Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
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 69/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
annmap 1.49.0 (landing page) Chris Wirth
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | ... NOT SUPPORTED ... | ||||||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | WARNINGS | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
To the developers/maintainers of the annmap package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/annmap.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: annmap |
Version: 1.49.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:annmap.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings annmap_1.49.0.tar.gz |
StartedAt: 2024-12-24 03:39:53 -0000 (Tue, 24 Dec 2024) |
EndedAt: 2024-12-24 03:43:21 -0000 (Tue, 24 Dec 2024) |
EllapsedTime: 208.3 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: annmap.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:annmap.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings annmap_1.49.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/annmap.Rcheck’ * using R Under development (unstable) (2024-11-24 r87369) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘annmap/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘annmap’ version ‘1.49.0’ * 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 ... NOTE Found the following hidden files and directories: .BBSoptions These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘annmap’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Malformed Title field: should not end in a period. Malformed Description field: should contain one or more complete sentences. * checking top-level files ... NOTE File LICENSE is not mentioned in the DESCRIPTION file. * 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 loading without being on the library search path ... OK * checking whether startup messages can be suppressed ... OK * checking dependencies in R code ... NOTE 'library' or 'require' call to ‘rjson’ in package code. Please use :: or requireNamespace() instead. See section 'Suggested packages' in the 'Writing R Extensions' manual. There are ::: calls to the package's namespace in its code. A package almost never needs to use ::: for its own objects: ‘.make.hash’ * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE .get.stats.cache: no visible global function definition for ‘flush.console’ .layout.genes: no visible global function definition for ‘strwidth’ .load.and.parse: no visible global function definition for ‘fromJSON’ .read.databases: no visible global function definition for ‘read.table’ .single.transcript.coords.to.genome: no visible global function definition for ‘tail’ .xmc.connect: no visible global function definition for ‘menu’ .xmcws.connect: no visible global function definition for ‘fromJSON’ .xmcws.connect: no visible global function definition for ‘menu’ annmapAddConnection: no visible global function definition for ‘write.table’ annmapConnect: no visible global function definition for ‘install.packages’ arrayType: no visible global function definition for ‘menu’ convertBamToRle: no visible global function definition for ‘RangedData’ convertBamToRle : <anonymous>: no visible global function definition for ‘Rle’ geneToGeneRegionTrack : generate: no visible global function definition for ‘GeneRegionTrack’ generateBridgeData: no visible global function definition for ‘rainbow’ genomicPlot : <anonymous>: no visible global function definition for ‘rgb’ genomicPlot: no visible global function definition for ‘rgb’ ngsTracePlotter : local.draw: no visible global function definition for ‘runValue’ ngsTracePlotter: no visible global function definition for ‘modifyList’ ngsTraceScale : <anonymous>: no visible global function definition for ‘runValue’ seqnameMapping: no visible global function definition for ‘seqlevels<-’ seqnameMapping: no visible global function definition for ‘seqlevels’ Undefined global functions or variables: GeneRegionTrack RangedData Rle flush.console fromJSON install.packages menu modifyList rainbow read.table rgb runValue seqlevels seqlevels<- strwidth tail write.table Consider adding importFrom("grDevices", "rainbow", "rgb") importFrom("graphics", "strwidth") importFrom("utils", "flush.console", "install.packages", "menu", "modifyList", "read.table", "tail", "write.table") to your NAMESPACE file. * checking Rd files ... NOTE checkRd: (-1) NEWS.Rd:5: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:10: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:11: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:16: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:21: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:22: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:27: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:32: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:33: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:38: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:43: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:44: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:49: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:50: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:51: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:56: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:61: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:66: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:67: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:72: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:77: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:78: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:79: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:84: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:85: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:90: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:95: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:100: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:101: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:102: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:107: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:112: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:117: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:122: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:127: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:132: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:133: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:134: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:139: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:140: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:141: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:146: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:151: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:152: Lost braces in \itemize; meant \describe ? checkRd: (-1) NEWS.Rd:153: Lost braces in \itemize; meant \describe ? * checking Rd metadata ... OK * checking Rd cross-references ... WARNING Missing link(s) in Rd file 'annmap.range.Rd': ‘RangedData’ Missing link(s) in Rd file 'annmap.utils.Rd': ‘RangedData’ Missing link(s) in Rd file 'plot.ngs.Rd': ‘[IRanges]{Rle}’ See section 'Cross-references' in the 'Writing R Extensions' manual. Found the following Rd file(s) with Rd \link{} targets missing package anchors: annmap-package.Rd: GenomicRanges annmap.all.Rd: GRanges annmap.details.Rd: GRanges annmap.range.Rd: GRanges, RangedData annmap.to.Rd: GRanges annmap.utils.Rd: RangedData Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 Makefiles ... OK * checking for GNU extensions in Makefiles ... OK * checking include directives in Makefiles ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘doRUnit.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: 1 WARNING, 6 NOTEs See ‘/home/biocbuild/bbs-3.21-bioc/meat/annmap.Rcheck/00check.log’ for details.
