visible global function definition for ‘na.omit’
get.snp.distr.plot: no visible global function definition for ‘bitmap’
get.snp.distr.plot: no visible global function definition for ‘par’
get.snp.distr.plot: no visible global function definition for
‘bartlett.test’
get.snp.distr.plot: no visible global function definition for ‘boxplot’
get.snp.distr.plot: no visible global function definition for ‘plot’
get.snp.distr.plot: no visible global function definition for ‘density’
get.snp.distr.plot: no visible global function definition for ‘dev.off’
grammar: no visible global function definition for ‘pchisq’
grammar.old: no visible global function definition for ‘is’
grammar.old: no visible global function definition for ‘flush.console’
grammar.old: no visible global function definition for ‘pchisq’
hom: no visible global function definition for ‘is’
hom.old: no visible global function definition for ‘is’
ibs: no visible global function definition for ‘is’
ibs.old: no visible global function definition for ‘is’
imphetcheck: no visible global function definition for ‘is’
impute2databel: no visible global function definition for
‘get_temporary_file_name’
impute2databel: no visible global function definition for
‘text2databel’
impute2databel: no visible global function definition for
‘get_dimnames’
impute2databel: no visible global function definition for ‘apply2dfo’
impute2databel: no visible global function definition for ‘databel’
impute2databel: no visible global function definition for
‘set_dimnames<-’
impute2databel: no visible global function definition for ‘disconnect’
impute2mach: no visible global function definition for ‘write.table’
impute2mach: no visible global function definition for ‘get_dimnames’
impute2mach: no visible global function definition for ‘as’
impute2mach: no visible global function definition for ‘disconnect’
load.gwaa.data: no visible global function definition for ‘read.table’
load.gwaa.data: no visible global function definition for ‘new’
lossFunctionLambdaKS: no visible global function definition for
‘ks.test’
mach2databel: no visible global function definition for
‘get_temporary_file_name’
mach2databel: no visible global function definition for ‘text2databel’
mach2databel: no visible global function definition for ‘get_dimnames’
makeTransitionMatrix: no visible global function definition for ‘is’
merge.gwaa.data: no visible global function definition for ‘is’
merge.gwaa.data: no visible global function definition for ‘new’
merge.snp.data: no visible global function definition for ‘is’
merge.snp.data: no visible global function definition for ‘write.table’
merge.snp.data: no visible global function definition for ‘new’
minimac2databel: no visible global function definition for
‘get_temporary_file_name’
minimac2databel: no visible global function definition for
‘text2databel’
minimac2databel: no visible global function definition for
‘get_dimnames’
mlreg: no visible global function definition for ‘is’
mlreg: no visible global function definition for ‘model.matrix’
mlreg: no visible global function definition for ‘model.extract’
mlreg: no visible global function definition for ‘pchisq’
mlreg: no visible global function definition for ‘new’
mlreg.p: no visible global function definition for ‘is’
mlreg.p: no visible global function definition for ‘model.matrix’
mlreg.p: no visible global function definition for ‘model.extract’
mlreg.p: no visible global function definition for ‘pchisq’
mmscore: no visible global function definition for ‘is’
mmscore: no visible global function definition for ‘flush.console’
mmscore: no visible global function definition for ‘pchisq’
mmscore: no visible global function definition for ‘new’
palinear2LiLog: no visible global function definition for ‘read.table’
palinear2LiLog: no visible global function definition for ‘write.table’
patch_strand: no visible global function definition for ‘new’
perid.summary: no visible global function definition for ‘is’
plot.check.marker: no visible global function definition for ‘is’
plot.check.marker: no visible global function definition for ‘plot’
plot.check.marker: no visible global function definition for ‘text’
plot.check.marker: no visible global function definition for ‘lines’
plot.check.marker: no visible global function definition for ‘points’
plot.check.marker: no visible global function definition for ‘abline’
plot.check.marker: no visible global function definition for ‘rug’
plot.scan.gwaa: no visible global function definition for ‘is’
plot.scan.gwaa: no visible global function definition for ‘plot’
plot.scan.gwaa: no visible global function definition for ‘points’
plot.scan.gwaa: no visible global function definition for ‘axis’
plot.scan.gwaa.2D: no visible global function definition for ‘image’
polygenic: no visible global function definition for ‘is’
polygenic: no visible global function definition for ‘gaussian’
polygenic: no visible global function definition for ‘binomial’
polygenic: no visible global function definition for ‘as’
polygenic: no visible global function definition for ‘model.frame’
polygenic: no visible binding for global variable ‘na.omit’
polygenic: no visible global function definition for ‘as.formula’
polygenic: no visible global function definition for ‘model.response’
polygenic: no visible global function definition for ‘sd’
polygenic: no visible global function definition for ‘model.matrix’
