Bioconductor Single Package Builder - Build History

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 R CMD BUILD

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* checking for file ‘GenomicPlot/DESCRIPTION’ ... OK
* preparing ‘GenomicPlot’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... OK
* checking for LF line-endings in source and make files and shell scripts
* checking for empty or unneeded directories
Omitted ‘LazyData’ from DESCRIPTION
* building ‘GenomicPlot_0.99.6.tar.gz’

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 BiocCheckGitClone('GenomicPlot')

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─ BiocCheckVersion: 1.37.1
─ BiocVersion: 3.18
─ Package: GenomicPlot
─ PackageVersion: 0.99.6
─ sourceDir: /Users/pkgbuild/packagebuilder/workers/jobs/3046/c285b1f65d2d2851e1a88eaac3b5bf8b1938639c/GenomicPlot
─ platform: unix
─ isTarBall: FALSE

* Checking valid files...
    * ERROR: System files found that should not be Git tracked.
      GenomicPlot_gh.Rproj
* Checking for stray BiocCheck output folders...
* Checking for inst/doc folders...
* Checking DESCRIPTION...
* Checking if DESCRIPTION is well formatted...
* Checking for valid maintainer...
* Checking CITATION...

─ BiocCheck results ──
1 ERRORS | 0 WARNINGS | 0 NOTES

For more details, run
    browseVignettes(package = 'BiocCheck')




