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This page was generated on 2024-04-18 11:32:06 -0400 (Thu, 18 Apr 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4388 |
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 79/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
AnVIL 1.14.3 (landing page) Marcel Ramos
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | OK | ![]() | |||||||
To the developers/maintainers of the AnVIL 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: AnVIL |
Version: 1.14.3 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:AnVIL.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings AnVIL_1.14.3.tar.gz |
StartedAt: 2024-04-17 05:41:41 -0400 (Wed, 17 Apr 2024) |
EndedAt: 2024-04-17 05:42:35 -0400 (Wed, 17 Apr 2024) |
EllapsedTime: 54.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: AnVIL.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:AnVIL.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings AnVIL_1.14.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/AnVIL.Rcheck’ * using R version 4.3.3 (2024-02-29) * using platform: aarch64-apple-darwin20 (64-bit) * 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 13.6.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘AnVIL/DESCRIPTION’ ... OK * this is package ‘AnVIL’ version ‘1.14.3’ * 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 ‘AnVIL’ 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 R 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 startup messages can be suppressed ... OK * checking dependencies in R code ... NOTE Unexported objects imported by ':::' calls: ‘rapiclient:::build_op_url’ ‘rapiclient:::get_parameters’ See the note in ?`:::` about the use of this operator. * 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 R/sysdata.rda ... OK * 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 in ‘inst/doc’ ... 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-3.18-bioc-mac-arm64/meat/AnVIL.Rcheck/00check.log’ for details.
AnVIL.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL AnVIL ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’ * installing *source* package ‘AnVIL’ ... ** 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 (AnVIL)
AnVIL.Rcheck/tests/testthat.Rout
R version 4.3.3 (2024-02-29) -- "Angel Food Cake" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 (64-bit) 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(AnVIL) Loading required package: dplyr Attaching package: 'dplyr' The following object is masked from 'package:testthat': matches The following objects are masked from 'package:stats': filter, lag The following objects are masked from 'package:base': intersect, setdiff, setequal, union > > test_check("AnVIL") [ FAIL 0 | WARN 7 | SKIP 4 | PASS 47 ] ══ Skipped tests (4) ═══════════════════════════════════════════════════════════ • !gcloud_exists() is TRUE (4): 'test_Services.R:2:5', 'test_api.R:2:5', 'test_api.R:38:5', 'test_gcloud_sdk.R:17:5' [ FAIL 0 | WARN 7 | SKIP 4 | PASS 47 ] > > proc.time() user system elapsed 3.744 0.762 5.749
AnVIL.Rcheck/AnVIL-Ex.timings
name | user | system | elapsed | |
Response | 0.014 | 0.034 | 0.058 | |
Service | 0.016 | 0.001 | 0.016 | |
Services | 0.350 | 0.049 | 0.432 | |
av | 0.023 | 0.053 | 0.096 | |
avnotebooks | 0.013 | 0.031 | 0.057 | |
avworkflow | 0.017 | 0.040 | 0.074 | |
avworkflow_configuration | 0.020 | 0.022 | 0.051 | |
avworkspace | 0.000 | 0.000 | 0.001 | |
drs | 0.005 | 0.012 | 0.019 | |
gadgets | 0 | 0 | 0 | |
gadgets_developer | 0.000 | 0.000 | 0.001 | |
gcloud | 0.011 | 0.032 | 0.054 | |
gsutil | 0.020 | 0.051 | 0.090 | |
install | 0.137 | 0.014 | 0.234 | |