| Back to Multiple platform build/check report for BioC 3.10 |
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This page was generated on 2020-04-15 12:33:40 -0400 (Wed, 15 Apr 2020).
| Package 773/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| HCAExplorer 1.0.0 Bioconductor Package Maintainer
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS |  | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
| Package: HCAExplorer |
| Version: 1.0.0 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HCAExplorer.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings HCAExplorer_1.0.0.tar.gz |
| StartedAt: 2020-04-15 03:50:34 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 03:54:43 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 249.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: HCAExplorer.Rcheck |
| Warnings: 1 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HCAExplorer.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings HCAExplorer_1.0.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/HCAExplorer.Rcheck'
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'HCAExplorer/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'HCAExplorer' version '1.0.0'
* 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 'HCAExplorer' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... 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
* 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 ... NOTE
Unexported object imported by a ':::' call: 'utils:::format.object_size'
See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.getManifest: no visible binding for global variable 'projectId'
.getManifestFileFormats: no visible binding for global variable
'projectId'
.subset.HCAExplorer: no visible binding for global variable 'projectId'
[,HCAExplorer: no visible binding for global variable 'projectId'
getManifest,HCAExplorer: no visible binding for global variable
'projectId'
getManifestFileFormats,HCAExplorer: no visible binding for global
variable 'projectId'
Undefined global functions or variables:
projectId
* 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 ... WARNING
Documented arguments not in \usage in documentation object 'values,HCAExplorer-method':
'...'
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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
getManifest 0.84 0.14 26.07
filter.HCAExplorer 0.62 0.02 5.68
activate.HCAExplorer 0.58 0.00 8.66
resetQuery 0.55 0.00 5.76
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
getManifest 1.05 0.05 26.18
activate.HCAExplorer 0.86 0.00 9.03
filter.HCAExplorer 0.75 0.00 5.76
resetQuery 0.55 0.00 5.77
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'testthat.R'
OK
** running tests for arch 'x64' ...
Running 'testthat.R'
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: 1 WARNING, 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.10-bioc/meat/HCAExplorer.Rcheck/00check.log'
for details.
HCAExplorer.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/HCAExplorer_1.0.0.tar.gz && rm -rf HCAExplorer.buildbin-libdir && mkdir HCAExplorer.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=HCAExplorer.buildbin-libdir HCAExplorer_1.0.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL HCAExplorer_1.0.0.zip && rm HCAExplorer_1.0.0.tar.gz HCAExplorer_1.0.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 16044 100 16044 0 0 275k 0 --:--:-- --:--:-- --:--:-- 295k
install for i386
* installing *source* package 'HCAExplorer' ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Creating a generic function for 'fields' from package 'vctrs' in package 'HCAExplorer'
** help
*** installing help indices
converting help for package 'HCAExplorer'
finding HTML links ... done
HCAExplorer-class html
HCAExplorer html
ProjectView-class html
activate.HCAExplorer html
fields-HCAExplorer-method html
finding level-2 HTML links ... done
filter.HCAExplorer html
getManifest html
getManifestFileFormats html
nextResults html
reexports html
resetQuery html
resetSelect html
results html
select.HCAExplorer html
show-HCAExplorer-method html
sub-HCAExplorer-method html
undoQuery html
values-HCAExplorer-method html
viewProjects 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 'HCAExplorer' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HCAExplorer' as HCAExplorer_1.0.0.zip
* DONE (HCAExplorer)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'HCAExplorer' successfully unpacked and MD5 sums checked
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HCAExplorer.Rcheck/tests_i386/testthat.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)
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(HCAExplorer)
Loading required package: dplyr
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
>
> test_check("HCAExplorer")
== testthat results ===========================================================
[ OK: 1 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
2.92 0.20 3.10
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HCAExplorer.Rcheck/tests_x64/testthat.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
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(HCAExplorer)
Loading required package: dplyr
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
>
> test_check("HCAExplorer")
== testthat results ===========================================================
[ OK: 1 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
2.26 0.28 2.54
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HCAExplorer.Rcheck/examples_i386/HCAExplorer-Ex.timings
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HCAExplorer.Rcheck/examples_x64/HCAExplorer-Ex.timings
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