Ellis Patrick
| Snapshot Date: 2024-11-21 07:30 -0500 (Thu, 21 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/SpatialDatasets |
| git_branch: devel |
| git_last_commit: 4d2db5a |
| git_last_commit_date: 2024-10-29 09:55:03 -0500 (Tue, 29 Oct 2024) |
| Back to Build/check report for BioC 3.21 experimental data |
|
This page was generated on 2024-11-21 15:01 -0500 (Thu, 21 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4742 |
| 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 375/429 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
| SpatialDatasets 1.5.0 (landing page) Ellis Patrick
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | |||||||
|
To the developers/maintainers of the SpatialDatasets 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: SpatialDatasets |
| Version: 1.5.0 |
| Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:SpatialDatasets.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings SpatialDatasets_1.5.0.tar.gz |
| StartedAt: 2024-11-21 14:01:54 -0500 (Thu, 21 Nov 2024) |
| EndedAt: 2024-11-21 14:08:39 -0500 (Thu, 21 Nov 2024) |
| EllapsedTime: 404.8 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: SpatialDatasets.Rcheck |
| Warnings: 3 |
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### Running command:
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### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:SpatialDatasets.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings SpatialDatasets_1.5.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets.Rcheck’
* using R Under development (unstable) (2024-10-21 r87258)
* 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 ‘SpatialDatasets/DESCRIPTION’ ... OK
* this is package ‘SpatialDatasets’ version ‘1.5.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
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 ‘SpatialDatasets’ can be installed ... WARNING
Found the following significant warnings:
Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets/man/SpatialDatasets.Rd:46: unexpected section header '\value'
Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets/man/SpatialDatasets.Rd:49: unexpected section header '\examples'
Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets/man/SpatialDatasets.Rd:54: unexpected END_OF_INPUT '
See ‘/home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets.Rcheck/00install.out’ for details.
* 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 ... WARNING
prepare_Rd: ./man/SpatialDatasets.Rd:46: unexpected section header '\value'
prepare_Rd: ./man/SpatialDatasets.Rd:49: unexpected section header '\examples'
prepare_Rd: ./man/SpatialDatasets.Rd:54: unexpected END_OF_INPUT '
'
checkRd: (-1) SpatialDatasets.Rd:46-48: Lost braces
46 | \value{
| ^
checkRd: (-1) SpatialDatasets.Rd:49-53: Lost braces
49 | \examples{
| ^
* checking Rd metadata ... OK
* checking Rd cross-references ...Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets.Rcheck/00_pkg_src/SpatialDatasets/man/SpatialDatasets.Rd:46: unexpected section header '\value'
Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets.Rcheck/00_pkg_src/SpatialDatasets/man/SpatialDatasets.Rd:49: unexpected section header '\examples'
Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets.Rcheck/00_pkg_src/SpatialDatasets/man/SpatialDatasets.Rd:54: unexpected END_OF_INPUT '
'
OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
‘fergusonClinical’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* 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 ... NONE
* 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: 3 WARNINGs
See
‘/home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets.Rcheck/00check.log’
for details.
SpatialDatasets.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL SpatialDatasets ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’ * installing *source* package ‘SpatialDatasets’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets/man/SpatialDatasets.Rd:46: unexpected section header '\value' Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets/man/SpatialDatasets.Rd:49: unexpected section header '\examples' Warning: /home/biocbuild/bbs-3.21-data-experiment/meat/SpatialDatasets/man/SpatialDatasets.Rd:54: unexpected END_OF_INPUT ' ' *** 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 (SpatialDatasets)