Devon Kohler
| Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023) |
| git_url: https://git.bioconductor.org/packages/MSstatsLOBD |
| git_branch: RELEASE_3_16 |
| git_last_commit: 6abf388 |
| git_last_commit_date: 2022-11-01 11:25:06 -0400 (Tue, 01 Nov 2022) |
| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:06:16 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 | ||||
|
To the developers/maintainers of the MSstatsLOBD package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MSstatsLOBD.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 1286/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| MSstatsLOBD 1.6.0 (landing page) Devon Kohler
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: MSstatsLOBD |
| Version: 1.6.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MSstatsLOBD.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MSstatsLOBD_1.6.0.tar.gz |
| StartedAt: 2023-04-10 21:25:16 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 21:25:54 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 38.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MSstatsLOBD.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MSstatsLOBD.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MSstatsLOBD_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/MSstatsLOBD.Rcheck’ * using R version 4.2.3 (2023-03-15) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘MSstatsLOBD/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MSstatsLOBD’ version ‘1.6.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘MSstatsLOBD’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE 'LinkingTo' field is unused: package has no 'src' directory * 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 * 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 LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘tinytest.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 NOTE See ‘/Users/biocbuild/bbs-3.16-bioc/meat/MSstatsLOBD.Rcheck/00check.log’ for details.
MSstatsLOBD.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL MSstatsLOBD ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘MSstatsLOBD’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 * DONE (MSstatsLOBD)
MSstatsLOBD.Rcheck/tests/tinytest.Rout
R version 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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.
>
> if ( requireNamespace("tinytest", quietly=TRUE) ){
+ tinytest::test_package("MSstatsLOBD")
+ }
test_MSstatsLOBD.R............ 0 tests %%%%
test_MSstatsLOBD.R............ 0 tests
test_MSstatsLOBD.R............ 1 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 2 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 3 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 4 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 5 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 6 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 7 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 8 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 9 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 10 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 11 tests [0;32mOK[0m %%%%
test_MSstatsLOBD.R............ 11 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 12 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 13 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 14 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 15 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 16 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 17 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 18 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 19 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 20 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 21 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 22 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 22 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 23 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 24 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 25 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 26 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 27 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 27 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 28 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 29 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 30 tests [0;32mOK[0m
test_MSstatsLOBD.R............ 31 tests [0;32mOK[0m [0;34m0.9s[0m
All ok, 31 results (0.9s)
Warning messages:
1: The `panel.margin` argument of `theme()` is deprecated as of ggplot2 2.2.0.
ℹ Please use the `panel.spacing` argument instead.
ℹ The deprecated feature was likely used in the MSstatsLOBD package.
Please report the issue at <https://github.com/Vitek-Lab/MSstatsLODQ/issues>.
2: In geom_point(data = data.frame(x = LOD_pred, y = y_LOD_pred, shape = "LOD"), :
Ignoring unknown aesthetics: guide
3: In geom_point(data = data.frame(x = LOQ_pred, y = y_LOQ_pred, shape = "LOQ"), :
Ignoring unknown aesthetics: guide
4: The `<scale>` argument of `guides()` cannot be `FALSE`. Use "none" instead as
of ggplot2 3.3.4.
ℹ The deprecated feature was likely used in the MSstatsLOBD package.
Please report the issue at <https://github.com/Vitek-Lab/MSstatsLODQ/issues>.
5: In geom_point(data = data.frame(x = LOD_pred, y = y_LOD_pred, shape = "LOD"), :
Ignoring unknown aesthetics: guide
6: In geom_point(data = data.frame(x = LOQ_pred, y = y_LOQ_pred, shape = "LOQ"), :
Ignoring unknown aesthetics: guide
7: In geom_point(data = data.frame(x = LOD_pred, y = y_LOD_pred, shape = "LOD"), :
Ignoring unknown aesthetics: guide
8: In geom_point(data = data.frame(x = LOQ_pred, y = y_LOQ_pred, shape = "LOQ"), :
Ignoring unknown aesthetics: guide
9: In geom_point(data = data.frame(x = LOD_pred, y = y_LOD_pred, shape = "LOD"), :
Ignoring unknown aesthetics: guide
10: In geom_point(data = data.frame(x = LOQ_pred, y = y_LOQ_pred, shape = "LOQ"), :
Ignoring unknown aesthetics: guide
>
>
> proc.time()
user system elapsed
1.692 0.155 1.842
MSstatsLOBD.Rcheck/MSstatsLOBD-Ex.timings
| name | user | system | elapsed | |
| linear_quantlim | 0.094 | 0.011 | 0.105 | |
| nonlinear_quantlim | 0.163 | 0.013 | 0.178 | |
| plot_quantlim | 1.209 | 0.031 | 1.243 | |
| raw_data | 0.007 | 0.001 | 0.008 | |
| spikeindata | 0.015 | 0.000 | 0.016 | |