Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-11-09 21:31 -0500 (Sat, 09 Nov 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4505 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4506 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4538 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4486 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
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 |
Package 1335/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
MsCoreUtils 1.18.0 (landing page) RforMassSpectrometry Package Maintainer
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the MsCoreUtils package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MsCoreUtils.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: MsCoreUtils |
Version: 1.18.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MsCoreUtils.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MsCoreUtils_1.18.0.tar.gz |
StartedAt: 2024-11-09 07:54:00 -0500 (Sat, 09 Nov 2024) |
EndedAt: 2024-11-09 07:59:13 -0500 (Sat, 09 Nov 2024) |
EllapsedTime: 313.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: MsCoreUtils.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MsCoreUtils.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MsCoreUtils_1.18.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/MsCoreUtils.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.6.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘MsCoreUtils/DESCRIPTION’ ... OK * this is package ‘MsCoreUtils’ version ‘1.18.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 ‘MsCoreUtils’ can be installed ... OK * used C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ * used SDK: ‘MacOSX11.3.sdk’ * 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 code 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... 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-3.20-bioc/meat/MsCoreUtils.Rcheck/00check.log’ for details.
MsCoreUtils.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL MsCoreUtils ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘MsCoreUtils’ ... ** using staged installation ** libs using C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using SDK: ‘MacOSX11.3.sdk’ clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c between.c -o between.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c closest.c -o closest.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c impNeighbourAvg.c -o impNeighbourAvg.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c join.c -o join.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c localMaxima.c -o localMaxima.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c lowerConvexHull.c -o lowerConvexHull.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c maxi.c -o maxi.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c morphologicalFilters.c -o morphologicalFilters.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c snip.c -o snip.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c sumi.c -o sumi.o clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c which.c -o which.o clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o MsCoreUtils.so between.o closest.o impNeighbourAvg.o init.o join.o localMaxima.o lowerConvexHull.o maxi.o morphologicalFilters.o snip.o sumi.o which.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-MsCoreUtils/00new/MsCoreUtils/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MsCoreUtils)
