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This page was generated on 2024-11-20 12:06 -0500 (Wed, 20 Nov 2024).

HostnameOSArch (*)R versionInstalled pkgs
teran2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4481
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4479
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4359
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4539
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.4.1 (2024-06-14) -- "Race for Your Life" 4493
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 1838/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sangeranalyseR 1.16.0  (landing page)
Kuan-Hao Chao
Snapshot Date: 2024-11-19 13:40 -0500 (Tue, 19 Nov 2024)
git_url: https://git.bioconductor.org/packages/sangeranalyseR
git_branch: RELEASE_3_20
git_last_commit: 9ddb390
git_last_commit_date: 2024-10-29 10:47:14 -0500 (Tue, 29 Oct 2024)
teran2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  
palomino8Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  


CHECK results for sangeranalyseR on lconway

To the developers/maintainers of the sangeranalyseR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/sangeranalyseR.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: sangeranalyseR
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:sangeranalyseR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings sangeranalyseR_1.16.0.tar.gz
StartedAt: 2024-11-20 02:13:33 -0500 (Wed, 20 Nov 2024)
EndedAt: 2024-11-20 02:20:16 -0500 (Wed, 20 Nov 2024)
EllapsedTime: 402.8 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: sangeranalyseR.Rcheck
Warnings: 6

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:sangeranalyseR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings sangeranalyseR_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/sangeranalyseR.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sangeranalyseR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sangeranalyseR’ version ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... NOTE
Found export directives that require package ‘methods’:
  ‘exportClasses’ ‘exportMethods’
Remove all such namespace directives (if obsolete) or ensure that the
DESCRIPTION Depends or Imports field contains ‘methods’.
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 NOTE
Depends: includes the non-default packages:
  'stringr', 'ape', 'Biostrings', 'pwalign', 'DECIPHER', 'parallel',
  'reshape2', 'sangerseqR', 'gridExtra', 'shiny', 'shinydashboard',
  'shinyjs', 'data.table', 'plotly', 'DT', 'zeallot', 'excelR',
  'shinycssloaders', 'ggdendro', 'shinyWidgets', 'openxlsx', 'tools',
  'rmarkdown', 'knitr', 'seqinr', 'BiocStyle', 'logger'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .travis.yml
  docs/build/html/.buildinfo
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... WARNING
Found the following file with a non-portable file name:
  docs/wallpaperflare.com_wallpaper (1).jpg
These are not fully portable file names.
See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
Found the following non-portable file paths:
  sangeranalyseR/docs/build/html/_downloads/081987116457968e1b81ae1616525c7d/Sanger_contigs_unalignment.fa
  sangeranalyseR/docs/build/html/_downloads/13b875bc704f73b8bd67dc07d86fc474/Sanger_contigs_alignment.fa
  sangeranalyseR/docs/build/html/_downloads/144d09562ae5b2c7dc079e4bc2b33fb7/Sanger_contigs_alignment.fa
  sangeranalyseR/docs/build/html/_downloads/165af37e8893cfdfa4dba91c44cd791b/Sanger_contigs_unalignment.fa
  sangeranalyseR/docs/build/html/_downloads/345ac400befc4f176c75732770ec3fcb/Achl_RBNII384-13_contig.fa
  sangeranalyseR/docs/build/html/_downloads/438c8bd47d93d92c65b35b613ef14739/Sanger_all_trimmed_reads.fa
  sangeranalyseR/docs/build/html/_downloads/6211ea1e7e3ccc1fcc9b74b78224eab6/Achl_ACHLO006-09_reads_unalignment.fa
  sangeranalyseR/docs/build/html/_downloads/67bcad64cca804ec2e14cc42d016c08f/Achl_ACHLO006-09_reads_alignment.fa
  sangeranalyseR/docs/build/html/_downloads/81a7338101f110748cb72056d9975225/Sanger_all_trimmed_reads.fa
  sangeranalyseR/docs/build/html/_downloads/95ef9378c1407481d69c3bf882a580bb/Achl_RBNII384-13_reads_unalignment.fa
  sangeranalyseR/docs/build/html/_downloads/a664bed9cc5d32924dc2ce60f8c60554/Sanger_all_trimmed_reads.fa
  sangeranalyseR/docs/build/html/_downloads/b608796fffaaa7335a7341cffc9a9db7/Achl_ACHLO006-09_contig.fa
  sangeranalyseR/docs/build/html/_downloads/b6b18aa3e34c6ae0be86c3940972dd38/Sanger_contigs_alignment.fa
  sangeranalyseR/docs/build/html/_downloads/eeb554b575ee5b29ef733dafbf876c36/Achl_RBNII384-13_reads_alignment.fa
  sangeranalyseR/docs/build/html/_downloads/fef71e7b2e1e49c01df301435e972047/Sanger_contigs_unalignment.fa