annmap.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL annmap ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’ * installing *source* package ‘annmap’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading in method for ‘probesetInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘probeInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘proteinInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘domainInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘geneInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘transcriptInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘exonInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘estGeneInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘estTranscriptInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘estExonInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” in method for ‘predictionTranscriptInRange’ with signature ‘x="RangedData"’: no definition for class “RangedData” ** 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 (annmap)
annmap.Rcheck/tests/doRUnit.Rout
R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu 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. > if( require( "RUnit", quietly=TRUE ) ) { + pkg <- "annmap" + + if( Sys.getenv( "RCMDCHECK" ) == "FALSE" ) { + path <- file.path( getwd(), "..", "inst", "unitTests" ) + } + else { + path <- system.file( package=pkg, "unitTests" ) + } + + cat( "\nRunning unit tests\n" ) + print( list( pkg=pkg, getwd=getwd(), pathToUnitTests=path ) ) + library( package=pkg, character.only=TRUE ) + + annmapClearCache() + + # Run the old style RangedData for tim... + #annmapSetParam( oldstylekey='P0fSpS' ) + annmapSetParam( spacefn=if( annmap:::.usegranges() ) seqnames else space ) + annmapSetParam( defaultclass=if( annmap:::.usegranges() ) 'GRanges' else 'RangedData' ) + + #Fail on warnings + options( warn=2 ) + + # Get the pattern (if there is one?) + patt = Sys.getenv( "RUNITFILEPATTERN" ) + func = Sys.getenv( 'RUNITFUNCPATTERN' ) + if( is.null( patt ) || nchar( patt ) == 0 ) { + patt = "^runit.+\\.[rR]$" + } + else { + patt = paste( "^runit\\.", patt, "\\.[rR]$", sep="" ) + } + if( is.null( func ) || nchar( func ) == 0 ) { + func = "^test.+" + } + else { + func = paste( "^test\\.", func, ".+", sep="" ) + } + #testSuite <- defineTestSuite( name=paste( pkg, "unit testing" ), testFileRegexp=patt, testFuncRegexp=func, dirs=path ) + testSuite <- defineTestSuite( name=paste( pkg, "unit testing" ), testFileRegexp=patt, testFuncRegexp=func, dirs=path, rngKind="Mersenne-Twister" ) + tests <- runTestSuite( testSuite ) + + pathReport <- file.path( path, "report" ) + + cat( "------------------- UNIT TEST SUMMARY ---------------------\n\n" ) + printTextProtocol( tests, showDetails=FALSE ) + printTextProtocol( tests, showDetails=FALSE, fileName=paste( pathReport, "Summary.txt", sep="" ) ) + printTextProtocol( tests, showDetails=TRUE, fileName=paste( pathReport, ".txt", sep="" ) ) + + printHTMLProtocol( tests, fileName=paste( pathReport, ".html", sep="" ) ) + + tmp <- getErrors( tests ) + if( tmp$nFail > 0 | tmp$nErr > 0 ) { + stop( paste( "\n\nunit testing failed (#test failures: ", tmp$nFail, ", #R errors: ", tmp$nErr, ")\n\n", sep="" ) ) + } + } else { + warning( "cannot run unit tests -- package RUnit is not available" ) + } Running unit tests $pkg [1] "annmap" $getwd [1] "/home/biocbuild/bbs-3.21-bioc/meat/annmap.Rcheck/tests" $pathToUnitTests [1] "/home/biocbuild/tmp/RtmpOMSy8H/RLIBS_3f4ae233c17d91/annmap/unitTests" Loading required package: GenomicRanges Loading required package: stats4 Loading required package: BiocGenerics Loading required package: generics Attaching package: 'generics' The following objects are masked from 'package:base': as.difftime, as.factor, as.ordered, intersect, is.element, setdiff, setequal, union Attaching package: 'BiocGenerics' The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, saveRDS, table, tapply, unique, unsplit, which.max, which.min Loading required package: S4Vectors Attaching package: 'S4Vectors' The following object is masked from 'package:utils': findMatches The following objects are masked from 'package:base': I, expand.grid, unname Loading required package: IRanges Loading required package: GenomeInfoDb Using /home/biocbuild/.annmap as our configuration directory. Executing test function test.template ... done successfully. Executing test function test.all.queries ... [1] "\nSkipping allXXX tests, as not on a PICR machine" done successfully. Executing test function test.gotsomefunctions ... done successfully. Executing test function test.cache ... done successfully. Executing test function test.ANNMAP112 ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.huisun.ANNMAP48 ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.chaining ... [1] "Cannot find datasource 'hs-test' so skipping this test." done successfully. Executing test function test.addConnection ... Using /home/biocbuild/.annmap as our