Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-06-07 20:26 -0400 (Fri, 07 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4755 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4489 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4520 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4466 |
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 2112/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SVMDO 1.4.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | 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 | |||||||||
To the developers/maintainers of the SVMDO package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SVMDO.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: SVMDO |
Version: 1.4.0 |
Command: F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz |
StartedAt: 2024-06-06 12:31:16 -0400 (Thu, 06 Jun 2024) |
EndedAt: 2024-06-06 12:43:51 -0400 (Thu, 06 Jun 2024) |
EllapsedTime: 755.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SVMDO.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.19-bioc/meat/SVMDO.Rcheck' * using R version 4.4.0 (2024-04-24 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'SVMDO/DESCRIPTION' ... OK * this is package 'SVMDO' version '1.4.0' * 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 'SVMDO' 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 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 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: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.19-bioc/R/library' * installing *source* package 'SVMDO' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading `shiny::dataTableOutput()` is deprecated as of shiny 1.8.1. Please use `DT::DTOutput()` instead. Since you have a suitable version of DT (>= v0.32.1), shiny::dataTableOutput() will automatically use DT::DTOutput() under-the-hood. If this happens to break your app, set `options(shiny.legacy.datatable = TRUE)` to get the legacy datatable implementation (or `FALSE` to squelch this message). See <https://rstudio.github.io/DT/shiny.html> for more information. ** 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 (SVMDO)
SVMDO.Rcheck/tests/testthat.Rout
R version 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 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. > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > library(testthat) > library(SVMDO) Loading required package: shiny > > test_check("SVMDO") 'select()' returned 1:1 mapping between keys and columns --> No gene can be mapped.... --> Expected input gene ID: 150,1890,50615,266,54806,3456 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 100529063,5315,4232,401,59067,4337 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4337,80331,64135,8841,4522,23474 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1022,26762,10226,1329,59340,28957 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 797,8803,6690,3688,1352,3426 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 18,51703,10667,7840,558,80309 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 23163,7980,10682,726,51316,3458 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1186,7498,3292,5507,28958,5105 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 79827,197322,10365,57085,358,836 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1585,3978,8773,23175,4594,256764 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6403,51316,726,4277,84274,6554 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6517,57001,3643,3708,1345,619373 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 23590,55024,643387,5447,6548,6019 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 132158,8803,1352,3375,635,266 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 155,3554,9526,445,6462,25915 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2786,4860,6280,5207,1355,361 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10628,7139,3034,842,3172,83985 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6354,84274,22933,1813,6340,2919 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1513,790,1118,4716,5346,943 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5313,2785,1312,538,3551,522 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55600,5586,6814,4656,5106,1607 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3658,5465,4256,54982,285362,113235 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8854,56052,112817,79158,388372,3082 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1369,23590,3507,3284,7941,353 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 383,56458,79587,5054,7480,6513 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3077,1118,2321,4723,5250,9021 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 63931,2244,1363,5211,4012,7287 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10577,1910,4982,5589,84342,29960 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 178,909,6258,2335,155,4312 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 27249,79934,51116,5771,29929,10560 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9429,81033,2180,29078,8802,9882 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7915,2799,1889,1524,4668,587 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2572,1621,124454,5191,9409,3763 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 50674,7132,1232,5730,7052,3623 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 23706,353500,2954,4779,2645,5444 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6097,5979,93587,132,7351,388125 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7049,11255,644096,6476,4306,90624 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3489,15,3087,4864,5660,200205 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 85569,2949,7018,1786,53632,1363 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 866,2168,8784,3558,156,4982 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4925,5579,9575,10400,2673,7364 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57505,6510,48,4650,6532,3557 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9374,5715,3484,10991,23600,1052 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2694,84705,1028,131669,27235,6280 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6929,6718,10643,6927,84902,1340 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10842,6448,52,8856,79949,56623 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2937,2157,6569,3091,55034,6523 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 90624,9314,1645,3803,266,3939 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3728,2244,93587,3425,6868,4891 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7056,9722,9965,87178,3931,112817 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8659,4318,92609,9607,4598,8050 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1586,3077,63892,6834,3062,7135 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7135,293,217,23706,728294,5590 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2488,2952,3105,5593,9512,6794 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4852,594,51604,23054,3667,3738 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 596,8604,1586,4149,3484,7289 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3593,6258,1075,1605,1499,6414 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4283,7287,1649,55034,57107,1890 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3623,3938,8517,497231,52,2167 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3066,4092,56945,3684,7037,6690 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10165,5641,4040,2792,2572,3778 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 80724,5008,4049,3952,79949,1675 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7032,2052,4277,63874,51103,665 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5331,56922,5781,4715,644974,509 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2876,3483,4276,5360,5329,100125288 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2908,1573,152078,3670,6289,64220 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5188,5565,9526,217,1019,5161 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10229,55970,142,7135,8842,1815 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5467,114548,80724,435,1339,5068 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10379,5967,574447,10874,3489,4594 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1499,23129,8818,25828,2746,6427 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2584,64131,1608,4092,599,23389 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 89823,9518,517,4654,959,462 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3358,23101,1428,686,5068,10845 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 84649,2159,3763,79796,2950,1737 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10999,10497,116085,5373,79796,3773 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2181,4684,80067,3106,84063,518 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2181,1394,27141,30061,81704,54210 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4718,29078,4976,3945,4879,9445 --> return NULL... [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ] > > proc.time() user system elapsed 55.68 20.21 76.43
SVMDO.Rcheck/SVMDO-Ex.timings
name | user | system | elapsed | |
runGUI | 0.69 | 0.07 | 0.85 | |