polygenic: no visible global function definition for ‘glm’
polygenic: no visible global function definition for ‘var’
polygenic: no visible global function definition for ‘ginv’
polygenic: no visible global function definition for ‘flush.console’
polygenic: no visible global function definition for ‘nlm’
polygenic: no visible global function definition for ‘optim’
polygenic: no visible global function definition for ‘runif’
polygenic_hglm: no visible global function definition for ‘gaussian’
polygenic_hglm: no visible global function definition for ‘is’
polygenic_hglm: no visible global function definition for ‘as.formula’
polygenic_hglm: no visible global function definition for ‘model.frame’
polygenic_hglm: no visible binding for global variable ‘na.omit’
polygenic_hglm: no visible global function definition for
‘model.response’
polygenic_hglm: no visible global function definition for
‘model.matrix’
polygenic_hglm: no visible global function definition for ‘hglm’
polygenic_hglm: no visible global function definition for ‘ginv’
qqplot.plot: no visible global function definition for ‘na.omit’
qqplot.plot: no visible global function definition for ‘rchisq’
qqplot.plot: no visible global function definition for ‘bitmap’
qqplot.plot: no visible global function definition for ‘qqplot’
qqplot.plot: no visible global function definition for ‘abline’
qqplot.plot: no visible global function definition for ‘dev.off’
qqplot.plot: no visible global function definition for ‘pchisq’
qtscore: no visible global function definition for ‘is’
qtscore: no visible global function definition for ‘as’
qtscore: no visible global function definition for ‘model.frame’
qtscore: no visible binding for global variable ‘na.omit’
qtscore: no visible global function definition for ‘model.response’
qtscore: no visible global function definition for ‘gaussian’
qtscore: no visible global function definition for ‘binomial’
qtscore: no visible global function definition for ‘model.matrix’
qtscore: no visible global function definition for ‘glm.fit’
qtscore: no visible global function definition for ‘residuals’
qtscore: no visible global function definition for ‘txtProgressBar’
qtscore: no visible global function definition for ‘setTxtProgressBar’
qtscore: no visible global function definition for ‘pchisq’
qtscore: no visible global function definition for ‘new’
r2fast: no visible global function definition for ‘is’
r2fast.old: no visible global function definition for ‘is’
reconstructNPs: no visible global function definition for ‘is’
redundant: no visible global function definition for ‘is’
refresh.gwaa.data: no visible global function definition for ‘is’
refresh.gwaa.data: no visible global function definition for ‘new’
rhofast: no visible global function definition for ‘is’
rntransform: no visible binding for global variable ‘gaussian’
rntransform: no visible global function definition for ‘is’
rntransform: no visible global function definition for ‘as’
rntransform: no visible global function definition for ‘qnorm’
save.gwaa.data: no visible global function definition for ‘write.table’
save.snp.data: no visible global function definition for ‘is’
scan.glm: no visible global function definition for ‘gaussian’
scan.glm: no visible global function definition for ‘is’
scan.glm: no visible global function definition for ‘as.formula’
scan.glm: no visible global function definition for ‘glm’
scan.glm: no visible global function definition for ‘anova’
scan.glm: no visible global function definition for ‘lm’
scan.glm: no visible global function definition for ‘flush.console’
scan.glm: no visible global function definition for ‘median’
scan.glm: no visible global function definition for ‘qchisq’
scan.glm.2D: no visible global function definition for ‘gaussian’
scan.glm.2D: no visible global function definition for ‘is’
scan.glm.2D: no visible global function definition for ‘as.formula’
scan.glm.2D: no visible global function definition for ‘glm’
scan.glm.2D: no visible global function definition for ‘anova’
scan.glm.2D: no visible global function definition for ‘lm’
scan.glm.2D: no visible global function definition for ‘flush.console’
scan.glm.2D: no visible global function definition for ‘median’
scan.glm.2D: no visible global function definition for ‘qchisq’
scan.haplo: no visible global function definition for ‘is’
scan.haplo: no visible global function definition for ‘as.formula’
scan.haplo: no visible global function definition for
‘haplo.score.slide’
scan.haplo: no visible global function definition for ‘flush.console’
scan.haplo: no visible global function definition for ‘new’
scan.haplo.2D: no visible global function definition for ‘is’
scan.haplo.2D: no visible global function definition for ‘as.formula’
scan.haplo.2D: no visible global function definition for
‘haplo.score.slide’
scan.haplo.2D: no visible global function definition for
‘score.sim.control’
scan.haplo.2D: no visible global function definition for
‘flush.console’
show.ncbi: no visible global function definition for ‘browseURL’
show.ncbi: no visible global function definition for ‘is’
snp.data: no visible global function definition for ‘new’
snp.names: no visible global function definition for ‘is’
snp.names.gwaa.data: no visible global function definition for ‘is’
snp.subset: no visible global function definition for ‘is’
snp.subset.scan.gwaa: no visible global function definition for ‘new’