Tarballs are only required to store paths of up to 100 bytes and cannot
store those of more than 256 bytes, with restrictions including to 100
bytes for the final component.
See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘sangeranalyseR’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.5Mb
  sub-directories of 1Mb or more:
    data      2.2Mb
    extdata   5.5Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... WARNING
Found the following files with non-ASCII characters:
  R/ClassSangerAlignment.R
  R/ClassSangerContig.R
  R/ClassSangerRead.R
Portable packages must use only ASCII characters in their R code and
NAMESPACE directives, except perhaps in comments.
Use \uxxxx escapes for other characters.
Function ‘tools::showNonASCIIfile’ can help in finding non-ASCII
characters in files.
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... NOTE
Packages in Depends field not imported from:
  ‘BiocStyle’ ‘knitr’ ‘reshape2’ ‘zeallot’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
package 'methods' is used but not declared
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
QualityBasePlotly: no visible global function definition for ‘%>%’
SangerAlignment: no visible global function definition for ‘new’
SangerAlignmentServer: no visible global function definition for ‘%>%’
SangerAlignmentServer: no visible binding for '<<-' assignment to
  ‘NEW_SANGER_ALIGNED_CONSENSUS_READ_SET’
SangerAlignmentServer: no visible global function definition for
  ‘colorRamp’
SangerContig: no visible global function definition for ‘new’
SangerContigServer: no visible global function definition for ‘%>%’
SangerContigServer: no visible binding for '<<-' assignment to
  ‘NEW_SANGER_CONTIG’
SangerContigServer: no visible global function definition for
  ‘colorRamp’
SangerRead: no visible global function definition for ‘new’
SetCharStyleList: no visible global function definition for ‘%>%’
alignContigs: no visible global function definition for ‘as.phylo’
alignContigs: no visible global function definition for ‘rtree’
checkAb1FastaCsv: no visible global function definition for ‘read.csv’
checkTargetFastaName: no visible global function definition for
  ‘isEmpty’
chromatogram_overwrite: no visible global function definition for ‘rgb’
chromatogram_overwrite: no visible global function definition for ‘par’
chromatogram_overwrite: no visible global function definition for
  ‘quantile’
chromatogram_overwrite: no visible global function definition for ‘IQR’
chromatogram_overwrite: no visible global function definition for ‘pdf’
chromatogram_overwrite: no visible global function definition for
  ‘rect’
chromatogram_overwrite: no visible global function definition for
  ‘lines’
chromatogram_overwrite: no visible global function definition for
  ‘mtext’
chromatogram_overwrite: no visible global function definition for
  ‘axis’
chromatogram_overwrite: no visible global function definition for
  ‘dev.off’
primarySeqDisplay: no visible global function definition for ‘rgb’
primarySeqTrimmedDisplay: no visible global function definition for
  ‘rgb’
secondSeqTrimmedDisplay: no visible global function definition for
  ‘rgb’
secondarySeqDisplay: no visible global function definition for ‘rgb’
initialize,ChromatogramParam: no visible global function definition for
  ‘callNextMethod’
initialize,ObjectResults: no visible global function definition for
  ‘callNextMethod’
initialize,QualityReport: no visible global function definition for
  ‘callNextMethod’
initialize,SangerAlignment: no visible global function definition for
  ‘str_split’
initialize,SangerAlignment : <anonymous>: no visible global function
  definition for ‘new’
initialize,SangerAlignment: no visible global function definition for
  ‘read.csv’
initialize,SangerAlignment: no visible global function definition for
  ‘new’
initialize,SangerAlignment: no visible global function definition for
  ‘callNextMethod’
initialize,SangerContig : <anonymous>: no visible global function
  definition for ‘new’
initialize,SangerContig: no visible global function definition for
  ‘read.csv’
initialize,SangerContig: no visible global function definition for
  ‘new’
initialize,SangerContig: no visible global function definition for
  ‘callNextMethod’
initialize,SangerRead: no visible global function definition for ‘new’
initialize,SangerRead: no visible global function definition for
  ‘AAString’
initialize,SangerRead: no visible global function definition for
  ‘callNextMethod’
launchAppSA,SangerAlignment: no visible global function definition for
  ‘shinyOptions’
launchAppSA,SangerAlignment: no visible global function definition for
  ‘shinyApp’
launchAppSC,SangerContig: no visible global function definition for
  ‘shinyOptions’
launchAppSC,SangerContig: no visible global function definition for
  ‘shinyApp’
Undefined global functions or variables:
  %>% AAString IQR as.phylo axis callNextMethod colorRamp dev.off
  isEmpty lines mtext new par pdf quantile read.csv rect rgb rtree
  shinyApp shinyOptions str_split
Consider adding
  importFrom("grDevices", "colorRamp", "dev.off", "pdf", "rgb")
  importFrom("graphics", "axis", "lines", "mtext", "par", "rect")
  importFrom("methods", "callNextMethod", "new")
  importFrom("stats", "IQR", "quantile")
  importFrom("utils", "read.csv")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘chromatogram_overwrite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking for code/documentation mismatches ... WARNING
S4 class codoc mismatches from Rd file 'ObjectResults-class.Rd':
Slots for class 'ObjectResults'
  Code: creationResult errorMessages errorTypes printLevel
        readResultTable warningMessages warningTypes
  Docs: printLevel

