Guillaume Devailly
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/scFeatureFilter |
| Branch: RELEASE_3_7 |
| Last Commit: a1542d6 |
| Last Changed Date: 2018-04-30 10:35:49 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:31:06 -0400 (Wed, 17 Oct 2018).
| Package 1323/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| scFeatureFilter 1.0.0 Guillaume Devailly
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: scFeatureFilter |
| Version: 1.0.0 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:scFeatureFilter.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings scFeatureFilter_1.0.0.tar.gz |
| StartedAt: 2018-10-16 03:34:35 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 03:35:53 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 77.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: scFeatureFilter.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:scFeatureFilter.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings scFeatureFilter_1.0.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/scFeatureFilter.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘scFeatureFilter/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘scFeatureFilter’ version ‘1.0.0’
* 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 ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘scFeatureFilter’ 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 data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
plot_correlations_distributions 13.816 0.148 13.977
plot_metric 7.832 0.120 7.957
sc_feature_filter 6.664 0.124 6.791
plot_mean_variance 5.432 0.060 5.498
* 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
scFeatureFilter.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL scFeatureFilter ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’ * installing *source* package ‘scFeatureFilter’ ... ** 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 * DONE (scFeatureFilter)
scFeatureFilter.Rcheck/tests/testthat.Rout
R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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(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
> library(scFeatureFilter)
>
> test_check("scFeatureFilter")
══ testthat results ═══════════════════════════════════════════════════════════
OK: 34 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
5.496 0.284 5.779
scFeatureFilter.Rcheck/scFeatureFilter-Ex.timings
| name | user | system | elapsed | |
| bin_scdata | 4.520 | 0.220 | 4.747 | |
| calculate_cvs | 0.096 | 0.016 | 0.110 | |
| correlate_windows | 0.072 | 0.012 | 0.084 | |
| correlations_to_densities | 0.132 | 0.000 | 0.134 | |
| define_top_genes | 0.200 | 0.000 | 0.202 | |
| determine_bin_cutoff | 0.020 | 0.000 | 0.019 | |
| filter_expression_table | 0.052 | 0.000 | 0.052 | |
| get_mean_median | 0.068 | 0.000 | 0.067 | |
| plot_correlations_distributions | 13.816 | 0.148 | 13.977 | |
| plot_mean_variance | 5.432 | 0.060 | 5.498 | |
| plot_metric | 7.832 | 0.120 | 7.957 | |
| plot_top_window_autocor | 1.480 | 0.008 | 1.488 | |
| sc_feature_filter | 6.664 | 0.124 | 6.791 | |