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 R CMD CHECK

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* using log directory ‘/Users/pkgbuild/packagebuilder/workers/jobs/3046/c285b1f65d2d2851e1a88eaac3b5bf8b1938639c/GenomicPlot.Rcheck’
* using R version 4.3.0 RC (2023-04-13 r84266)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.3 (clang-1403.0.22.14.1)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.6.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘GenomicPlot/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘GenomicPlot’ version ‘0.99.6’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘GenomicPlot’ can be installed ... WARNING
Found the following significant warnings:
  Warning: replacing previous import ‘GenomicRanges::intersect’ by ‘dplyr::intersect’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘GenomicRanges::union’ by ‘dplyr::union’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::combine’ by ‘dplyr::combine’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘GenomicRanges::setdiff’ by ‘dplyr::setdiff’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::Position’ by ‘ggplot2::Position’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::boxplot’ by ‘graphics::boxplot’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::image’ by ‘graphics::image’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::residuals’ by ‘stats::residuals’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘GenomicRanges::start’ by ‘stats::start’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘dplyr::lag’ by ‘stats::lag’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘GenomicRanges::end’ by ‘stats::end’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::weights’ by ‘stats::weights’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘dplyr::filter’ by ‘stats::filter’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::IQR’ by ‘stats::IQR’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::var’ by ‘stats::var’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::xtabs’ by ‘stats::xtabs’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::sd’ by ‘stats::sd’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::density’ by ‘stats::density’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::mad’ by ‘stats::mad’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘GenomicRanges::update’ by ‘stats::update’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘BiocGenerics::relist’ by ‘utils::relist’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘dplyr::setdiff’ by ‘GenomicRanges::setdiff’ when loading ‘GenomicPlot’
  Warning: replacing previous import ‘stats::filter’ by ‘dplyr::filter’ when loading ‘GenomicPlot’
See ‘/Users/pkgbuild/packagebuilder/workers/jobs/3046/c285b1f65d2d2851e1a88eaac3b5bf8b1938639c/GenomicPlot.Rcheck/00install.out’ for details.
* checking installed package size ... NOTE
  installed size is 22.1Mb
  sub-directories of 1Mb or more:
    extdata  17.0Mb
    tests     4.6Mb
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [9s/10s] OK
* checking whether the package can be loaded with stated dependencies ... [9s/9s] OK
* checking whether the package can be unloaded cleanly ... [9s/9s] OK
* checking whether the namespace can be loaded with stated dependencies ... [9s/9s] OK
* checking whether the namespace can be unloaded cleanly ... [9s/9s] OK
* checking loading without being on the library search path ... [9s/9s] OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [36s/36s] NOTE
draw_boxplot_by_factor: no visible binding for global variable ‘x2’
draw_boxplot_wo_outlier: no visible binding for global variable ‘x2’
draw_locus_profile: no visible binding for global variable ‘lower’
draw_locus_profile: no visible binding for global variable ‘upper’
draw_mean_se_barplot: no visible binding for global variable
  ‘sd_Intensity’
draw_mean_se_barplot: no visible binding for global variable
  ‘N_Intensity’
draw_mean_se_barplot: no visible binding for global variable
  ‘mean_Intensity’
draw_mean_se_barplot: no visible binding for global variable ‘se’
draw_mean_se_barplot: no visible binding for global variable
  ‘lower_limit’
draw_mean_se_barplot: no visible binding for global variable
  ‘upper_limit’
draw_mean_se_barplot: no visible binding for global variable ‘x2’
draw_quantile_plot: no visible binding for global variable ‘Fraction’
draw_quantile_plot: no visible binding for global variable ‘x2’
draw_rank_plot: no visible binding for global variable ‘cumCount’
draw_rank_plot: no visible binding for global variable ‘Rank’
draw_rank_plot: no visible binding for global variable ‘Fraction’
draw_region_landmark: no visible binding for global variable ‘x’
draw_region_landmark: no visible binding for global variable ‘y’
draw_region_landmark: no visible binding for global variable ‘value’
draw_region_landmark: no visible binding for global variable ‘fid’
draw_region_profile: no visible binding for global variable ‘lower’
draw_region_profile: no visible binding for global variable ‘upper’
draw_stacked_profile: no visible binding for global variable ‘Location’
draw_stacked_profile: no visible binding for global variable ‘lower’
draw_stacked_profile: no visible binding for global variable ‘upper’
draw_stacked_profile: no visible binding for global variable ‘Interval’
extract_longest_tx: no visible binding for global variable ‘gene_id’
extract_longest_tx: no visible binding for global variable ‘cds_len’
extract_longest_tx: no visible binding for global variable ‘utr5_len’
