Carlos MartÃnez
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/MOSim |
| Branch: RELEASE_3_11 |
| Last Commit: a5a05bb |
| Last Changed Date: 2020-04-27 15:29:37 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:57:11 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE MOSim PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1123/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| MOSim 1.2.0 Carlos MartÃnez
| malbec2 | Linux (Ubuntu 18.04.4 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: MOSim |
| Version: 1.2.0 |
| Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MOSim.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings MOSim_1.2.0.tar.gz |
| StartedAt: 2020-10-17 06:13:15 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 06:29:22 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 966.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MOSim.Rcheck |
| Warnings: 0 |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MOSim.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings MOSim_1.2.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/MOSim.Rcheck'
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MOSim/DESCRIPTION' ... OK
* this is package 'MOSim' version '1.2.0'
* 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 'MOSim' 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 (user + system) or elapsed time > 5s
user system elapsed
omicSettings 88.94 0.75 89.68
omicResults 80.25 0.11 80.44
plotProfile 78.55 0.56 79.11
mosim 66.41 0.27 66.71
experimentalDesign 63.70 0.25 63.96
omicSim 9.55 0.12 9.68
omicData 6.53 0.08 6.61
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
mosim 87.42 0.23 87.80
experimentalDesign 73.46 0.67 74.18
plotProfile 69.27 0.93 70.21
omicSettings 64.13 1.29 65.42
omicResults 54.98 0.14 55.13
omicSim 6.55 0.07 6.61
* 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
MOSim.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/MOSim_1.2.0.tar.gz && rm -rf MOSim.buildbin-libdir && mkdir MOSim.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MOSim.buildbin-libdir MOSim_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL MOSim_1.2.0.zip && rm MOSim_1.2.0.tar.gz MOSim_1.2.0.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
16 4366k 16 720k 0 0 4400k 0 --:--:-- --:--:-- --:--:-- 4556k
100 4366k 100 4366k 0 0 11.0M 0 --:--:-- --:--:-- --:--:-- 11.2M
install for i386
* installing *source* package 'MOSim' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'simulate' in package 'MOSim'
** help
*** installing help indices
converting help for package 'MOSim'
finding HTML links ... done
MOSim-package html
MOSimulation-class html
MOSimulator-class html
Simulator-class html
experimentalDesign html
is.declared html
mosim html
omicData html
omicResults html
omicSettings html
omicSim html
plotProfile html
sampleData 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 'MOSim' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MOSim' as MOSim_1.2.0.zip
* DONE (MOSim)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'MOSim' successfully unpacked and MD5 sums checked
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MOSim.Rcheck/tests_i386/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
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(MOSim)
>
> test_check("MOSim")
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 200
- Dif. expressed genes: 30
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 5
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 200
- Dif. expressed genes: 30
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 5
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 20
- Dif. expressed genes: 3
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 3
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 300
- Dif. expressed genes: 45
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 5
== testthat results ===========================================================
[ OK: 7 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 0 ]
>
> proc.time()
user system elapsed
37.15 0.73 37.89
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MOSim.Rcheck/tests_x64/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
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(MOSim)
>
> test_check("MOSim")
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 200
- Dif. expressed genes: 30
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 5
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 200
- Dif. expressed genes: 30
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 5
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 20
- Dif. expressed genes: 3
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 3
Simulation settings of class MOSimulation:
- Default depth: 74
- Total genes: 300
- Dif. expressed genes: 45
- Replicates: 3
- Factor levels (groups): 2
- Time vector length: 5
== testthat results ===========================================================
[ OK: 7 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 0 ]
>
> proc.time()
user system elapsed
26.14 0.45 26.59
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MOSim.Rcheck/examples_i386/MOSim-Ex.timings
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MOSim.Rcheck/examples_x64/MOSim-Ex.timings
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