| Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:06:33 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| 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 | ||||
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To the developers/maintainers of the flowCyBar package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowCyBar.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 659/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| flowCyBar 1.30.0 (landing page) Joachim Schumann
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: flowCyBar |
| Version: 1.30.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:flowCyBar.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings flowCyBar_1.30.0.tar.gz |
| StartedAt: 2022-04-12 19:43:45 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 19:45:16 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 91.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: flowCyBar.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:flowCyBar.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings flowCyBar_1.30.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/flowCyBar.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowCyBar/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowCyBar' version '1.30.0'
* 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 whether package 'flowCyBar' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 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 ... NOTE
correlation,data.frame : <anonymous>: no visible global function
definition for 'as.dist'
correlation,data.frame : est: no visible global function definition for
'cor.test'
correlation,data.frame : pval: no visible global function definition
for 'cor.test'
correlation,matrix : <anonymous>: no visible global function definition
for 'as.dist'
correlation,matrix : est: no visible global function definition for
'cor.test'
correlation,matrix : pval: no visible global function definition for
'cor.test'
cybar_plot,data.frame-data.frame: no visible global function definition
for 'layout'
cybar_plot,data.frame-data.frame: no visible global function definition
for 'par'
cybar_plot,data.frame-data.frame: no visible global function definition
for 'boxplot'
cybar_plot,data.frame-matrix: no visible global function definition for
'layout'
cybar_plot,data.frame-matrix: no visible global function definition for
'par'
cybar_plot,data.frame-matrix: no visible global function definition for
'boxplot'
cybar_plot,matrix-data.frame: no visible global function definition for
'layout'
cybar_plot,matrix-data.frame: no visible global function definition for
'par'
cybar_plot,matrix-data.frame: no visible global function definition for
'boxplot'
cybar_plot,matrix-matrix: no visible global function definition for
'layout'
cybar_plot,matrix-matrix: no visible global function definition for
'par'
cybar_plot,matrix-matrix: no visible global function definition for
'boxplot'
cybar_plot,missing-data.frame: no visible global function definition
for 'boxplot'
cybar_plot,missing-matrix: no visible global function definition for
'boxplot'
nmds,data.frame: no visible global function definition for 'text'
nmds,data.frame: no visible global function definition for 'points'
nmds,data.frame: no visible global function definition for 'legend'
nmds,matrix: no visible global function definition for 'text'
nmds,matrix: no visible global function definition for 'points'
nmds,matrix: no visible global function definition for 'legend'
normalize,data.frame : <anonymous>: no visible global function
definition for 'head'
normalize,matrix : <anonymous>: no visible global function definition
for 'head'
Undefined global functions or variables:
as.dist boxplot cor.test head layout legend par points text
Consider adding
importFrom("graphics", "boxplot", "layout", "legend", "par", "points",
"text")
importFrom("stats", "as.dist", "cor.test")
importFrom("utils", "head")
to your NAMESPACE file.
* checking Rd files ... OK
* checking Rd metadata ... 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* 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 ... OK
* DONE
Status: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/flowCyBar.Rcheck/00check.log'
for details.
flowCyBar.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/flowCyBar_1.30.0.tar.gz && rm -rf flowCyBar.buildbin-libdir && mkdir flowCyBar.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flowCyBar.buildbin-libdir flowCyBar_1.30.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL flowCyBar_1.30.0.zip && rm flowCyBar_1.30.0.tar.gz flowCyBar_1.30.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
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0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 24088 100 24088 0 0 59944 0 --:--:-- --:--:-- --:--:-- 59920
install for i386
* installing *source* package 'flowCyBar' ...
files 'build/vignette.rds', 'inst/doc/flowCyBar-manual.R', 'inst/doc/flowCyBar-manual.Rnw', 'inst/doc/flowCyBar-manual.bib', 'inst/doc/flowCyBar-manual.pdf' are missing
files 'DESCRIPTION', 'R/correlation.R', 'R/cybar_plot.R', 'R/nmds.R', 'R/normalize.R', 'man/correlation.Rd', 'man/cybar_plot.Rd', 'man/flowCyBar-package.Rd', 'man/nmds.Rd', 'man/normalize.Rd', 'vignettes/flowCyBar-manual.Rnw' have the wrong MD5 checksums
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'flowCyBar'
finding HTML links ... done
Abiotic_data_sample html
Cell_number_sample html
Corr_data_sample html
correlation html
cybar_plot html
flowCyBar-package html
nmds html
normalize html
** 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
install for x64
* installing *source* package 'flowCyBar' ...
files 'build/vignette.rds', 'inst/doc/flowCyBar-manual.R', 'inst/doc/flowCyBar-manual.Rnw', 'inst/doc/flowCyBar-manual.bib', 'inst/doc/flowCyBar-manual.pdf' are missing
files 'DESCRIPTION', 'R/correlation.R', 'R/cybar_plot.R', 'R/nmds.R', 'R/normalize.R', 'man/correlation.Rd', 'man/cybar_plot.Rd', 'man/flowCyBar-package.Rd', 'man/nmds.Rd', 'man/normalize.Rd', 'vignettes/flowCyBar-manual.Rnw' have the wrong MD5 checksums
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowCyBar' as flowCyBar_1.30.0.zip
* DONE (flowCyBar)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'flowCyBar' successfully unpacked and MD5 sums checked
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flowCyBar.Rcheck/examples_i386/flowCyBar-Ex.timings
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flowCyBar.Rcheck/examples_x64/flowCyBar-Ex.timings
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