Last updated on 2022-04-24 03:53:02 CEST.
| Package | NOTE | OK |
|---|---|---|
| QCEWAS | 6 | 6 |
| QCGWAS | 12 |
Current CRAN status: NOTE: 6, OK: 6
Version: 1.2-2
Check: for non-standard things in the check directory
Result: NOTE
Found the following files/directories:
'EWAS_QC_graph_effectsize.png' 'EWAS_QC_graph_precision.png'
'EWAS_QC_legend.txt' 'sample1.txt.gz' 'sample2.txt.gz'
'sample_map.txt.gz' 'sample_output.graph_M.png'
'sample_output.graph_QQ.png' 'sample_output.graph_p.png'
'sample_output.graph_volcano.png' 'sample_output.histo.png'
'sample_output.txt' 'sample_output1.graph_M.png'
'sample_output1.graph_QQ.png' 'sample_output1.graph_p.png'
'sample_output1.graph_volcano.png' 'sample_output1.histo.png'
'sample_output2.graph_M.png' 'sample_output2.graph_QQ.png'
'sample_output2.graph_p.png' 'sample_output2.graph_volcano.png'
'sample_output2.histo.png' 'translation_table.txt'
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Current CRAN status: NOTE: 12
Version: 1.0-8
Check: DESCRIPTION meta-information
Result: NOTE
Malformed Description field: should contain one or more complete sentences.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0-8
Check: R code for possible problems
Result: NOTE
QC_GWAS: no visible global function definition for 'read.table'
QC_GWAS: no visible global function definition for 'flush.console'
QC_GWAS: no visible global function definition for 'write.table'
QC_GWAS: no visible global function definition for 'png'
QC_GWAS: no visible global function definition for 'par'
QC_GWAS: no visible global function definition for 'hist'
QC_GWAS: no visible global function definition for 'text'
QC_GWAS: no visible global function definition for 'mtext'
QC_GWAS: no visible global function definition for 'title'
QC_GWAS: no visible global function definition for 'dev.off'
QC_GWAS: no visible global function definition for 'pchisq'
QC_GWAS: no visible global function definition for 'median'
QC_GWAS : stat_save: no visible global function definition for
'quantile'
QC_GWAS : stat_select_save: no visible global function definition for
'quantile'
QC_GWAS: no visible global function definition for 'quantile'
QC_histogram: no visible global function definition for 'png'
QC_histogram: no visible global function definition for 'par'
QC_histogram: no visible global function definition for 'hist'
QC_histogram: no visible global function definition for 'qnorm'
QC_histogram: no visible global function definition for 'ppoints'
QC_histogram: no visible global function definition for 'sd'
QC_histogram: no visible global function definition for 'text'
QC_histogram: no visible global function definition for 'dev.off'
QC_histogram: no visible global function definition for 'write.table'
QC_plots: no visible global function definition for 'flush.console'
QC_plots: no visible global function definition for 'median'
QC_plots: no visible global function definition for 'qchisq'
QC_plots : calculateQQ: no visible global function definition for
'ppoints'
QC_plots : addQQplot: no visible global function definition for
'points'
QC_plots: no visible global function definition for 'qbeta'
QC_plots: no visible global function definition for 'png'
QC_plots: no visible global function definition for 'par'
QC_plots: no visible global function definition for 'mtext'
QC_plots: no visible global function definition for 'polygon'
QC_plots: no visible global function definition for 'points'
QC_plots: no visible global function definition for 'legend'
QC_plots: no visible global function definition for 'abline'
QC_plots: no visible global function definition for 'text'
QC_plots: no visible global function definition for 'title'
QC_plots: no visible global function definition for 'dev.off'
QC_plots: no visible global function definition for 'palette'
QC_plots: no visible global function definition for 'axis'
QC_series: no visible global function definition for 'flush.console'
QC_series: no visible global function definition for 'read.table'
QC_series: no visible global function definition for 'write.table'
QQ_plot: no visible global function definition for 'ppoints'
QQ_plot: no visible global function definition for 'qbeta'
QQ_plot: no visible global function definition for 'png'
QQ_plot: no visible global function definition for 'polygon'
QQ_plot: no visible global function definition for 'lines'
QQ_plot: no visible global function definition for 'points'
QQ_plot: no visible global function definition for 'dev.off'