* checking Rd \usage sections ... WARNING
Undocumented arguments in Rd file 'SangerAlignment.Rd'
  ‘printLevel’ ‘processMethod’
Documented arguments not in \usage in Rd file 'SangerAlignment.Rd':
  ‘minFractionCallSA’ ‘maxFractionLostSA’

Undocumented arguments in Rd file 'SangerContig.Rd'
  ‘printLevel’ ‘processMethod’

Undocumented arguments in Rd file 'SangerRead.Rd'
  ‘printLevel’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                            old_size new_size compress
  sangerAlignmentData.RData    1.5Mb    697Kb       xz
  sangerContigData.RData       451Kb    204Kb       xz
  sangerReadFData.RData        269Kb    119Kb       xz
* checking line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                        user system elapsed
SangerAlignment-class 33.066  0.983  34.154
SangerContig-class     6.392  0.199   6.598
SangerAlignment        6.289  0.162   6.464
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 6 WARNINGs, 7 NOTEs
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/sangeranalyseR.Rcheck/00check.log’
for details.


Installation output

sangeranalyseR.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL sangeranalyseR
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘sangeranalyseR’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Note: wrong number of arguments to '==' 
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (sangeranalyseR)

Tests output

sangeranalyseR.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(sangeranalyseR)
Loading required package: stringr
Loading required package: ape
Loading required package: Biostrings
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, saveRDS, setdiff, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following object is masked from 'package:utils':

    findMatches

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: XVector
Loading required package: GenomeInfoDb

Attaching package: 'Biostrings'

The following object is masked from 'package:ape':

    complement

The following object is masked from 'package:base':

    strsplit

Loading required package: pwalign

Attaching package: 'pwalign'

The following objects are masked from 'package:Biostrings':

    PairwiseAlignments, PairwiseAlignmentsSingleSubject, aligned,
    alignedPattern, alignedSubject, compareStrings, deletion,
    errorSubstitutionMatrices, indel, insertion, mismatchSummary,
    mismatchTable, nedit, nindel, nucleotideSubstitutionMatrix,
    pairwiseAlignment, pid, qualitySubstitutionMatrices, stringDist,
    unaligned, writePairwiseAlignments

Loading required package: DECIPHER
Loading required package: parallel
Loading required package: reshape2
Loading required package: sangerseqR
Loading required package: gridExtra

Attaching package: 'gridExtra'

The following object is masked from 'package:BiocGenerics':

    combine

Loading required package: shiny
Loading required package: shinydashboard

Attaching package: 'shinydashboard'

The following object is masked from 'package:graphics':

    box

Loading required package: shinyjs

Attaching package: 'shinyjs'

