Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-12-23 12:07 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
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 968/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HIPPO 1.18.0 (landing page) Tae Kim
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the HIPPO package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HIPPO.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: HIPPO |
Version: 1.18.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:HIPPO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings HIPPO_1.18.0.tar.gz |
StartedAt: 2024-12-20 22:11:05 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 22:14:36 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 211.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: HIPPO.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:HIPPO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings HIPPO_1.18.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/HIPPO.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HIPPO/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HIPPO’ 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 ‘HIPPO’ can be installed ... OK * checking installed package size ... OK * checking package 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 ... NOTE ensg_to_hgnc: no visible global function definition for ‘data’ ensg_to_hgnc: no visible binding for global variable ‘ensg_hgnc’ hippo: no visible global function definition for ‘is’ hippo_feature_heatmap: no visible binding for global variable ‘zvalue’ hippo_tsne_plot: no visible binding for global variable ‘K’ hippo_umap_plot: no visible binding for global variable ‘K’ preprocess_homogeneous: no visible global function definition for ‘is’ zero_proportion_plot: no visible binding for global variable ‘K’ zero_proportion_plot: no visible binding for global variable ‘zvalue’ zero_proportion_plot: no visible binding for global variable ‘featurecount’ Undefined global functions or variables: K data ensg_hgnc featurecount is zvalue Consider adding importFrom("methods", "is") importFrom("utils", "data") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods'). * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... 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 ‘/Users/biocbuild/bbs-3.20-bioc/meat/HIPPO.Rcheck/00check.log’ for details.
HIPPO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL HIPPO ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘HIPPO’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (HIPPO)
HIPPO.Rcheck/HIPPO-Ex.timings
name | user | system | elapsed | |
get_data_from_sce | 0.080 | 0.009 | 0.089 | |
get_hippo | 1.003 | 0.028 | 1.031 | |
get_hippo_diffexp | 0.820 | 0.033 | 0.853 | |
hippo | 0.243 | 0.013 | 0.257 | |
hippo_diagnostic_plot | 1.115 | 0.023 | 1.139 | |
hippo_diffexp | 0.665 | 0.027 | 0.693 | |
hippo_dimension_reduction | 0.785 | 0.063 | 0.851 | |
hippo_feature_heatmap | 0.481 | 0.025 | 0.509 | |
hippo_pca_plot | 0.380 | 0.015 | 0.398 | |
hippo_tsne_plot | 2.216 | 0.054 | 2.277 | |
hippo_umap_plot | 1.039 | 0.050 | 1.090 | |
nb_prob_zero | 0.000 | 0.000 | 0.001 | |
pois_prob_zero | 0 | 0 | 0 | |
preprocess_heterogeneous | 0.110 | 0.006 | 0.116 | |
preprocess_homogeneous | 0.122 | 0.013 | 0.136 | |
zero_proportion_plot | 0.797 | 0.017 | 0.813 | |
zinb_prob_zero | 0 | 0 | 0 | |