MsCoreUtils.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 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. > ## data(se_na2, package = "QFeatures") > ## dput(assay(se_na2)) > x <- structure(c(0.32325, 0.332, 0.39725, 0.336733, 0.3288, NA, 0.3475, + 0.368452, 0.349182, 0.275, 0.2435, 0.268625, 0.262267, 0.3063, + 0.2454, 0.271923, 0.2796, 0.304043, 0.2481, NA, NA, 0.268826, + 0.3135, 0.281385, 0.2542, 0.2555, 0.269333, 0.272, 0.285667, + 0.259333, 0.2565, 0.26, 0.28325, 0.3015, 0.254, 0.268789, 0.242714, + 0.243, 0.2855, 0.284091, 0.262182, 0.25075, 0.292, 0.323125, + 0.229333, 0.289648, 0.22925, 0.264793, 0.27875, 0.242, 0.2862, + 0.321, 0.2892, 0.351333, 0.2754, 0.24, 0.237417, 0.267, 0.270167, + 0.296, 0.283667, 0.257, 0.266286, 0.280935, 0.254667, 0.217, + 0.303917, 0.252, 0.2315, 0.2614, 0.275071, 0.230273, 0.28, 0.2685, + 0.2565, 0.183, 0.264739, 0.291143, 0.253, 0.251444, 0.234429, + 0.270571, 0.284125, 0.338, 0.17, 0.266667, 0.315, 0.254667, 0.257, + 0.30135, 0.256333, 0.2125, 0.256333, 0.245167, 0.256333, 0.308333, + 0.2768, 0.238773, 0.2638, 0.24375, 0.3195, 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0.160333, + 0.1552, 0.2074), + .Dim = c(689L, 16L), + .Dimnames = list(c("AT1G09210", + "AT1G21750", "AT1G51760", "AT1G56340", "AT2G32920", "AT2G47470", + "AT3G54960", "AT4G24190", "AT5G60640", "AT1G07810", "AT1G32210", + "AT1G34130", "AT1G54990", "AT1G61790", "AT1G67490", "AT1G67730", + "AT1G76400", "AT2G01470", "AT2G01720", "AT2G03120", "AT2G16530", + "AT2G21160", "AT2G38960", "AT2G39960", "AT2G45140", "AT2G46170", + "AT3G05230", "AT3G07140", "AT3G07180", "AT3G52190", "AT3G55360", + "AT3G57220", "AT3G57650", "AT4G01320", "AT4G09580", "AT4G21150", + "AT4G32130", "AT4G36480", "AT4G37640", "AT5G07340", "AT5G19690", + "AT5G45160", "AT5G48810", "AT5G53560", "AT5G55940", "AT5G61790", + "AT5G62390", "AT5G66680", "AT1G02120", "AT1G08470", "AT1G11680", + "AT1G14010", "AT1G18260", "AT1G18540", "AT1G18700", "AT1G19370", + "AT1G20330", "AT1G22200", "AT1G27770", "AT1G35620", "AT1G51570", + "AT1G52260", "AT1G52600", "AT1G55850", "AT1G61770", "AT1G63050", + "AT1G64090", "AT1G64950", "AT1G65020", "AT1G65270", "AT1G65820", + "AT1G70770", "AT1G71780", "AT1G75140", "AT1G79940", "AT2G01250", + "AT2G03510", "AT2G04350", "AT2G16760", "AT2G20990", "AT2G21600", + "AT2G24180", "AT2G24420", "AT2G25110", "AT2G33630", "AT2G45510", + "AT3G01380", "AT3G03330", "AT3G13410", "AT3G13870", "AT3G14610", + "AT3G15710", "AT3G18370", "AT3G23190", "AT3G26830", "AT3G28580", + "AT3G28720", "AT3G44330", "AT3G48890", "AT3G51430", "AT3G51440", + "AT3G51460", "AT3G57010", "AT3G57030", "AT3G57880", "AT3G59500", + "AT3G60600", "AT3G62360", "AT3G66658", "AT4G00175", "AT4G11800", + "AT4G14420", "AT4G14950", "AT4G15760", "AT4G16170", "AT4G21180", + "AT4G24330", "AT4G27090", "AT4G28570", "AT4G29520", "AT4G30210", + "AT4G30600", "AT4G31340", "AT4G36220", "AT4G36250", "AT4G37330", + "AT4G37370", "AT4G37430", "AT5G03160", "AT5G05670", "AT5G11560", + "AT5G13640", "AT5G17980", "AT5G19130", "AT5G20655", "AT5G23575", + "AT5G23630