calc_kurtosis: no visible global function definition for 'sd'
calc_skewness: no visible global function definition for 'sd'
check_P: no visible global function definition for 'pchisq'
check_P: no visible global function definition for 'cor'
check_P: no visible global function definition for 'png'
check_P: no visible global function definition for 'lines'
check_P: no visible global function definition for 'points'
check_P: no visible global function definition for 'legend'
check_P: no visible global function definition for 'text'
check_P: no visible global function definition for 'dev.off'
create_hapmap_reference: no visible global function definition for
'flush.console'
create_hapmap_reference: no visible global function definition for
'download.file'
create_hapmap_reference: no visible global function definition for
'read.table'
create_hapmap_reference: no visible global function definition for
'write.table'
filter_GWAS: no visible global function definition for 'read.table'
filter_GWAS: no visible global function definition for 'flush.console'
filter_GWAS: no visible global function definition for 'write.table'
intensity_plot: no visible global function definition for 'points'
load_GWAS: no visible global function definition for 'read.table'
load_test: no visible global function definition for 'read.table'
match_alleles: no visible global function definition for 'write.table'
match_alleles : plot_allele_cor: no visible global function definition
for 'cor'
match_alleles : plot_allele_cor: no visible global function definition
for 'png'
match_alleles : plot_allele_cor: no visible global function definition
for 'legend'
match_alleles : plot_allele_cor: no visible global function definition
for 'points'
match_alleles : plot_allele_cor: no visible global function definition
for 'text'
match_alleles : plot_allele_cor: no visible global function definition
for 'mtext'
match_alleles : plot_allele_cor: no visible global function definition
for 'dev.off'
plot_distribution: no visible global function definition for 'quantile'
plot_distribution: no visible global function definition for 'png'
plot_distribution: no visible global function definition for 'boxplot'
plot_distribution: no visible global function definition for 'abline'
plot_distribution: no visible global function definition for 'median'
plot_distribution: no visible global function definition for 'dev.off'
plot_precision: no visible global function definition for 'png'
plot_precision: no visible global function definition for 'text'
plot_precision: no visible global function definition for 'dev.off'
plot_regional: no visible global function definition for 'png'
plot_regional: no visible global function definition for 'par'
plot_regional: no visible global function definition for 'abline'
plot_regional: no visible global function definition for 'text'
plot_regional: no visible global function definition for 'dev.off'
plot_skewness: no visible global function definition for 'png'
plot_skewness: no visible global function definition for 'abline'
plot_skewness: no visible global function definition for 'text'
plot_skewness: no visible global function definition for 'dev.off'
save_log: no visible global function definition for 'write.table'
Undefined global functions or variables:
abline axis boxplot cor dev.off download.file flush.console hist
legend lines median mtext palette par pchisq png points polygon
ppoints qbeta qchisq qnorm quantile read.table sd text title
write.table
Consider adding
importFrom("grDevices", "dev.off", "palette", "png")
importFrom("graphics", "abline", "axis", "boxplot", "hist", "legend",
"lines", "mtext", "par", "points", "polygon", "text",
"title")
importFrom("stats", "cor", "median", "pchisq", "ppoints", "qbeta",
"qchisq", "qnorm", "quantile", "sd")
importFrom("utils", "download.file", "flush.console", "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-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0-8
Check: for non-standard things in the check directory
Result: NOTE
Found the following files/directories:
'sample_QQ.png' 'sample_QQ1.png' 'sample_QQ2.png' 'sample_QQ3.png'
'sample_distribution.png' 'sample_graph_p-correlation.png'
'sample_histogram.png' 'sample_histogram1.png'
'sample_histogram2.png' 'sample_histogram3.png'
'sample_plots_graph_M.png' 'sample_plots_graph_QQ.png'
'sample_precision.png' 'sample_regional_association.png'
'sample_skewness_kurtosis.png'
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