Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-11-20 12:08 -0500 (Wed, 20 Nov 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4481 |
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4479 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4359 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4539 |
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 1660/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
randRotation 1.18.0 (landing page) Peter Hettegger
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | ||||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | ERROR | ||||||||||
To the developers/maintainers of the randRotation package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/randRotation.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: randRotation |
Version: 1.18.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:randRotation.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings randRotation_1.18.0.tar.gz |
StartedAt: 2024-11-20 11:25:45 -0000 (Wed, 20 Nov 2024) |
EndedAt: 2024-11-20 11:26:42 -0000 (Wed, 20 Nov 2024) |
EllapsedTime: 57.2 seconds |
RetCode: 1 |
Status: ERROR |
CheckDir: randRotation.Rcheck |
Warnings: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:randRotation.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings randRotation_1.18.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/randRotation.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: aarch64-unknown-linux-gnu * R was compiled by gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14) GNU Fortran (GCC) 10.3.1 * running under: openEuler 22.03 (LTS-SP1) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘randRotation/DESCRIPTION’ ... OK * this is package ‘randRotation’ version ‘1.18.0’ * 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 ‘randRotation’ 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 loading without being on the library search path ... 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 ... NOTE checkRd: (-1) qqunif.Rd:35: Lost braces; missing escapes or markup? 35 | A list of \code{x} and {y} coordinates, as in \code{\link[stats:qqnorm]{qqplot}}. | ^ * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed pFdr 9.572 0.292 9.883 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: [7] 1.000 - 1.000 == -1.54e-05 ── Failure ('test_rotateStat_pFdr.R:33:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ── sort(pFdr(res1, "fdr.qu"))[1:10] not equal to c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1). 7/10 mismatches (average diff: 0.133) [1] 0.150 - 0.870 == -7.20e-01 [2] 0.780 - 0.940 == -1.60e-01 [3] 0.954 - 0.993 == -3.86e-02 [4] 0.990 - 0.998 == -8.63e-03 [5] 1.000 - 1.000 == -4.12e-04 [6] 1.000 - 1.000 == -2.78e-05 [7] 1.000 - 1.000 == -1.54e-05 [ FAIL 3 | WARN 0 | SKIP 0 | PASS 16 ] Error: Test failures Execution halted * 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 ERROR, 1 NOTE See ‘/home/biocbuild/bbs-3.20-bioc/meat/randRotation.Rcheck/00check.log’ for details.
randRotation.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL randRotation ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’ * installing *source* package ‘randRotation’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help Loading required namespace: randRotation *** 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 (randRotation)
randRotation.Rcheck/tests/testthat.Rout.fail
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu 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(randRotation) > > test_check("randRotation") [ FAIL 3 | WARN 0 | SKIP 0 | PASS 16 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_rotateStat_pFdr.R:31:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ── sort(pFdr(res1))[1:10] not equal to c(...). 10/10 mismatches (average diff: 0.00273) [1] 0.0016 - 0.0088 == -0.0072 [2] 0.0079 - 0.0095 == -0.0016 [3] 0.0170 - 0.0151 == 0.0019 [4] 0.0192 - 0.0197 == -0.0005 [5] 0.0284 - 0.0259 == 0.0025 [6] 0.0286 - 0.0268 == 0.0018 [7] 0.0338 - 0.0362 == -0.0024 [8] 0.0343 - 0.0394 == -0.0051 [9] 0.0433 - 0.0457 == -0.0024 ... ── Failure ('test_rotateStat_pFdr.R:32:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ── sort(pFdr(res1, "fdr.q"))[1:10] not equal to c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1). 7/10 mismatches (average diff: 0.133) [1] 0.150 - 0.870 == -7.20e-01 [2] 0.780 - 0.940 == -1.60e-01 [3] 0.954 - 0.993 == -3.86e-02 [4] 0.990 - 0.998 == -8.63e-03 [5] 1.000 - 1.000 == -4.12e-04 [6] 1.000 - 1.000 == -2.78e-05 [7] 1.000 - 1.000 == -1.54e-05 ── Failure ('test_rotateStat_pFdr.R:33:3'): Test execution of rotateStat (including parallel computation mode), pFdr with "fdr.q" and "fdr.qu" ── sort(pFdr(res1, "fdr.qu"))[1:10] not equal to c(0.87, 0.94, 0.99303, 0.99844, 0.99992, 0.99999, 1, 1, 1, 1). 7/10 mismatches (average diff: 0.133) [1] 0.150 - 0.870 == -7.20e-01 [2] 0.780 - 0.940 == -1.60e-01 [3] 0.954 - 0.993 == -3.86e-02 [4] 0.990 - 0.998 == -8.63e-03 [5] 1.000 - 1.000 == -4.12e-04 [6] 1.000 - 1.000 == -2.78e-05 [7] 1.000 - 1.000 == -1.54e-05 [ FAIL 3 | WARN 0 | SKIP 0 | PASS 16 ] Error: Test failures Execution halted
randRotation.Rcheck/randRotation-Ex.timings
name | user | system | elapsed | |
X_decomp | 0.001 | 0.000 | 0.001 | |
contrastModel | 0.005 | 0.000 | 0.005 | |
initRandrot | 0.013 | 0.000 | 0.013 | |
initRandrotW | 0.025 | 0.000 | 0.025 | |
pFdr | 9.572 | 0.292 | 9.883 | |
qqunif | 0.019 | 0.000 | 0.019 | |
randorth | 0.073 | 0.000 | 0.079 | |
randpermut | 0.001 | 0.000 | 0.000 | |
randrot | 0.009 | 0.004 | 0.013 | |
rotateStat | 0.365 | 0.056 | 0.422 | |
weights | 0.007 | 0.004 | 0.012 | |