Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-01-02 09:00:26 -0500 (Mon, 02 Jan 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
palomino5 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" | 4165 |
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 deltaCaptureC package: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 497/2158 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
deltaCaptureC 1.13.0 (landing page) Michael Shapiro
| palomino5 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ||||||||
Package: deltaCaptureC |
Version: 1.13.0 |
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:deltaCaptureC.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings deltaCaptureC_1.13.0.tar.gz |
StartedAt: 2022-12-28 23:07:59 -0500 (Wed, 28 Dec 2022) |
EndedAt: 2022-12-28 23:11:43 -0500 (Wed, 28 Dec 2022) |
EllapsedTime: 224.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: deltaCaptureC.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:deltaCaptureC.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings deltaCaptureC_1.13.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/deltaCaptureC.Rcheck' * using R Under development (unstable) (2022-12-25 r83502 ucrt) * using platform: x86_64-w64-mingw32 (64-bit) * R was compiled by gcc.exe (GCC) 10.4.0 GNU Fortran (GCC) 10.4.0 * running under: Windows Server x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'deltaCaptureC/DESCRIPTION' ... OK * this is package 'deltaCaptureC' version '1.13.0' * 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 whether package 'deltaCaptureC' 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 dependencies in R code ... NOTE Namespace in Imports field not imported from: 'tictoc' All declared Imports should be used. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE getDeltaSE: warning in SummarizedExperiment(assay = list(delta = delta), colData = colData): partial argument match of 'assay' to 'assays' plotSignificantRegions: no visible binding for global variable 'ctr' plotSignificantRegions: no visible binding for global variable 'delta' plotSignificantRegions: no visible binding for global variable 'significance' Undefined global functions or variables: ctr delta significance * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed binSummarizedExperiment 59.03 0.61 59.68 getOverlapWeights 6.89 0.05 6.93 * 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: 2 NOTEs See 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/deltaCaptureC.Rcheck/00check.log' for details.
deltaCaptureC.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL deltaCaptureC ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library' * installing *source* package 'deltaCaptureC' ... ** 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 (deltaCaptureC)
deltaCaptureC.Rcheck/deltaCaptureC-Ex.timings
name | user | system | elapsed | |
binSummarizedExperiment | 59.03 | 0.61 | 59.68 | |
downshiftDFtoMatrix | 0 | 0 | 0 | |
generatePermutation | 0.02 | 0.00 | 0.01 | |
getDeltaSE | 0.2 | 0.0 | 0.2 | |
getLopsidedness | 0.06 | 0.00 | 0.07 | |
getMeanNormalizedCountsSE | 0.11 | 0.00 | 0.11 | |
getNormalizedCountsSE | 0.11 | 0.00 | 0.11 | |
getOverlapWeights | 6.89 | 0.05 | 6.93 | |
getPValueCutoff | 0 | 0 | 0 | |
getRunTotals | 0.08 | 0.00 | 0.08 | |
getSizeFactorsDF | 0.02 | 0.00 | 0.02 | |
getSizeFactorsSE | 0 | 0 | 0 | |
plotSignificantRegions | 0.04 | 0.00 | 0.04 | |
rebinToMultiple | 0.33 | 0.00 | 0.33 | |