", "AT5G24810", "AT5G25900", "AT5G42020", "AT5G42570", + "AT5G44920", "AT5G45420", "AT5G47420", "AT5G49945", "AT5G52240", + "AT5G52420", "AT5G58640", "AT4G38215", "AT5G57655", "AT1G71220", + "AT1G77510", "AT2G30490", "AT2G39630", "AT3G16110", "AT3G24160", + "AT3G51050", "AT4G33360", "AT5G17770", "AT5G20520", "AT5G63840", + "AT1G44170", "AT3G27325", "AT1G08660", "AT1G19710", "AT1G21480", + "AT1G49710", "AT1G51590", "AT1G74380", "AT1G78920", "AT2G20370", + "AT2G22900", "AT2G38650", "AT2G47650", "AT3G02350", "AT3G03050", + "AT3G07330", "AT3G21160", "AT3G25140", "AT3G48820", "AT3G53520", + "AT3G55830", "AT3G61130", "AT4G15240", "AT4G37690", "AT4G38240", + "AT4G38270", "AT5G16910", "AT5G18485", "AT5G61840", "AT1G04430", + "AT1G04910", "AT1G06890", "AT1G19360", "AT1G19430", "AT1G26850", + "AT1G27930", "AT1G29470", "AT1G29790", "AT1G31850", "AT1G51540", + "AT1G51630", "AT1G55130", "AT1G72480", "AT1G78240", "AT2G01270", + "AT2G01970", "AT2G35610", "AT2G40280", "AT3G13772", "AT3G16200", + "AT3G21190", "AT3G23300", "AT3G26370", "AT3G27220", "AT3G27230", + "AT3G28480", "AT3G49720", "AT3G56750", "AT3G66654", "AT4G00740", + "AT4G00750", "AT4G14360", "AT4G16120", "AT4G17430", "AT4G18030", + "AT4G38500", "AT4G39840", "AT5G04060", "AT5G05170", "AT5G11730", + "AT5G14430", "AT5G20350", "AT5G35160", "AT5G37310", "AT5G43100", + "AT5G44790", "AT5G61240", "AT2G28520", "AT1G03860", "AT1G27390", + "AT1G47260", "AT2G19080", "AT2G20800", "AT2G21870", "AT2G29080", + "AT2G33040", "AT2G33220", "AT3G01280", "AT3G08580", "AT3G08950", + "AT3G20000", "AT3G52300", "AT3G54110", "AT4G01100", "AT4G28510", + "AT5G08040", "AT5G09420", "AT5G14040", "AT5G15090", "AT5G19760", + "AT5G67500", "NAD5", "ORFB", "AT1G15500", "AT1G79560", "AT1G80300", + "AT2G16640", "AT2G47840", "AT3G08640", "AT3G23710", "AT3G46740", + "AT4G02510", "AT4G32400", "AT4G33350", "AT5G05000", "RPS7-01", + "AT1G06530", "AT1G08480", "AT1G53760", "AT1G65540", "AT2G16460", + "AT2G18330", "AT2G20940", "AT2G27730", "AT2G29990", "AT2G42210", + "AT2G45060", "AT3G02090", "AT3G16480", "AT3G51010", "AT3G58840", + "AT3G59280", "AT3G59820", "AT4G05020", "AT4G26410", "AT4G27585", + "AT4G28220", "AT4G28390", "AT4G29130", "AT4G29480", "AT4G30010", + "AT4G32470", "AT4G39690", "AT5G05520", "AT5G12290", "AT5G13490", + "AT5G13610", "AT5G16930", "AT5G18800", "AT5G20090", "AT5G23300", + "AT5G26030", "AT5G27540", "AT5G43970", "AT5G54100", "AT5G55070", + "AT5G58270", "AT1G06940", "AT1G11320", "AT1G42960", "AT2G37400", + "AT2G37860", "AT2G44640", "AT3G06960", "AT3G45890", "AT3G63170", + "AT4G32250", "AT4G39460", "AT5G01500", "AT5G01590", "AT5G08545", + "AT5G12470", "AT5G12860", "AT5G19620", "AT5G22790", "AT5G23890", + "AT5G24690", "AT5G65250", "AT1G10510", "AT1G50460", "AT1G51980", + "AT1G53000", "AT1G77590", "AT2G04940", "AT2G19860", "AT2G26140", + "AT2G35720", "AT3G47930", "AT3G56430", "AT5G13450", "AT5G57490", + "AT5G63400", "COB", "COX2", "ORF25", "AT4G34640", "AT4G30090", + "AT5G43460", "AT5G58070", "AT1G07670", "AT1G43910", "AT3G52850", + "AT5G27330", "AT1G09330", "AT1G13900", "AT1G28340", "AT1G31130", + "AT1G52780", "AT1G53840", "AT2G14720", "AT2G14740", "AT2G34300", + "AT3G05710", "AT4G12650", "AT4G30260", "AT5G64030", "AT1G27980", + "AT2G32440", "AT1G09870", "AT2G40890", "AT3G28510