Back to Mac ARM64 build report for BioC 3.17 |
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This page was generated on 2023-03-30 11:00:43 -0400 (Thu, 30 Mar 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kjohnson2 | macOS 12.6.1 Monterey | arm64 | R Under development (unstable) (2023-03-17 r83997) -- "Unsuffered Consequences" | 4168 |
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 |
To the developers/maintainers of the transcriptogramer package: Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
Package 2091/2195 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
transcriptogramer 1.21.0 (landing page) Diego Morais
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | OK | OK | OK | NA | ||||||||
Package: transcriptogramer |
Version: 1.21.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:transcriptogramer.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings transcriptogramer_1.21.0.tar.gz |
StartedAt: 2023-03-30 07:33:19 -0400 (Thu, 30 Mar 2023) |
EndedAt: 2023-03-30 07:39:34 -0400 (Thu, 30 Mar 2023) |
EllapsedTime: 374.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: transcriptogramer.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:transcriptogramer.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings transcriptogramer_1.21.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/transcriptogramer.Rcheck’ * using R Under development (unstable) (2023-03-17 r83997) * using platform: aarch64-apple-darwin20 (64-bit) * R was compiled by Apple clang version 13.0.0 (clang-1300.0.29.3) GNU Fortran (GCC) 12.0.1 20220312 (experimental) * running under: macOS Monterey 12.6.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘transcriptogramer/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘transcriptogramer’ version ‘1.21.0’ * 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 ‘transcriptogramer’ can be installed ... OK * checking installed package size ... NOTE installed size is 5.6Mb sub-directories of 1Mb or more: data 5.0Mb * 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 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 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 ‘tests’ ... OK * checking tests ... Running ‘runTests.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-3.17-bioc-mac-arm64/meat/transcriptogramer.Rcheck/00check.log’ for details.
transcriptogramer.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL transcriptogramer ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’ * installing *source* package ‘transcriptogramer’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (transcriptogramer)
transcriptogramer.Rcheck/tests/runTests.Rout
R Under development (unstable) (2023-03-17 r83997) -- "Unsuffered Consequences" Copyright (C) 2023 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. > BiocGenerics:::testPackage("transcriptogramer") preprocessing input data... step 1 of 1 calculating node properties... step 1 of 2 ** this may take some time... applying sliding window and mounting resulting data... step 2 of 2 ** this may take some time... done! mapping identifiers to ENSEMBL Peptide ID... step 1 of 2 averaging over all identifiers related to the same protein... step 2 of 2 done! applying sliding window and mounting resulting data... step 1 of 1 done! RUNIT TEST PROTOCOL -- Thu Mar 30 07:39:15 2023 *********************************************** Number of test functions: 3 Number of errors: 0 Number of failures: 0 1 Test Suite : transcriptogramer RUnit Tests - 3 test functions, 0 errors, 0 failures Number of test functions: 3 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 10.186 1.128 102.470
transcriptogramer.Rcheck/transcriptogramer-Ex.timings
name | user | system | elapsed | |
DE-method | 1.264 | 0.034 | 1.963 | |
DEsymbols | 0.175 | 0.154 | 0.513 | |
GPL570 | 0.733 | 0.463 | 1.838 | |
GSE9988 | 0.577 | 0.549 | 1.724 | |
Hs700 | 0.121 | 0.119 | 0.370 | |
Hs800 | 0.104 | 0.102 | 0.317 | |
Hs900 | 0.077 | 0.086 | 0.248 | |
HsBPTerms | 0.877 | 0.622 | 2.239 | |
Mm700 | 0.126 | 0.138 | 0.370 | |
Mm800 | 0.103 | 0.115 | 0.301 | |
Mm900 | 0.085 | 0.094 | 0.266 | |
Rn700 | 0.128 | 0.140 | 0.387 | |
Rn800 | 0.105 | 0.114 | 0.298 | |
Rn900 | 0.081 | 0.089 | 0.232 | |
Sc700 | 0.028 | 0.038 | 0.092 | |
Sc800 | 0.026 | 0.036 | 0.088 | |
Sc900 | 0.023 | 0.032 | 0.073 | |
Terms-method | 0.081 | 0.005 | 0.128 | |
association | 1.056 | 0.632 | 2.487 | |
clusterEnrichment-method | 0.037 | 0.003 | 0.056 | |
clusterVisualization-method | 0.066 | 0.006 | 0.113 | |
connectivityProperties-method | 0.038 | 0.003 | 0.061 | |
differentiallyExpressed-method | 0.065 | 0.005 | 0.102 | |
enrichmentPlot-method | 0.038 | 0.002 | 0.059 | |
orderingProperties-method | 0.066 | 0.002 | 0.102 | |
radius-method | 0.037 | 0.002 | 0.060 | |
transcriptogramPreprocess | 0.463 | 0.007 | 0.715 | |
transcriptogramStep1-method | 0.037 | 0.002 | 0.059 | |
transcriptogramStep2-method | 0.038 | 0.002 | 0.051 | |