| Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:06:42 -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 HPAStainR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HPAStainR.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 885/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| HPAStainR 1.4.1 (landing page) Tim O. Nieuwenhuis
| 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: HPAStainR |
| Version: 1.4.1 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HPAStainR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings HPAStainR_1.4.1.tar.gz |
| StartedAt: 2022-04-12 21:12:46 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 21:21:24 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 518.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: HPAStainR.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:HPAStainR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings HPAStainR_1.4.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/HPAStainR.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 'HPAStainR/DESCRIPTION' ... OK
* this is package 'HPAStainR' version '1.4.1'
* 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 'HPAStainR' 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
HPAstainR 9.86 1.31 19.78
hpa_summary_maker 5.87 0.53 9.91
HPA_data_downloader 5.31 1.00 16.36
shiny_HPAStainR 4.55 0.36 18.11
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
HPAstainR 10.14 0.96 12.18
HPA_data_downloader 5.14 1.27 9.16
shiny_HPAStainR 4.81 0.58 16.58
hpa_summary_maker 4.61 0.58 21.66
* 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: OK
HPAStainR.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/HPAStainR_1.4.1.tar.gz && rm -rf HPAStainR.buildbin-libdir && mkdir HPAStainR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=HPAStainR.buildbin-libdir HPAStainR_1.4.1.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL HPAStainR_1.4.1.zip && rm HPAStainR_1.4.1.tar.gz HPAStainR_1.4.1.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 99737 100 99737 0 0 207k 0 --:--:-- --:--:-- --:--:-- 207k
install for i386
* installing *source* package 'HPAStainR' ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'HPAStainR'
finding HTML links ... done
HPA_data_downloader html
HPAstainR html
hpa_summary_maker html
shiny_HPAStainR 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 'HPAStainR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HPAStainR' as HPAStainR_1.4.1.zip
* DONE (HPAStainR)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'HPAStainR' successfully unpacked and MD5 sums checked
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HPAStainR.Rcheck/tests_i386/testthat.Rout
R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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(HPAStainR)
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
Loading required package: tidyr
Attaching package: 'tidyr'
The following object is masked from 'package:testthat':
matches
>
> test_check("HPAStainR")
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
>
> proc.time()
user system elapsed
29.90 4.20 121.34
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HPAStainR.Rcheck/tests_x64/testthat.Rout
R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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(HPAStainR)
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
Loading required package: tidyr
Attaching package: 'tidyr'
The following object is masked from 'package:testthat':
matches
>
> test_check("HPAStainR")
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
trying URL 'https://www.proteinatlas.org/download/normal_tissue.tsv.zip'
Content type 'application/zip' length 5596382 bytes (5.3 MB)
==================================================
downloaded 5.3 MB
trying URL 'https://www.proteinatlas.org/download/pathology.tsv.zip'
Content type 'application/zip' length 3609266 bytes (3.4 MB)
==================================================
downloaded 3.4 MB
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
>
> proc.time()
user system elapsed
27.76 4.98 198.45
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HPAStainR.Rcheck/examples_i386/HPAStainR-Ex.timings
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HPAStainR.Rcheck/examples_x64/HPAStainR-Ex.timings
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