Peter Haverty
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/gCrisprTools |
| Branch: RELEASE_3_7 |
| Last Commit: cc624bb |
| Last Changed Date: 2018-04-30 10:35:43 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:29:23 -0400 (Wed, 17 Oct 2018).
| Package 550/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| gCrisprTools 1.8.0 Peter Haverty
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: gCrisprTools |
| Version: 1.8.0 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:gCrisprTools.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings gCrisprTools_1.8.0.tar.gz |
| StartedAt: 2018-10-16 00:35:06 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 00:39:39 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 272.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: gCrisprTools.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:gCrisprTools.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings gCrisprTools_1.8.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/gCrisprTools.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 ‘gCrisprTools/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘gCrisprTools’ version ‘1.8.0’
* 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 ‘gCrisprTools’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 8.2Mb
sub-directories of 1Mb or more:
data 2.3Mb
* 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
ct.PantherPathwayEnrichment 77.348 1.540 80.629
ct.makeReport 20.284 0.576 20.899
ct.makeContrastReport 8.968 0.668 9.672
ct.guideCDF 7.428 0.300 7.735
ct.makeQCReport 5.956 0.288 6.266
ct.GCbias 5.776 0.068 5.854
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘unit.tests.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
‘/home/biocbuild/bbs-3.7-bioc/meat/gCrisprTools.Rcheck/00check.log’
for details.
gCrisprTools.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL gCrisprTools ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’ * installing *source* package ‘gCrisprTools’ ... ** R ** data ** 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 (gCrisprTools)
gCrisprTools.Rcheck/tests/unit.tests.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.
> #require("BiocGenerics", quietly = TRUE)
> BiocGenerics:::testPackage("gCrisprTools")
PANTHER.db version 1.0.4
RUNIT TEST PROTOCOL -- Tue Oct 16 00:39:36 2018
***********************************************
Number of test functions: 0
Number of errors: 0
Number of failures: 0
1 Test Suite :
gCrisprTools RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
3.008 0.128 3.132
gCrisprTools.Rcheck/gCrisprTools-Ex.timings
| name | user | system | elapsed | |
| aln | 0.004 | 0.000 | 0.020 | |
| ann | 0.136 | 0.000 | 0.146 | |
| ct.DirectionalTests | 0.340 | 0.056 | 0.406 | |
| ct.GCbias | 5.776 | 0.068 | 5.854 | |
| ct.PRC | 0.952 | 0.016 | 0.986 | |
| ct.PantherPathwayEnrichment | 77.348 | 1.540 | 80.629 | |
| ct.ROC | 0.152 | 0.004 | 0.157 | |
| ct.RRAaPvals | 1.632 | 0.068 | 1.705 | |
| ct.RRAalpha | 0.240 | 0.000 | 0.242 | |
| ct.alignmentChart | 0.000 | 0.004 | 0.005 | |
| ct.alphaBeta | 0.008 | 0.000 | 0.007 | |
| ct.ecdf | 0.004 | 0.000 | 0.001 | |
| ct.filterReads | 0.220 | 0.000 | 0.221 | |
| ct.gRNARankByReplicate | 0.408 | 0.008 | 0.415 | |
| ct.generateResults | 0.464 | 0.000 | 0.465 | |
| ct.guideCDF | 7.428 | 0.300 | 7.735 | |
| ct.inputCheck | 0.076 | 0.000 | 0.077 | |
| ct.makeContrastReport | 8.968 | 0.668 | 9.672 | |
| ct.makeQCReport | 5.956 | 0.288 | 6.266 | |
| ct.makeReport | 20.284 | 0.576 | 20.899 | |
| ct.normalizeBySlope | 1.028 | 0.056 | 1.085 | |
| ct.normalizeGuides | 3.292 | 0.108 | 3.406 | |
| ct.normalizeMedians | 0.712 | 0.036 | 0.751 | |
| ct.normalizeNTC | 0.876 | 0.028 | 0.904 | |
| ct.normalizeSpline | 1.016 | 0.032 | 1.048 | |
| ct.prepareAnnotation | 0.528 | 0.024 | 0.554 | |
| ct.preprocessFit | 1.784 | 0.124 | 1.908 | |
| ct.rawCountDensities | 0.124 | 0.004 | 0.132 | |
| ct.resultCheck | 0.104 | 0.004 | 0.110 | |
| ct.stackGuides | 4.088 | 0.164 | 4.256 | |
| ct.targetSetEnrichment | 0.108 | 0.004 | 0.114 | |
| ct.topTargets | 0.376 | 0.004 | 0.380 | |
| ct.viewControls | 0.240 | 0.004 | 0.243 | |
| ct.viewGuides | 0.308 | 0.016 | 0.323 | |
| es | 0.052 | 0.000 | 0.051 | |
| essential.genes | 0.004 | 0.000 | 0.002 | |
| fit | 0.168 | 0.004 | 0.171 | |
| resultsDF | 0.116 | 0.000 | 0.115 | |