Back to Build/check report for BioC 3.20 experimental data |
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This page was generated on 2024-09-24 09:42 -0400 (Tue, 24 Sep 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" | 4630 |
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 364/426 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
SingleCellMultiModal 1.17.3 (landing page) Marcel Ramos
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ||||||||
To the developers/maintainers of the SingleCellMultiModal package: - 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: SingleCellMultiModal |
Version: 1.17.3 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:SingleCellMultiModal.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings SingleCellMultiModal_1.17.3.tar.gz |
StartedAt: 2024-09-24 08:08:10 -0400 (Tue, 24 Sep 2024) |
EndedAt: 2024-09-24 08:18:54 -0400 (Tue, 24 Sep 2024) |
EllapsedTime: 644.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SingleCellMultiModal.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:SingleCellMultiModal.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings SingleCellMultiModal_1.17.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-data-experiment/meat/SingleCellMultiModal.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * checking for file ‘SingleCellMultiModal/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘SingleCellMultiModal’ version ‘1.17.3’ * 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 ‘SingleCellMultiModal’ 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 ... NOTE .CITEseqMaeToSce: no visible global function definition for ‘altExps<-’ .CITEseqMaeToSce: no visible global function definition for ‘altExp’ .CITEseqMaeToSce: no visible global function definition for ‘assays<-’ .CITEseqMaeToSce: no visible global function definition for ‘altExp<-’ .CITEseqMaeToSce: no visible global function definition for ‘SimpleList’ Undefined global functions or variables: SimpleList altExp altExp<- altExps<- assays<- * checking Rd files ... NOTE checkRd: (-1) scNMT.Rd:69: Lost braces 69 | \item{met_}} - DNA methylation | ^ checkRd: (-1) scNMT.Rd:82: Lost braces 82 | url{https://github.com/BIRSBiointegration/Hackathon/tree/master/scNMT-seq} | ^ * 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 CITEseq 10.789 1.315 12.697 SingleCellMultiModal 4.303 0.398 5.464 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/biocbuild/bbs-3.20-data-experiment/meat/SingleCellMultiModal.Rcheck/00check.log’ for details.
SingleCellMultiModal.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL SingleCellMultiModal ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘SingleCellMultiModal’ ... ** using staged installation ** R ** 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 (SingleCellMultiModal)
SingleCellMultiModal.Rcheck/SingleCellMultiModal-Ex.timings
name | user | system | elapsed | |
CITEseq | 10.789 | 1.315 | 12.697 | |
GTseq | 0.788 | 0.013 | 0.928 | |
SCoPE2 | 1.000 | 0.065 | 1.264 | |
SingleCellMultiModal-package | 0.006 | 0.004 | 0.009 | |
SingleCellMultiModal | 4.303 | 0.398 | 5.464 | |
ontomap | 0.003 | 0.000 | 0.002 | |
scMultiome | 1.188 | 0.030 | 1.434 | |
scNMT | 3.058 | 0.056 | 3.700 | |
scmmCache | 0.000 | 0.001 | 0.001 | |
seqFISH | 1.403 | 0.033 | 1.682 | |