extract_longest_tx: no visible binding for global variable ‘utr3_len’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘chr’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘name’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘chrPeak’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘startPeak’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘endPeak’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘idPeak’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘scorePeak’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘strandPeak’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘chrfeature’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘startfeature’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘endfeature’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘widthfeature’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘strandfeature’
get_targeted_genes : <anonymous>: no visible binding for global
  variable ‘tx_name’
get_targeted_genes: no visible binding for global variable ‘chrPeak’
get_targeted_genes: no visible binding for global variable ‘startPeak’
get_targeted_genes: no visible binding for global variable ‘endPeak’
get_targeted_genes: no visible binding for global variable ‘strandPeak’
get_targeted_genes: no visible binding for global variable
  ‘feature_name’
get_targeted_genes: no visible binding for global variable ‘tx_name’
get_targeted_genes: no visible binding for global variable ‘5'UTR’
get_targeted_genes: no visible binding for global variable ‘CDS’
get_targeted_genes: no visible binding for global variable ‘3'UTR’
get_targeted_genes: no visible binding for global variable ‘Intron’
get_targeted_genes: no visible binding for global variable ‘Exon’
get_txdb_features : <anonymous>: no visible global function definition
  for ‘runValue’
plot_3parts_metagene: no visible binding for global variable
  ‘Intensity’
plot_3parts_metagene: no visible binding for global variable ‘se’
plot_3parts_metagene: no visible binding for global variable ‘Query’
plot_5parts_metagene: no visible binding for global variable
  ‘Intensity’
plot_5parts_metagene: no visible binding for global variable ‘se’
plot_5parts_metagene: no visible binding for global variable ‘Query’
plot_bam_correlation: no visible binding for global variable ‘Sample’
plot_bam_correlation: no visible binding for global variable ‘Count’
plot_bam_correlation: no visible binding for global variable ‘cumCount’
plot_bam_correlation: no visible binding for global variable ‘Rank’
plot_bam_correlation: no visible binding for global variable ‘Fraction’
plot_bam_correlation: no visible binding for global variable ‘X’
plot_bam_correlation: no visible binding for global variable ‘Y’
plot_bam_correlation: no visible binding for global variable
  ‘correlation’
plot_locus: no visible binding for global variable ‘se’
plot_locus_with_random: no visible binding for global variable ‘se’
plot_overlap_bed: no visible binding for global variable ‘X’
plot_overlap_bed: no visible binding for global variable ‘Y’
plot_peak_annotation: no visible global function definition for
  ‘runValue’
plot_peak_annotation: no visible binding for global variable ‘.’
plot_peak_annotation: no visible binding for global variable ‘len’
plot_peak_annotation: no visible binding for global variable
  ‘norm_count’
plot_peak_annotation: no visible binding for global variable
  ‘norm_percent’
plot_peak_annotation: no visible binding for global variable ‘feature’
plot_peak_annotation: no visible binding for global variable ‘csum’
plot_peak_annotation: no visible binding for global variable
  ‘norm_csum’
plot_peak_annotation: no visible binding for global variable ‘norm_pos’
plot_peak_annotation: no visible binding for global variable ‘chr’
plot_peak_annotation: no visible binding for global variable ‘name’
plot_peak_annotation: no visible binding for global variable
  ‘transcript_id’
plot_peak_annotation: no visible binding for global variable ‘gene_id’
plot_peak_annotation: no visible binding for global variable
  ‘gene_name’
plot_peak_annotation: no visible binding for global variable
  ‘queryIndex’
plot_peak_annotation: no visible binding for global variable ‘Promoter’
plot_peak_annotation: no visible binding for global variable
  ‘Transcript’
plot_region: no visible binding for global variable ‘se’
plot_start_end: no visible binding for global variable ‘Intensity’
plot_start_end: no visible binding for global variable ‘se’
plot_start_end: no visible binding for global variable ‘Query’
plot_start_end: no visible binding for global variable ‘Feature’
plot_start_end_with_random: no visible binding for global variable
  ‘Intensity’
plot_start_end_with_random: no visible binding for global variable ‘se’
plot_start_end_with_random: no visible binding for global variable
  ‘Query’
rank_rows: no visible global function definition for ‘rowMax’
Undefined global functions or variables:
  . 3'UTR 5'UTR CDS Count Exon Feature Fraction Intensity Interval
  Intron Location N_Intensity Promoter Query Rank Sample Transcript X Y
  cds_len chr chrPeak chrfeature correlation csum cumCount endPeak
  endfeature feature feature_name fid gene_id gene_name idPeak len
  lower lower_limit mean_Intensity name norm_count norm_csum
  norm_percent norm_pos queryIndex rowMax runValue scorePeak
  sd_Intensity se startPeak startfeature strandPeak strandfeature
  transcript_id tx_name upper upper_limit utr3_len utr5_len value
  widthfeature x x2 y
* checking Rd files ... [0s/0s] OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [85s/90s] OK
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
plot_peak_annotation 7.039  0.878   7.074
get_targeted_genes   5.752  0.653   5.860
check_constraints    0.206  0.026   6.897
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... [4s/5s] OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/pkgbuild/packagebuilder/workers/jobs/3046/c285b1f65d2d2851e1a88eaac3b5bf8b1938639c/GenomicPlot.Rcheck/00check.log’
for details.






