Zheng Wei
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/enrichTF |
| Branch: RELEASE_3_11 |
| Last Commit: 2c22c83 |
| Last Changed Date: 2020-04-27 15:26:40 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:56:31 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE enrichTF PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 547/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| enrichTF 1.4.0 Zheng Wei
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |
| Package: enrichTF |
| Version: 1.4.0 |
| Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:enrichTF.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings enrichTF_1.4.0.tar.gz |
| StartedAt: 2020-10-17 03:44:29 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 04:01:10 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 1001.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: enrichTF.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:enrichTF.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings enrichTF_1.4.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/enrichTF.Rcheck'
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'enrichTF/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'enrichTF' version '1.4.0'
* 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 'enrichTF' 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
* loading checks for arch 'i386'
** 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 ... NOTE
Warning in options(stringsAsFactors = TRUE) :
'options(stringsAsFactors = TRUE)' is deprecated and will be disabled
A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.
Probably some imports need to be declared in the NAMESPACE file.
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** 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 ... NOTE
Warning in options(stringsAsFactors = TRUE) :
'options(stringsAsFactors = TRUE)' is deprecated and will be disabled
A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.
Probably some imports need to be declared in the NAMESPACE file.
** 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 ... NOTE
processing,TissueOpennessConserve: no visible binding for global
variable 'X2'
Undefined global functions or variables:
X2
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
GeneOntology 18.00 1.50 20.44
TissueOpennessSpecificity 19.22 0.28 20.04
GenBackground 5.81 1.38 130.84
Pipelines 1.55 0.36 20.20
MotifsInRegions 1.43 0.11 18.29
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
TissueOpennessSpecificity 19.94 0.03 20.51
GeneOntology 18.78 1.05 19.86
GenBackground 4.38 1.28 12.66
Pipelines 1.83 0.23 22.68
MotifsInRegions 1.48 0.08 20.22
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'testthat.R'
OK
** running tests for arch 'x64' ...
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: 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.11-bioc/meat/enrichTF.Rcheck/00check.log'
for details.
enrichTF.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/enrichTF_1.4.0.tar.gz && rm -rf enrichTF.buildbin-libdir && mkdir enrichTF.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=enrichTF.buildbin-libdir enrichTF_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL enrichTF_1.4.0.zip && rm enrichTF_1.4.0.tar.gz enrichTF_1.4.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 1004k 100 1004k 0 0 13.4M 0 --:--:-- --:--:-- --:--:-- 14.6M
install for i386
* installing *source* package 'enrichTF' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'enrichTF'
finding HTML links ... done
EnrichStep-class html
GenBackground html
finding level-2 HTML links ... done
GeneOntology html
MotifsInRegions html
Pipelines html
RegionConnectTargetGene html
SingleSampleReport html
TFsEnrichInRegions html
TissueOpennessConserve html
TissueOpennessSpecificity html
UnzipAndMergeBed html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning in options(stringsAsFactors = TRUE) :
'options(stringsAsFactors = TRUE)' is deprecated and will be disabled
** testing if installed package can be loaded from final location
Warning in options(stringsAsFactors = TRUE) :
'options(stringsAsFactors = TRUE)' is deprecated and will be disabled
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'enrichTF' ...
** testing if installed package can be loaded
Warning in options(stringsAsFactors = TRUE) :
'options(stringsAsFactors = TRUE)' is deprecated and will be disabled
* MD5 sums
packaged installation of 'enrichTF' as enrichTF_1.4.0.zip
* DONE (enrichTF)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'enrichTF' successfully unpacked and MD5 sums checked
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enrichTF.Rcheck/tests_i386/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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(enrichTF)
Loading required package: pipeFrame
Warning message:
In options(stringsAsFactors = TRUE) :
'options(stringsAsFactors = TRUE)' is deprecated and will be disabled
>
> test_check("enrichTF")
[1] "2020-10-17 03:59:40 EDT"
[1] "2020-10-17 03:59:40 EDT"
[1] "2020-10-17 03:59:40 EDT"
[1] "2020-10-17 03:59:40 EDT"
[1] "2020-10-17 03:59:40 EDT"
[1] "2020-10-17 03:59:40 EDT"
[1] "2020-10-17 03:59:41 EDT"
[1] "2020-10-17 03:59:41 EDT"
[1] "2020-10-17 03:59:41 EDT"
[1] "2020-10-17 03:59:41 EDT"
[1] "2020-10-17 03:59:41 EDT"
[1] "2020-10-17 03:59:41 EDT"
[1] "2020-10-17 03:59:58 EDT"
[1] "2020-10-17 03:59:58 EDT"
[1] "2020-10-17 03:59:59 EDT"
[1] "2020-10-17 03:59:59 EDT"
[1] "2020-10-17 03:59:59 EDT"
[1] "2020-10-17 03:59:59 EDT"
== testthat results ===========================================================
[ OK: 9 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
24.39 3.17 61.06
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enrichTF.Rcheck/tests_x64/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 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)
> library(enrichTF)
Loading required package: pipeFrame
Warning message:
In options(stringsAsFactors = TRUE) :
'options(stringsAsFactors = TRUE)' is deprecated and will be disabled
>
> test_check("enrichTF")
[1] "2020-10-17 04:00:38 EDT"
[1] "2020-10-17 04:00:38 EDT"
[1] "2020-10-17 04:00:38 EDT"
[1] "2020-10-17 04:00:38 EDT"
[1] "2020-10-17 04:00:38 EDT"
[1] "2020-10-17 04:00:38 EDT"
[1] "2020-10-17 04:00:41 EDT"
[1] "2020-10-17 04:00:41 EDT"
[1] "2020-10-17 04:00:41 EDT"
[1] "2020-10-17 04:00:41 EDT"
[1] "2020-10-17 04:00:41 EDT"
[1] "2020-10-17 04:00:41 EDT"
[1] "2020-10-17 04:01:01 EDT"
[1] "2020-10-17 04:01:01 EDT"
[1] "2020-10-17 04:01:01 EDT"
[1] "2020-10-17 04:01:01 EDT"
[1] "2020-10-17 04:01:01 EDT"
[1] "2020-10-17 04:01:01 EDT"
== testthat results ===========================================================
[ OK: 9 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
29.09 1.81 62.32
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enrichTF.Rcheck/examples_i386/enrichTF-Ex.timings
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enrichTF.Rcheck/examples_x64/enrichTF-Ex.timings
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