", "AT4G31500", + "AT1G14320", "AT2G09990", "AT2G36160", "AT3G07110", "AT3G18820", + "AT3G49360", "AT1G11580", "AT3G54840", "AT4G13940", "AT5G02450", + "AT5G19550", "AT1G56070", "AT1G77120", "AT3G15950", "AT3G16460", + "AT4G31700", "AT5G10360", "AT1G72370", "AT4G09320", "AT3G04920", + "AT5G20290", "AT2G16660", "AT3G03520", "AT3G13080", "AT3G21250", + "AT4G38350", "AT5G39040", "AT3G06510", "AT4G11010", "AT5G64290", + "AT2G31190", "AT2G38550", "AT3G20390", "AT3G49560", "AT4G00860", + "AT4G35000", "AT5G03895", "AT5G14220", "AT5G33320", "AT5G53170", + "AT5G64970", "AT1G27950", "AT1G74790", "AT2G01630", "AT2G04780", + "AT2G18960", "AT2G37170", "AT2G45470", "AT3G07160", "AT3G07390", + "AT3G13560", "AT3G47950", "AT3G60900", "AT4G03550", "AT4G12420", + "AT4G12730", "AT4G25240", "AT4G26690", "AT4G27520", "AT4G29900", + "AT4G30190", "AT4G31140", "AT4G35100", "AT4G39400", "AT5G55480", + "AT5G55730", "AT5G57110", "AT5G58090", "AT5G62670", "AT1G02520", + "AT1G11330", "AT1G14870", "AT1G15210", "AT1G16920", "AT1G27190", + "AT1G30360", "AT1G56140", "AT2G26300", "AT2G36380", "AT2G36910", + "AT2G37050", "AT2G43610", "AT2G45820", "AT2G47000", "AT3G02880", + "AT3G08510", "AT3G09740", "AT3G14840", "AT3G17840", "AT3G23750", + "AT3G24660", "AT3G25610", "AT3G28450", "AT3G53480", "AT4G08850", + "AT4G20830", "AT4G35790", "AT5G04885", "AT5G07910", "AT5G45480", + "AT5G49760", "AT5G50000", "AT5G46800", "AT1G10950", "AT1G03220", + "AT1G22280", "AT1G59870", "AT2G23810", "AT3G06300", "AT3G25290", + "AT3G46290", "AT5G06320", "AT3G11070", "AT5G55610", "AT2G43950", + "AT3G08630", "AT5G22640", "AT5G42960", "AT2G36290", "AT5G42980", + "AT5G62740", "AT3G52930", "AT5G09810", "AT1G43890", "AT2G32240", + "AT3G09630", "AT3G49910", "AT5G64440", "AT2G30860", "AT5G26280", + "AT5G27850", "AT2G39480", "AT3G51550", "AT4G35230", "AT5G04930", + "AT5G17760", "AT1G07510", "AT3G19340", "AT5G23850", "AT1G24510", + "AT2G16060", "AT5G24290", "AT5G26260", "AT2G31390", "AT4G17120", + "AT4G17140", "AT4G23850", "AT5G17920", "AT4G25900", "AT1G01610", + "AT1G05070", "AT1G05500", "AT1G06840", "AT1G09630", "AT1G10130", + "AT1G10290", "AT1G13280", "AT1G14670", "AT1G14830", "AT1G14850", + "AT1G17290", "AT1G17500", "AT1G22530", "AT1G29020", "AT1G29980", + "AT1G30000", "AT1G32090", "AT1G43170", "AT1G48920", "AT1G54000", + "AT1G55160", "AT1G59820", "AT1G64880", "AT1G66270", "AT1G69460", + "AT1G69840", "AT1G72090", "AT1G73990", "AT1G76040", "AT1G76270", + "AT1G78850", "AT1G80950", "AT2G04280", "AT2G17440", "AT2G17720", + "AT2G18193", "AT2G18690", "AT2G20360", "AT2G20450", "AT2G20807", + "AT2G26250", "AT2G27490", "AT2G29960", "AT2G30930", "AT2G38530", + "AT2G43350", "AT2G47800", "AT3G01290", "AT3G01930", "AT3G02875", + "AT3G03060", "AT3G10370", "AT3G10730", "AT3G11730", "AT3G11820", + "AT3G18480", "AT3G19820", "AT3G22370", "AT3G23175", "AT3G23400", + "AT3G23450", "AT3G24550", "AT3G25780", "AT3G28860", "AT3G43190", + "AT3G46830", "AT3G47200", "AT3G49870", "AT3G50930", "AT3G51580", + "AT3G51740", "AT3G57020", "AT3G60190", "AT3G61050", "AT3G61440", + "AT3G62700", "AT4G00090", "AT4G02930", "AT4G04910", "AT4G11850", + "AT4G12590", "AT4G15000", "AT4G16500", "AT4G16650", "AT4G17170", + "AT4G18100", "AT4G18430", "AT4G19640", "AT4G20110", "AT4G21700", + "AT4G21960", "AT4G23630