Daniel Bunis
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/dittoSeq |
| git_branch: master |
| git_last_commit: b158b29 |
| git_last_commit_date: 2021-10-26 12:57:43 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:07:24 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 dittoSeq package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/dittoSeq.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 526/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| dittoSeq 1.7.0 (landing page) Daniel Bunis
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: dittoSeq |
| Version: 1.7.0 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:dittoSeq.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings dittoSeq_1.7.0.tar.gz |
| StartedAt: 2022-03-17 18:57:37 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 19:02:49 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 312.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: dittoSeq.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:dittoSeq.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings dittoSeq_1.7.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/dittoSeq.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'dittoSeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'dittoSeq' version '1.7.0'
* 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 'dittoSeq' 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 ... 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
dittoPlot 6.11 0.06 6.19
multi_dittoDimPlotVaryCells 5.16 0.00 5.16
* 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: OK
dittoSeq.Rcheck/00install.out
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL dittoSeq
###
##############################################################################
##############################################################################
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'dittoSeq' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'dittoSeq'
finding HTML links ... done
Darken html
Lighten html
Simulate html
addDimReduction html
finding level-2 HTML links ... done
addPrcomp html
demux.SNP.summary html
demux.calls.summary html
demuxlet.example html
dittoBarPlot html
dittoColors html
dittoDimPlot html
dittoDotPlot html
dittoFreqPlot html
dittoHeatmap html
dittoHex html
dittoPlot html
dittoPlotVarsAcrossGroups html
dittoScatterPlot html
dittoSeq html
gene html
getGenes html
getMetas html
getReductions html
importDemux html
importDittoBulk html
isBulk html
isGene html
isMeta html
meta html
metaLevels html
multi_dittoDimPlot html
multi_dittoDimPlotVaryCells html
multi_dittoPlot html
setBulk html
** 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 (dittoSeq)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'oposSOM' is missing or broken
done
dittoSeq.Rcheck/tests/testthat.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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)
> test_check("dittoSeq")
Loading required package: dittoSeq
Loading required package: ggplot2
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats
Attaching package: 'MatrixGenerics'
The following objects are masked from 'package:matrixStats':
colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
colWeightedMeans, colWeightedMedians, colWeightedSds,
colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
rowWeightedSds, rowWeightedVars
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
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, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: IRanges
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: 'Biobase'
The following object is masked from 'package:MatrixGenerics':
rowMedians
The following objects are masked from 'package:matrixStats':
anyMissing, rowMedians
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 716 ]
>
> proc.time()
user system elapsed
103.82 2.06 105.95
dittoSeq.Rcheck/dittoSeq-Ex.timings
| name | user | system | elapsed | |
| Darken | 0 | 0 | 0 | |
| Lighten | 0 | 0 | 0 | |
| Simulate | 1.86 | 0.07 | 1.94 | |
| addDimReduction | 0.77 | 0.16 | 0.92 | |
| addPrcomp | 0.78 | 0.03 | 0.82 | |
| demux.SNP.summary | 1.25 | 0.01 | 1.26 | |
| demux.calls.summary | 1.72 | 0.02 | 1.83 | |
| dittoBarPlot | 2.29 | 0.09 | 2.39 | |
| dittoColors | 0.03 | 0.00 | 0.03 | |
| dittoDimPlot | 3.80 | 0.06 | 3.86 | |
| dittoDotPlot | 1.70 | 0.00 | 1.71 | |
| dittoFreqPlot | 4.47 | 0.04 | 4.50 | |
| dittoHeatmap | 3.46 | 0.07 | 3.56 | |
| dittoHex | 4.40 | 0.04 | 4.45 | |
| dittoPlot | 6.11 | 0.06 | 6.19 | |
| dittoPlotVarsAcrossGroups | 2.08 | 0.03 | 2.11 | |
| dittoScatterPlot | 2.56 | 0.09 | 2.72 | |
| gene | 1.92 | 0.11 | 2.03 | |
| getGenes | 0.65 | 0.05 | 0.69 | |
| getMetas | 0.59 | 0.01 | 0.61 | |
| getReductions | 0.72 | 0.04 | 0.75 | |
| importDemux | 1.40 | 0.01 | 1.42 | |
| importDittoBulk | 0.66 | 0.00 | 0.65 | |
| isBulk | 1.02 | 0.03 | 1.05 | |
| isGene | 0.78 | 0.07 | 0.84 | |
| isMeta | 0.62 | 0.00 | 0.63 | |
| meta | 0.61 | 0.03 | 0.64 | |
| metaLevels | 0.63 | 0.03 | 0.66 | |
| multi_dittoDimPlot | 2.53 | 0.03 | 2.56 | |
| multi_dittoDimPlotVaryCells | 5.16 | 0.00 | 5.16 | |
| multi_dittoPlot | 3.67 | 0.01 | 3.69 | |
| setBulk | 0.77 | 0.02 | 0.78 | |