Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-07-16 11:45 -0400 (Tue, 16 Jul 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4677 |
palomino6 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4416 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4444 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4393 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4373 |
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 2056/2243 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SVMDO 1.5.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino6 | 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 | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | 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: 1.5.0 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings SVMDO_1.5.0.tar.gz |
StartedAt: 2024-07-16 05:07:09 -0400 (Tue, 16 Jul 2024) |
EndedAt: 2024-07-16 05:12:32 -0400 (Tue, 16 Jul 2024) |
EllapsedTime: 323.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SVMDO.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings SVMDO_1.5.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/SVMDO.Rcheck' * using R version 4.4.1 (2024-06-14 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 '1.5.0' * 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-3.20-bioc\R\bin\R.exe CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-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 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 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: 2948,2632,6555,4864,942,5265 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3303,56606,4803,8764,50507,7409 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3418,116519,10008,6448,91452,3385 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54809,5631,1201,3627,6659,162417 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7252,2475,7052,2639,4091,90624 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4151,3303,3627,55748,8742,1351 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9054,6554,3815,84277,23411,2952 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5188,56997,8504,5962,4744,3651 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54982,7369,2677,3480,5580,7033 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7031,728441,153642,60412,2992,5255 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 80854,9382,4712,5467,2146,7345 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10745,6329,7248,57264,55343,4860 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10102,2805,5291,643387,109,407040 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 694,57761,2712,9054,3832,3995 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 694,7253,9607,54414,23082,847 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6564,1621,6901,5581,2520,4017 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8764,90865,920,10874,6932,2538 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5108,114548,2137,7350,81788,9451 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3763,2690,51103,6389,3280,25974 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7486,2280,23236,9370,2064,51116 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 100506742,10000,10577,4988,3283,6579 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 285362,5331,6716,6446,4282,10911 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 100126861,3575,124976,60386,2235,92935 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 920,64432,100529063,6659,22877,1586 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10745,5096,162417,1182,10911,4508 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 256764,87178,9945,55034,2495,5295 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1604,5276,2713,5293,5105,6602 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4580,56997,1965,4232,81029,2152 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3032,100,5799,2729,4773,7049 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3480,84300,496,6531,5087,10886 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2524,26762,27247,6439,407040,8856 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10911,4478,6794,55937,344,79602 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 38,4654,10013,7124,8932,5565 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1585,6932,6548,1608,2731,151 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5294,18,22796,2200,4283,1968 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8742,23163,292,1524,81704,4982 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 160428,2243,4321,166785,5971,55816 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6948,9451,5745,8675,4729,2266 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 253559,6794,7915,5644,7466,1329 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6441,1355,91869,255231,4758,1738 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3460,10400,5580,7325,3952,4283 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1347,8218,3562,8567,4724,4318 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3593,27429,2693,2335,118,942 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8841,23410,6786,3995,5330,6550 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8431,3576,1116,4697,23163,2052 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 51081,6720,664,5250,25805,6296 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2695,10423,4357,2864,3250,4009 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10195,4023,5276,56652,207,411 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 493856,30009,624,3105,3779,7248 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 23474,113235,3284,3375,55768,2787 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 221895,3623,8504,1364,496,7351 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8195,4210,60386,4321,11093,181 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4899,57104,26227,7525,10226,10116 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6696,4337,4018,6401,10221,4705 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5245,7036,4502,1909,9104,2731 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7172,126328,1051,6898,1728,27141 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2948,407040,54915,3082,51141,84889 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55902,6339,1369,8879,5315,4311 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5744,84902,8471,6901,4598,6329 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 84342,6338,7879,2688,665,133 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 867,56923,11231,2584,407004,3764 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5595,3939,5806,2266,6389,5465 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3242,100303755,100131801,1075,3458,6513 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54414,4129,3290,6183,3502,5270 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1786,2152,797,5598,57085,54577 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3689,84317,1650,7132,18,3043 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4609,3483,9722,53345,4088,22868 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6296,51478,22868,10666,518,1056 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 655,50674,366,6583,200186,340024 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4779,7046,51555,2954,5598,37 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 133522,2919,256764,5788,116931,5095 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 91942,27329,590,5189,3570,23409 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5598,6569,2592,59340,5054,2068 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2488,825,326625,5723,8818,2006 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3767,3290,64087,3556,570,5080 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2168,205327,5293,1356,7249,407008 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8660,6716,818,6515,4697,2571 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5228,6821,4700,54476,23474,8600 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7980,401,3106,2137,84701,23062 --> return NULL... [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ] > > proc.time() user system elapsed 61.62 1.68 63.32
SVMDO.Rcheck/SVMDO-Ex.timings
name | user | system | elapsed | |
runGUI | 0.75 | 0.06 | 0.87 | |