Mauro Castro
| Snapshot Date: 2024-05-08 14:00:19 -0400 (Wed, 08 May 2024) |
| git_url: https://git.bioconductor.org/packages/RedeR |
| git_branch: RELEASE_3_19 |
| git_last_commit: 8d94f7f |
| git_last_commit_date: 2024-04-30 10:24:58 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-05-09 11:41:20 -0400 (Thu, 09 May 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" | 4748 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4484 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4514 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4480 |
| 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 1724/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| RedeR 3.0.0 (landing page) Mauro Castro
| 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 | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the RedeR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RedeR.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: RedeR |
| Version: 3.0.0 |
| Command: /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD check --install=check:RedeR.install-out.txt --library=/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library --no-vignettes --timings RedeR_3.0.0.tar.gz |
| StartedAt: 2024-05-09 11:03:42 -0000 (Thu, 09 May 2024) |
| EndedAt: 2024-05-09 11:04:22 -0000 (Thu, 09 May 2024) |
| EllapsedTime: 40.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: RedeR.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD check --install=check:RedeR.install-out.txt --library=/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library --no-vignettes --timings RedeR_3.0.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/RedeR.Rcheck’
* using R version 4.4.0 beta (2024-04-15 r86425)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
gcc (GCC) 10.3.1
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 ‘RedeR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RedeR’ version ‘3.0.0’
* 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 ‘RedeR’ 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 whether startup messages can be suppressed ... 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) nestNodes-methods.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:53-54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) nestNodes-methods.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) startRedeR.Rd:38: Lost braces in \itemize; meant \describe ?
* 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 data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... 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
‘/home/biocbuild/bbs-3.19-bioc/meat/RedeR.Rcheck/00check.log’
for details.
RedeR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL RedeR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library’ * installing *source* package ‘RedeR’ ... ** using staged installation ** R ** data ** 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 (RedeR)
RedeR.Rcheck/RedeR-Ex.timings
| name | user | system | elapsed | |
| Deprecated | 0 | 0 | 0 | |
| RedPort | 0.001 | 0.004 | 0.004 | |
| RedeR-data1 | 0.054 | 0.001 | 0.055 | |
| RedeR-data2 | 0.014 | 0.004 | 0.018 | |
| addEdges-methods | 0.015 | 0.000 | 0.014 | |
| addGraph-methods | 0.015 | 0.000 | 0.016 | |
| addGraphToRedeR | 0.009 | 0.003 | 0.013 | |
| addLegendToRedeR | 0 | 0 | 0 | |
| addNodes-methods | 0.012 | 0.000 | 0.012 | |
| calld-methods | 0.002 | 0.000 | 0.002 | |
| deleteEdges-methods | 0.013 | 0.000 | 0.013 | |
| deleteNodes-methods | 0.012 | 0.000 | 0.012 | |
| exitRedeR | 0 | 0 | 0 | |
| exitd-methods | 0.002 | 0.000 | 0.002 | |
| getGraph-methods | 0.015 | 0.000 | 0.015 | |
| getGraphFromRedeR | 0.011 | 0.000 | 0.012 | |
| mergeOutEdges-methods | 0.010 | 0.004 | 0.014 | |
| nestNodes-methods | 0.148 | 0.003 | 0.152 | |
| ping-methods | 0.002 | 0.000 | 0.002 | |
| pingRedeR | 0 | 0 | 0 | |
| relax-methods | 0.015 | 0.000 | 0.014 | |
| relaxRedeR | 0.010 | 0.000 | 0.011 | |
| resetRedeR | 0 | 0 | 0 | |
| resetd-methods | 0.002 | 0.000 | 0.002 | |
| selectEdges-methods | 0.012 | 0.000 | 0.012 | |
| selectNodes-methods | 0.012 | 0.000 | 0.012 | |
| startRedeR | 0 | 0 | 0 | |
| subg | 0 | 0 | 0 | |
| transform.attributes | 0.026 | 0.004 | 0.029 | |
| updateLayoutFromRedeR | 0.012 | 0.000 | 0.012 | |
| version-methods | 0.002 | 0.000 | 0.002 | |