configuration directory. [1] "Got conf.dir /home/biocbuild/.annmap" Connection a added. Connection b added. Connection a updated. [1] "Resetting conf.dir to /home/biocbuild/.annmap" done successfully. Executing test function test.buildsql ... Using /home/biocbuild/.annmap as our configuration directory. [1] "Got conf.dir /home/biocbuild/.annmap" [1] "Resetting conf.dir to /home/biocbuild/.annmap" done successfully. Executing test function test.connection ... Using /home/biocbuild/.annmap as our configuration directory. [1] "Got conf.dir /home/biocbuild/.annmap" [1] "Cannot find datasource 'hs-test', so skipping these tests." [1] "Resetting conf.dir to /home/biocbuild/.annmap" done successfully. Executing test function test.databases.txt ... Using /home/biocbuild/.annmap as our configuration directory. [1] "Got conf.dir /home/biocbuild/.annmap" [1] "Mocking annmapConnect()" [1] "setting conf.dir to /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/annmap/unitTests/tabConfig" [1] "setting conf.dir to /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/annmap/unitTests/commaConfig" [1] "restoring connect method" [1] "Resetting conf.dir to /home/biocbuild/.annmap" done successfully. Executing test function test.details.queries ... [1] "Cannot find datasource 'hs-test', so skipping these tests." [1] "Cannot find datasource 'mm-test', so skipping these tests." [1] "Cannot find datasource 'rn-test', so skipping these tests." [1] "Cannot find datasource 'pb-test', so skipping these tests." done successfully. Executing test function test.gotsomefunctions ... done successfully. Executing test function test.filters ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.bug.ACBBUTIL33 ... [1] "Cannot find datasource 'mm-test', so skipping this test." done successfully. Executing test function test.bug.ANNMAP40 ... [1] "Cannot find datasource 'hs-test', so skipping this test." done successfully. Executing test function test.bug.ANNMAP44 ... [1] "Cannot find datasource 'hs-test', so skipping this test." done successfully. Executing test function test.gotsomefunctions ... done successfully. Executing test function test.multi.queries ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.range.queries ... [1] "Cannot find datasource 'hs-test', so skipping these tests." [1] "Cannot find datasource 'mm-test', so skipping these tests." [1] "Cannot find datasource 'rn-test', so skipping these tests." [1] "Cannot find datasource 'pb-test', so skipping these tests." done successfully. Executing test function test.expr.query ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.gotsomefunctions ... done successfully. Executing test function test.to.queries ... [1] "Cannot find datasource 'hs-test', so skipping these tests." [1] "Cannot find datasource 'mm-test', so skipping these tests." [1] "Cannot find datasource 'rn-test', so skipping these tests." [1] "Cannot find datasource 'pb-test', so skipping these tests." done successfully. Executing test function test.transcript.to.translatedprobes ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.ANNMAP.109 ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.ANNMAP.97 ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.ANNMAP.98 ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.array.type ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.make.params ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.needs.array ... done successfully. Executing test function test.rangeapply ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.reality ... done successfully. Executing test function test.seqnames ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.set.get.params ... done successfully. Executing test function test.ANNMAP118 ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.michal.utr.bug ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.michal.utr.bug.three ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.michal.utr.bug.two ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.utr ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. Executing test function test.yaoyong.utr.bug ... [1] "Cannot find datasource 'hs-test', so skipping these tests." done successfully. ------------------- UNIT TEST SUMMARY --------------------- RUNIT TEST PROTOCOL -- Tue Dec 24 03:43:16 2024 *********************************************** Number of test functions: 40 Number of errors: 0 Number of failures: 0 1 Test Suite : annmap unit testing - 40 test functions, 0 errors, 0 failures > > proc.time() user system elapsed 8.827 0.324 9.740
annmap.Rcheck/annmap-Ex.timings
name | user | system | elapsed | |
annmap.all | 0 | 0 | 0 | |
annmap.coords | 0.001 | 0.000 | 0.002 | |
annmap.details | 0.000 | 0.000 | 0.001 | |
annmap.env | 0 | 0 | 0 | |
annmap.filters | 0 | 0 | 0 | |
annmap.range | 0 | 0 | 0 | |
annmap.seqname | 0 | 0 | 0 | |
annmap.spliceIndex | 0 | 0 | 0 | |
annmap.to | 0 | 0 | 0 | |
annmap.utils | 0.001 | 0.000 | 0.001 | |
annmap.utr | 0 | 0 | 0 | |