Lennart Opitz
| Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021) |
| URL: https://git.bioconductor.org/packages/NestLink |
| Branch: master |
| Last Commit: 3b487be |
| Last Changed Date: 2020-10-27 10:29:06 -0500 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.13 experimental data |
|
This page was generated on 2021-01-14 15:59:10 -0500 (Thu, 14 Jan 2021).
| TO THE DEVELOPERS/MAINTAINERS OF THE NestLink PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 248/385 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||
| NestLink 1.7.0 Lennart Opitz
| malbec2 | Linux (Ubuntu 20.04.1 LTS) / x86_64 | OK | OK | OK | | |||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | [ OK ] |
| Package: NestLink |
| Version: 1.7.0 |
| Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:NestLink.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings NestLink_1.7.0.tar.gz |
| StartedAt: 2021-01-14 11:31:53 -0500 (Thu, 14 Jan 2021) |
| EndedAt: 2021-01-14 11:40:55 -0500 (Thu, 14 Jan 2021) |
| EllapsedTime: 542.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: NestLink.Rcheck |
| Warnings: 0 |
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### Running command:
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### D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:NestLink.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings NestLink_1.7.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/NestLink.Rcheck'
* using R Under development (unstable) (2020-12-30 r79736)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'NestLink/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'NestLink' version '1.7.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
'AnnotationHub', 'ExperimentHub', 'Biostrings', 'gplots', 'protViz',
'ShortRead'
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 ... OK
* checking for portable file names ... OK
* checking whether package 'NestLink' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Authors@R field gives persons with no role:
Damien Morger <damien.morger@rqmicro.com>
* 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
runNGSAnalysis 97.56 0.49 98.59
getExperimentHubFilename 17.56 1.21 21.58
F255744 3.64 0.73 5.06
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
runNGSAnalysis 100.45 0.54 101.40
getExperimentHubFilename 18.49 0.98 21.85
F255744 3.85 0.97 5.34
* 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: 2 NOTEs
See
'D:/biocbuild/bbs-3.13-data-experiment/meat/NestLink.Rcheck/00check.log'
for details.
NestLink.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/NestLink_1.7.0.tar.gz && rm -rf NestLink.buildbin-libdir && mkdir NestLink.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=NestLink.buildbin-libdir NestLink_1.7.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL NestLink_1.7.0.zip && rm NestLink_1.7.0.tar.gz NestLink_1.7.0.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 1203k 100 1203k 0 0 4134k 0 --:--:-- --:--:-- --:--:-- 4134k
install for i386
* installing *source* package 'NestLink' ...
** using staged installation
** R
** exec
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'NestLink'
finding HTML links ... done
F255744 html
REDIRECT:topic F255744 -> F255744.html [ SUCCESS ]
NB.unambiguous html
REDIRECT:topic NB.unambiguous -> NB.unambiguous.html [ SUCCESS ]
NB.unique html
REDIRECT:topic NB.unique -> NB.unique.html [ SUCCESS ]
PGexport html
REDIRECT:topic PGexport -> PGexport.html [ SUCCESS ]
WU160118 html
REDIRECT:topic WU160118 -> WU160118.html [ SUCCESS ]
compose_GPGx8cTerm html
REDIRECT:topic compose_GPGx8cTerm -> compose_GPGx8cTerm.html [ SUCCESS ]
compose_GPx10R html
REDIRECT:topic compose_GPx10R -> compose_GPx10R.html [ SUCCESS ]
compose_GSx7cTerm html
REDIRECT:topic compose_GSx7cTerm -> compose_GSx7cTerm.html [ SUCCESS ]
dot-ssrc.mascot html
REDIRECT:topic .ssrc.mascot -> dot-ssrc.mascot.html [ SUCCESS ]
REDIRECT:file dot-ssrc.mascot.html -> dot-ssrc.mascot.html [ SUCCESS ]
getExperimentHubFilename html
REDIRECT:topic getExperimentHubFilename -> getExperimentHubFilename.html [ SUCCESS ]
getFC html
REDIRECT:topic getFC -> getFC.html [ SUCCESS ]
getNB html
REDIRECT:topic getNB -> getNB.html [ SUCCESS ]
nanobodyFlycodeLinking.as.fasta html
REDIRECT:topic nanobodyFlycodeLinking.as.fasta -> nanobodyFlycodeLinking.as.fasta.html [ SUCCESS ]
nanobodyFlycodeLinking.summary html
REDIRECT:topic nanobodyFlycodeLinking.summary -> nanobodyFlycodeLinking.summary.html [ SUCCESS ]
plot_in_silico_LCMS_map html
REDIRECT:topic plot_in_silico_LCMS_map -> plot_in_silico_LCMS_map.html [ SUCCESS ]
runNGSAnalysis html
REDIRECT:topic runNGSAnalysis -> runNGSAnalysis.html [ SUCCESS ]
twoPatternReadFilter html
REDIRECT:topic twoPatternReadFilter -> twoPatternReadFilter.html [ SUCCESS ]
** 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 'NestLink' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'NestLink' as NestLink_1.7.0.zip
* DONE (NestLink)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'NestLink' successfully unpacked and MD5 sums checked
|
NestLink.Rcheck/tests_i386/testthat.Rout
R Under development (unstable) (2020-12-30 r79736) -- "Unsuffered Consequences"
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.
> #R
>
> library(testthat)
>
> suppressPackageStartupMessages(library(NestLink))
>
> test_check("NestLink")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
>
> proc.time()
user system elapsed
18.23 1.71 21.15
|
NestLink.Rcheck/tests_x64/testthat.Rout
R Under development (unstable) (2020-12-30 r79736) -- "Unsuffered Consequences"
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.
> #R
>
> library(testthat)
>
> suppressPackageStartupMessages(library(NestLink))
>
> test_check("NestLink")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 10 ]
>
> proc.time()
user system elapsed
19.73 1.70 22.45
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NestLink.Rcheck/examples_i386/NestLink-Ex.timings
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NestLink.Rcheck/examples_x64/NestLink-Ex.timings
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