", "AT4G23650", "AT4G23940", "AT4G25720", + "AT4G27500", "AT4G30990", "AT4G31430", "AT4G32410", "AT4G34200", + "AT4G34960", "AT4G36750", "AT4G37410", "AT4G37820", "AT4G39030", + "AT4G39990", "AT5G02870", "AT5G04480", "AT5G04990", "AT5G08080", + "AT5G10840", "AT5G14950", "AT5G15910", "AT5G18280", "AT5G18900", + "AT5G19320", "AT5G25100", "AT5G28060", "AT5G39410", "AT5G40480", + "AT5G42080", "AT5G44240", "AT5G45130", "AT5G45470", "AT5G45750", + "AT5G47910", "AT5G47990", "AT5G48000", "AT5G48030", "AT5G50370", + "AT5G56730", "AT5G57800", "AT5G58100", "AT5G63030", "AT5G64100", + "AT5G65270", "AT1G66280", "AT1G04120", "AT1G53210", "AT1G63010", + "AT2G02040", "AT5G09400", "AT5G39510", "AT5G51570", "AT1G12840", + "AT1G15690", "AT1G30400", "AT1G78900", "AT2G21410", "AT2G34660", + "AT2G41560", "AT3G28710", "AT3G42050", "AT3G58730", "AT4G11150", + "AT4G39080"), + c("M1F1A", "M1F4A", "M1F7A", "M1F11A", "M1F2B", + "M1F5B", "M1F8B", "M1F11B", "M2F1A", "M2F4A", "M2F7A", "M2F11A", + "M2F2B", "M2F5B", "M2F8B", "M2F11B"))) > > ## dput(rowData(se_na2)$randna) > randna <- c(TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, FALSE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, FALSE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, FALSE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, FALSE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, + TRUE, TRUE, TRUE) > > library("testthat") > library("MsCoreUtils") Attaching package: 'MsCoreUtils' The following object is masked from 'package:stats': smooth > > test_check("MsCoreUtils") Iterations of EM: 1...2... [1] 0.07947339 Iterations of EM: 1...2... [1] 0.07947339 [1] 0.07947339 Iterations of EM: 1...2...3...4...5...6...7...8...9...10...11...12...13...14... [1] 0.990058 Iterations of EM: 1...2...3...4...5...6...7...8...9...10...11...12...13...14... [1] 0.990058 [1] 1.290994 [1] 5.163978 Iterations of EM: 1...2...3...4...5...6...7...8... Iterations of EM: 1...2...3...4...5...6...7...8... [ FAIL 0 | WARN 7 | SKIP 0 | PASS 686 ] [ FAIL 0 | WARN 7 | SKIP 0 | PASS 686 ] > > proc.time() user system elapsed 66.972 1.293 68.270
MsCoreUtils.Rcheck/MsCoreUtils-Ex.timings
name | user | system | elapsed | |
aggregate | 0.305 | 0.013 | 0.318 | |
binning | 0.000 | 0.000 | 0.001 | |
breaks_ppm | 0 | 0 | 0 | |
check | 0.000 | 0.001 | 0.000 | |
coerce | 0 | 0 | 0 | |
colCounts | 0 | 0 | 0 | |
common_path | 0 | 0 | 0 | |
distance | 0 | 0 | 0 | |
entropy | 0 | 0 | 0 | |
estimateBaseline | 0.015 | 0.002 | 0.016 | |
force_sorted | 0 | 0 | 0 | |
formatRt | 0 | 0 | 0 | |
gnps | 0.002 | 0.000 | 0.002 | |
group | 0.000 | 0.001 | 0.000 | |
i2index | 0 | 0 | 0 | |
imputation | 0.003 | 0.001 | 0.004 | |
localMaxima | 0.001 | 0.001 | 0.001 | |
matching | 0.000 | 0.000 | 0.001 | |
maxi | 0 | 0 | 0 | |
medianPolish | 0.001 | 0.000 | 0.001 | |
noise | 0 | 0 | 0 | |
normalize | 0.002 | 0.001 | 0.003 | |
peakRegionMask | 0 | 0 | 0 | |
ppm | 0 | 0 | 0 | |
range | 0 | 0 | 0 | |
rbindFill | 0.002 | 0.000 | 0.002 | |
refineCentroids | 0.025 | 0.001 | 0.025 | |
rla | 0 | 0 | 0 | |
robustSummary | 0.002 | 0.000 | 0.002 | |
smooth | 0.003 | 0.001 | 0.003 | |
sumi | 0 | 0 | 0 | |
validation | 0 | 0 | 0 | |
valleys | 0.001 | 0.001 | 0.001 | |
vapply | 0 | 0 | 0 | |
which | 0 | 0 | 0 | |