Craig McLean
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/Autotuner |
| Branch: RELEASE_3_10 |
| Last Commit: 04527bb |
| Last Changed Date: 2020-02-26 15:21:51 -0400 (Wed, 26 Feb 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:32:51 -0400 (Wed, 15 Apr 2020).
| Package 99/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| Autotuner 1.0.1 Craig McLean
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ ERROR ] | OK | |||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: Autotuner |
| Version: 1.0.1 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Autotuner.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings Autotuner_1.0.1.tar.gz |
| StartedAt: 2020-04-15 01:22:55 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 01:28:30 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 334.5 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: Autotuner.Rcheck |
| Warnings: NA |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Autotuner.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings Autotuner_1.0.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/Autotuner.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 'Autotuner/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Autotuner' version '1.0.1'
* 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 'Autotuner' 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 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
Examples with CPU or elapsed time > 5s
user system elapsed
createAutotuner 6.55 0.94 7.42
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
createAutotuner 7.78 0.8 8.51
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'testthat.R'
ERROR
Running the tests in 'tests/testthat.R' failed.
Last 13 lines of output:
/ /_/ / / / / / / / / / / / / / / / / /\ \ / / ____/ _ \
/ __ / /_/ / / / / /_/ / / / / /_/ / / \ / /__/ / / /
/_/ /_/_____/ /_/ /_____/ /_/ /_____/_/ \ /_____/__/ /__/ v.1.0.1
https://github.com/crmclean/autotuner
-- 1. Failure: checking EICparams function (@test_loadingData.R#151) ----------
max(eicParamEsts$ppm) > 10 not equal to TRUE.
1 element mismatch
== testthat results ===========================================================
[ OK: 68 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 1 ]
1. Failure: checking EICparams function (@test_loadingData.R#151)
Error: testthat unit tests failed
Execution halted
** 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 ERROR
See
'C:/Users/biocbuild/bbs-3.10-bioc/meat/Autotuner.Rcheck/00check.log'
for details.
Autotuner.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/Autotuner_1.0.1.tar.gz && rm -rf Autotuner.buildbin-libdir && mkdir Autotuner.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Autotuner.buildbin-libdir Autotuner_1.0.1.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL Autotuner_1.0.1.zip && rm Autotuner_1.0.1.tar.gz Autotuner_1.0.1.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 3721k 100 3721k 0 0 22.6M 0 --:--:-- --:--:-- --:--:-- 23.2M
install for i386
* installing *source* package 'Autotuner' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'Autotuner'
finding HTML links ... done
Autotuner-class html
EICparams html
TIC_params html
ThresholdingAlgo html
checkBounds html
checkEICPeaks html
createAutotuner html
dissectScans html
eicParamsEsts html
estimatePPM html
estimateSNThresh html
extract_peaks html
filterPeaksfromNoise html
filterPpmError html
findPeakWidth html
findTruePeaks html
getAutoFactorCol html
getAutoFile_col html
getAutoFile_paths html
getAutoIntensity html
getAutoMetadata html
getAutoPeak_difference html
getAutoPeak_table html
getAutoPeaks html
getAutoTime html
initialize-Autotuner-method html
isolatePeaks html
mzDb html
observedPeak html
peak_time_difference html
peakwidth_est html
peakwidth_table html
plot_peaks html
plot_signals html
returnParams html
setAutoFactorCol html
setAutoFile_col html
setAutoFile_paths html
setAutoIntensity html
setAutoMetadata html
setAutoPeak_difference html
setAutoPeak_table html
setAutoPeaks html
setAutoTime 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 'Autotuner' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Autotuner' as Autotuner_1.0.1.zip
* DONE (Autotuner)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'Autotuner' successfully unpacked and MD5 sums checked
|
Autotuner.Rcheck/tests_i386/testthat.Rout.fail
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)
>
>
> test_check("Autotuner")
Loading required package: Autotuner
____________________________________________________________
/ __ / / / /__ __/ _ /__ __/ / / /\ / / ____/ __ /
/ / / / / / / / / / / / / / / / / / / \ / / /___/ /_/ /
/ /_/ / / / / / / / / / / / / / / / / /\ \ / / ____/ _ \
/ __ / /_/ / / / / /_/ / / / / /_/ / / \ / /__/ / / /
/_/ /_/_____/ /_/ /_____/ /_/ /_____/_/ \ /_____/__/ /__/ v.1.0.1
https://github.com/crmclean/autotuner
-- 1. Failure: checking EICparams function (@test_loadingData.R#151) ----------
max(eicParamEsts$ppm) > 10 not equal to TRUE.
1 element mismatch
== testthat results ===========================================================
[ OK: 68 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 1 ]
1. Failure: checking EICparams function (@test_loadingData.R#151)
Error: testthat unit tests failed
Execution halted
|
Autotuner.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)
>
>
> test_check("Autotuner")
Loading required package: Autotuner
____________________________________________________________
/ __ / / / /__ __/ _ /__ __/ / / /\ / / ____/ __ /
/ / / / / / / / / / / / / / / / / / / \ / / /___/ /_/ /
/ /_/ / / / / / / / / / / / / / / / / /\ \ / / ____/ _ \
/ __ / /_/ / / / / /_/ / / / / /_/ / / \ / /__/ / / /
/_/ /_/_____/ /_/ /_____/ /_/ /_____/_/ \ /_____/__/ /__/ v.1.0.1
https://github.com/crmclean/autotuner
== testthat results ===========================================================
[ OK: 69 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
90.85 2.14 92.93
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Autotuner.Rcheck/examples_i386/Autotuner-Ex.timings
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Autotuner.Rcheck/examples_x64/Autotuner-Ex.timings
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