summary.snp.data: no visible global function definition for ‘is’
summary.snp.data: no visible global function definition for ‘pchisq’
summary.snp.data_old: no visible global function definition for ‘is’
summary.snp.data_old: no visible global function definition for
‘pchisq’
ztransform: no visible binding for global variable ‘gaussian’
ztransform: no visible global function definition for ‘is’
ztransform: no visible global function definition for ‘as’
ztransform: no visible global function definition for ‘model.frame’
ztransform: no visible binding for global variable ‘na.pass’
ztransform: no visible global function definition for ‘complete.cases’
ztransform: no visible global function definition for ‘model.response’
ztransform: no visible global function definition for ‘model.matrix’
ztransform: no visible global function definition for ‘glm.fit’
ztransform: no visible global function definition for ‘sd’
[,gwaa.data-ANY-ANY-ANY: no visible global function definition for
‘new’
[,snp.coding-ANY-missing-missing: no visible global function definition
for ‘new’
[,snp.data-ANY-ANY-ANY: no visible global function definition for ‘new’
[,snp.mx-ANY-ANY-ANY: no visible global function definition for ‘new’
[,snp.strand-ANY-missing-missing: no visible global function definition
for ‘new’
coding<-,snp.data: no visible global function definition for ‘new’
results,scan.gwaa: no visible global function definition for ‘pchisq’
show,gwaa.data: no visible global function definition for ‘show’
show,snp.data: no visible global function definition for ‘show’
Undefined global functions or variables:
abline anova apply2dfo as as.dist as.formula axis bartlett.test
binomial bitmap boxplot browseURL cmdscale complete.cases databel
density dev.off disconnect extract_text_file_columns fisher.test
flush.console gaussian genotype get_dimnames get_temporary_file_name
ginv glm glm.fit haplo.score.slide hglm image is kmeans kruskal.test
ks.test lines lm median model.extract model.frame model.matrix
model.response na.omit na.pass new nlm optim optimize par pchisq plot
points ppoints qchisq qnorm qqplot quantile qvalue rbinom rchisq
read.table residuals rug runif score.sim.control sd setTxtProgressBar
set_dimnames<- show t.test text text2databel txtProgressBar var
write.table
Consider adding
importFrom("grDevices", "bitmap", "dev.off")
importFrom("graphics", "abline", "axis", "boxplot", "image", "lines",
"par", "plot", "points", "rug", "text")
importFrom("methods", "as", "is", "new", "show")
importFrom("stats", "anova", "as.dist", "as.formula", "bartlett.test",
"binomial", "cmdscale", "complete.cases", "density",
"fisher.test", "gaussian", "glm", "glm.fit", "kmeans",
"kruskal.test", "ks.test", "lm", "median", "model.extract",
"model.frame", "model.matrix", "model.response", "na.omit",
"na.pass", "nlm", "optim", "optimize", "pchisq", "ppoints",
"qchisq", "qnorm", "qqplot", "quantile", "rbinom", "rchisq",
"residuals", "runif", "sd", "t.test", "var")
importFrom("utils", "browseURL", "flush.console", "read.table",
"setTxtProgressBar", "txtProgressBar", "write.table")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
Flavor: r-patched-solaris-sparc
Version: 1.8-0
Flags: --no-examples
Check: line endings in Makefiles
Result: NOTE
Found the following Makefile(s) without a final LF:
inst/unitTests/Makefile
Some ‘make’ programs ignore lines not ending in LF.
Flavor: r-patched-solaris-sparc
Version: 1.8-0
Check: R code for possible problems
Result: NOTE
arrange_probabel_phe: no visible global function definition for
'databel'
as.genotype.snp.data: no visible global function definition for
'genotype'
check.marker.internal: no visible global function definition for
'qvalue'
extract.annotation.impute: no visible global function definition for
'extract_text_file_columns'
extract.annotation.mach: no visible global function definition for
'extract_text_file_columns'
impute2databel: no visible global function definition for
'get_temporary_file_name'
impute2databel: no visible global function definition for
'text2databel'
impute2databel: no visible global function definition for
'get_dimnames'
impute2databel: no visible global function definition for 'apply2dfo'
impute2databel: no visible global function definition for 'databel'
impute2databel: no visible global function definition for
'set_dimnames<-'
impute2databel: no visible global function definition for 'disconnect'
impute2mach: no visible global function definition for 'get_dimnames'
impute2mach: no visible global function definition for 'disconnect'
mach2databel: no visible global function definition for
'get_temporary_file_name'
mach2databel: no visible global function definition for 'text2databel'
mach2databel: no visible global function definition for 'get_dimnames'
minimac2databel: no visible global function definition for
'get_temporary_file_name'
minimac2databel: no visible global function definition for
'text2databel'
minimac2databel: no visible global function definition for
'get_dimnames'
polygenic: no visible global function definition for 'ginv'
polygenic_hglm: no visible global function definition for 'hglm'
polygenic_hglm: no visible global function definition for 'ginv'
scan.haplo: no visible global function definition for
'haplo.score.slide'
scan.haplo.2D: no visible global function definition for
'haplo.score.slide'
scan.haplo.2D: no visible global function definition for
'score.sim.control'
Flavor: r-oldrel-windows-ix86+x86_64