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 BiocCheck('GenomicPlot_0.99.6.tar.gz')

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─ BiocCheckVersion: 1.37.1
─ BiocVersion: 3.18
─ Package: GenomicPlot
─ PackageVersion: 0.99.6
─ sourceDir: /var/folders/db/d7_0z9ss4n3692ppdmx9hlgr0000gv/T//Rtmp0T5Ley/file9d281d8d1c33/GenomicPlot
─ installDir: /var/folders/db/d7_0z9ss4n3692ppdmx9hlgr0000gv/T//Rtmp0T5Ley/file9d2810c03310
─ BiocCheckDir: /Users/pkgbuild/packagebuilder/workers/jobs/3046/c285b1f65d2d2851e1a88eaac3b5bf8b1938639c/GenomicPlot.BiocCheck
─ platform: unix
─ isTarBall: TRUE

* Installing package...
* Checking for deprecated package usage...
Error in `[.data.frame`(pkg_status, , "PackageStatus") : 
  undefined columns selected
Calls: BiocCheck ... getAllDeprecatedPkgs -> get_deprecated_status -> [ -> [.data.frame
Execution halted

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 R CMD BUILD

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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=libdir GenomicPlot_0.99.6.tar.gz'
>>>>>>> 

* installing *source* package ‘GenomicPlot’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import ‘GenomicRanges::intersect’ by ‘dplyr::intersect’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::union’ by ‘dplyr::union’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::combine’ by ‘dplyr::combine’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::setdiff’ by ‘dplyr::setdiff’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::Position’ by ‘ggplot2::Position’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::boxplot’ by ‘graphics::boxplot’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::image’ by ‘graphics::image’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::residuals’ by ‘stats::residuals’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::start’ by ‘stats::start’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::lag’ by ‘stats::lag’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::end’ by ‘stats::end’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::weights’ by ‘stats::weights’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::filter’ by ‘stats::filter’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::IQR’ by ‘stats::IQR’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::var’ by ‘stats::var’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::xtabs’ by ‘stats::xtabs’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::sd’ by ‘stats::sd’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::density’ by ‘stats::density’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::mad’ by ‘stats::mad’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::update’ by ‘stats::update’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::relist’ by ‘utils::relist’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::setdiff’ by ‘GenomicRanges::setdiff’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘Biostrings::pattern’ by ‘grid::pattern’ when loading ‘genomation’
Warning: replacing previous import ‘stats::filter’ by ‘dplyr::filter’ when loading ‘GenomicPlot’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import ‘GenomicRanges::intersect’ by ‘dplyr::intersect’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::union’ by ‘dplyr::union’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::combine’ by ‘dplyr::combine’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::setdiff’ by ‘dplyr::setdiff’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::Position’ by ‘ggplot2::Position’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::boxplot’ by ‘graphics::boxplot’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::image’ by ‘graphics::image’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::residuals’ by ‘stats::residuals’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::start’ by ‘stats::start’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::lag’ by ‘stats::lag’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::end’ by ‘stats::end’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::weights’ by ‘stats::weights’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::filter’ by ‘stats::filter’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::IQR’ by ‘stats::IQR’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::var’ by ‘stats::var’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::xtabs’ by ‘stats::xtabs’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::sd’ by ‘stats::sd’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::density’ by ‘stats::density’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::mad’ by ‘stats::mad’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::update’ by ‘stats::update’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::relist’ by ‘utils::relist’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::setdiff’ by ‘GenomicRanges::setdiff’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘Biostrings::pattern’ by ‘grid::pattern’ when loading ‘genomation’
Warning: replacing previous import ‘stats::filter’ by ‘dplyr::filter’ when loading ‘GenomicPlot’
** testing if installed package can be loaded from final location
Warning: replacing previous import ‘GenomicRanges::intersect’ by ‘dplyr::intersect’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::union’ by ‘dplyr::union’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::combine’ by ‘dplyr::combine’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::setdiff’ by ‘dplyr::setdiff’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::Position’ by ‘ggplot2::Position’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::boxplot’ by ‘graphics::boxplot’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::image’ by ‘graphics::image’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::residuals’ by ‘stats::residuals’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::start’ by ‘stats::start’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::lag’ by ‘stats::lag’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::end’ by ‘stats::end’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::weights’ by ‘stats::weights’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::filter’ by ‘stats::filter’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::IQR’ by ‘stats::IQR’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::var’ by ‘stats::var’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::xtabs’ by ‘stats::xtabs’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::sd’ by ‘stats::sd’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::density’ by ‘stats::density’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::mad’ by ‘stats::mad’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘GenomicRanges::update’ by ‘stats::update’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘BiocGenerics::relist’ by ‘utils::relist’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘dplyr::setdiff’ by ‘GenomicRanges::setdiff’ when loading ‘GenomicPlot’
Warning: replacing previous import ‘Biostrings::pattern’ by ‘grid::pattern’ when loading ‘genomation’
Warning: replacing previous import ‘stats::filter’ by ‘dplyr::filter’ when loading ‘GenomicPlot’
** testing if installed package keeps a record of temporary installation path
* DONE (GenomicPlot)