The following object is masked from 'package:shiny':

    runExample

The following object is masked from 'package:pwalign':

    show

The following object is masked from 'package:Biostrings':

    show

The following object is masked from 'package:GenomeInfoDb':

    show

The following object is masked from 'package:XVector':

    show

The following object is masked from 'package:IRanges':

    show

The following object is masked from 'package:S4Vectors':

    show

The following object is masked from 'package:stats4':

    show

The following objects are masked from 'package:methods':

    removeClass, show

Loading required package: data.table

Attaching package: 'data.table'

The following objects are masked from 'package:reshape2':

    dcast, melt

The following object is masked from 'package:IRanges':

    shift

The following objects are masked from 'package:S4Vectors':

    first, second

Loading required package: plotly
Loading required package: ggplot2

Attaching package: 'plotly'

The following object is masked from 'package:ggplot2':

    last_plot

The following object is masked from 'package:XVector':

    slice

The following object is masked from 'package:IRanges':

    slice

The following object is masked from 'package:S4Vectors':

    rename

The following object is masked from 'package:stats':

    filter

The following object is masked from 'package:graphics':

    layout

Loading required package: DT

Attaching package: 'DT'

The following objects are masked from 'package:shiny':

    dataTableOutput, renderDataTable

Loading required package: zeallot
Loading required package: excelR
Loading required package: shinycssloaders
Loading required package: ggdendro
Loading required package: shinyWidgets

Attaching package: 'shinyWidgets'

The following object is masked from 'package:shinyjs':

    alert

Loading required package: openxlsx
Loading required package: tools
Loading required package: rmarkdown
Loading required package: knitr
Loading required package: seqinr

Attaching package: 'seqinr'

The following object is masked from 'package:shiny':

    a

The following object is masked from 'package:sangerseqR':

    read.abif

The following object is masked from 'package:Biostrings':

    translate

The following objects are masked from 'package:ape':

    as.alignment, consensus

Loading required package: BiocStyle

Attaching package: 'BiocStyle'

The following objects are masked from 'package:rmarkdown':

    html_document, md_document, pdf_document

The following object is masked from 'package:shiny':

    markdown

Loading required package: logger
Welcome to sangeranalyseR
> 
> 
> # test_check("sangeranalyseR")
> 
> proc.time()
   user  system elapsed 
  3.432   0.281   3.721 

Example timings

sangeranalyseR.Rcheck/sangeranalyseR-Ex.timings

nameusersystemelapsed
ChromatogramParam-class0.0040.0000.004
MakeBaseCalls-methods0.4100.0470.457
ObjectResults-class0.0020.0010.001
QualityReport-class-qualityBasePlot0.0010.0020.003
QualityReport-class-updateQualityParam0.0040.0090.013
QualityReport-class0.3930.0320.430
SangerAlignment-class-generateReportSA0.0370.0040.042
SangerAlignment-class-launchAppSA0.0540.0060.060
SangerAlignment-class-updateQualityParam0.0370.0040.042
SangerAlignment-class-writeFastaSA0.0550.0060.060
SangerAlignment-class33.066 0.98334.154
SangerAlignment6.2890.1626.464
SangerContig-class-generateReportSC0.0190.0030.021
SangerContig-class-launchAppSC0.0550.0200.075
SangerContig-class-readTable0.0710.0070.078
SangerContig-class-updateQualityParam0.0190.0030.022
SangerContig-class-writeFastaSC0.0420.0040.047
SangerContig-class6.3920.1996.598
SangerContig0.0230.0010.023
SangerRead-class-MakeBaseCalls0.2500.0140.264
SangerRead-class-generateReportSR0.0160.0020.018
SangerRead-class-qualityBasePlot0.0160.0030.018
SangerRead-class-readTable0.0680.0080.076
SangerRead-class-updateQualityParam0.1730.0090.182
SangerRead-class-writeFastaSR0.0240.0030.027
SangerRead-class1.2690.0691.341
SangerRead0.3250.0210.347
generateReport0.0670.0070.075
generateReportSA-methods0.0350.0020.038
generateReportSC-methods0.0180.0020.021
generateReportSR-methods0.0150.0020.016
launchApp0.0510.0050.056
launchAppSA-methods0.0340.0030.037
launchAppSC-methods0.0190.0020.021
qualityBasePlot-methods0.2460.0590.307
readTable-methods0.0710.0080.079
updateQualityParam-methods0.070.010.08
writeFasta0.0670.0070.074
writeFastaSA-methods0.0490.0040.052
writeFastaSC-methods0.0410.0030.045
writeFastaSR-methods0.0240.0030.028