Aaron Lun
| Snapshot Date: 2024-05-06 14:00:02 -0400 (Mon, 06 May 2024) |
| git_url: https://git.bioconductor.org/packages/bluster |
| git_branch: RELEASE_3_19 |
| git_last_commit: 5b73704 |
| git_last_commit_date: 2024-04-30 11:25:24 -0400 (Tue, 30 Apr 2024) |
| Back to Mac ARM64 build report for BioC 3.19 |
|
This page was generated on 2024-05-07 11:32:30 -0400 (Tue, 07 May 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4461 |
| 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 230/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| bluster 1.14.0 (landing page) Aaron Lun
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | | |||||||
|
To the developers/maintainers of the bluster 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: bluster |
| Version: 1.14.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:bluster.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings bluster_1.14.0.tar.gz |
| StartedAt: 2024-05-06 20:02:37 -0400 (Mon, 06 May 2024) |
| EndedAt: 2024-05-06 20:03:24 -0400 (Mon, 06 May 2024) |
| EllapsedTime: 47.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: bluster.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:bluster.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings bluster_1.14.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/bluster.Rcheck’
* using R version 4.4.0 (2024-04-24)
* 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 13.6.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘bluster/DESCRIPTION’ ... OK
* this is package ‘bluster’ version ‘1.14.0’
* 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 ‘bluster’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
* used SDK: ‘MacOSX11.3.sdk’
* checking C++ specification ... NOTE
Specified C++11: please drop specification unless essential
* 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 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 ... 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
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: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/bluster.Rcheck/00check.log’
for details.
bluster.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL bluster ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘bluster’ ... ** using staged installation ** libs using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using C++11 using SDK: ‘MacOSX11.3.sdk’ clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c build_snn.cpp -o build_snn.o clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c sum_neighbor_weights.cpp -o sum_neighbor_weights.o clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o bluster.so RcppExports.o build_snn.o sum_neighbor_weights.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-bluster/00new/bluster/libs ** 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 ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bluster)
bluster.Rcheck/tests/testthat.Rout
R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20
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(bluster)
> test_check("bluster")
[ FAIL 0 | WARN 3 | SKIP 0 | PASS 2250 ]
[ FAIL 0 | WARN 3 | SKIP 0 | PASS 2250 ]
>
> proc.time()
user system elapsed
11.733 0.669 12.410
bluster.Rcheck/bluster-Ex.timings
| name | user | system | elapsed | |
| AffinityParam-class | 0.316 | 0.036 | 0.352 | |
| AgnesParam-class | 0.008 | 0.000 | 0.008 | |
| ClaraParam-class | 0.007 | 0.001 | 0.008 | |
| DbscanParam-class | 0.025 | 0.001 | 0.026 | |
| DianaParam-class | 0.007 | 0.000 | 0.007 | |
| DmmParam-class | 0.426 | 0.011 | 0.438 | |
| HclustParam-class | 0.041 | 0.007 | 0.048 | |
| KmeansParam-class | 0.003 | 0.001 | 0.003 | |
| MbkmeansParam-class | 1.959 | 0.058 | 2.019 | |
| NNGraphParam-class | 0.024 | 0.003 | 0.026 | |
| PamParam-class | 0.006 | 0.000 | 0.007 | |
| SomParam-class | 0.014 | 0.001 | 0.016 | |
| TwoStepParam-class | 0.194 | 0.001 | 0.195 | |
| approxSilhouette | 0.017 | 0.001 | 0.018 | |
| bootstrapStability | 0.053 | 0.002 | 0.057 | |
| clusterRMSD | 0.003 | 0.000 | 0.003 | |
| clusterRows | 0.225 | 0.017 | 0.241 | |
| clusterSweep | 0.149 | 0.003 | 0.152 | |
| compareClusterings | 0.064 | 0.002 | 0.065 | |
| defaultArguments | 0.001 | 0.000 | 0.001 | |
| linkClusters | 0.017 | 0.001 | 0.018 | |
| makeSNNGraph | 0.374 | 0.004 | 0.378 | |
| mergeCommunities | 0.01 | 0.00 | 0.01 | |
| neighborPurity | 0.050 | 0.001 | 0.050 | |
| nestedClusters | 0.011 | 0.000 | 0.012 | |
| pairwiseModularity | 0.269 | 0.004 | 0.272 | |
| pairwiseRand | 0.004 | 0.000 | 0.004 | |