William Wheeler
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/ASSET |
| Branch: RELEASE_3_6 |
| Last Commit: ee17e30 |
| Last Changed Date: 2017-10-30 12:40:07 -0400 (Mon, 30 Oct 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:23:12 -0400 (Thu, 12 Apr 2018).
| Package 76/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| ASSET 1.16.0 William Wheeler
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | [ WARNINGS ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
| Package: ASSET |
| Version: 1.16.0 |
| Command: rm -rf ASSET.buildbin-libdir ASSET.Rcheck && mkdir ASSET.buildbin-libdir ASSET.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ASSET.buildbin-libdir ASSET_1.16.0.tar.gz >ASSET.Rcheck\00install.out 2>&1 && cp ASSET.Rcheck\00install.out ASSET-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ASSET.buildbin-libdir --install="check:ASSET-install.out" --force-multiarch --no-vignettes --timings ASSET_1.16.0.tar.gz |
| StartedAt: 2018-04-11 22:17:14 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 22:22:46 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 332.0 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: ASSET.Rcheck |
| Warnings: 1 |
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### Running command:
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### rm -rf ASSET.buildbin-libdir ASSET.Rcheck && mkdir ASSET.buildbin-libdir ASSET.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ASSET.buildbin-libdir ASSET_1.16.0.tar.gz >ASSET.Rcheck\00install.out 2>&1 && cp ASSET.Rcheck\00install.out ASSET-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ASSET.buildbin-libdir --install="check:ASSET-install.out" --force-multiarch --no-vignettes --timings ASSET_1.16.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ASSET.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ASSET/DESCRIPTION' ... OK
* this is package 'ASSET' version '1.16.0'
* 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 whether package 'ASSET' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpcduKd6/R.INSTALL28dc352b421/ASSET/man/p.dlm.Rd:63: missing file link 'set.seed'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ASSET.Rcheck/00install.out' for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
License components with restrictions not permitted:
GPL-2 + file LICENSE
* 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 ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... 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 ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... 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
calcP1: no visible global function definition for 'pbinom'
dlm.pval: no visible global function definition for 'qnorm'
getCI: no visible global function definition for 'qnorm'
h.forest: no visible global function definition for 'title'
h.traits1: no visible global function definition for 'pnorm'
h.traits1: no visible global function definition for 'qnorm'
h.traits1: no visible global function definition for 'pchisq'
h.traits2: no visible global function definition for 'pchisq'
h.types0: no visible global function definition for 'pnorm'
h.types0: no visible global function definition for 'qnorm'
h.types0: no visible global function definition for 'pchisq'
p.bon: no visible global function definition for 'pnorm'
p.boot: no visible global function definition for 'qnorm'
prob.sim: no visible global function definition for 'qnorm'
traits.forest: no visible global function definition for 'pnorm'
traits.forest0: no visible global function definition for 'pnorm'
traits.meta: no visible global function definition for 'pnorm'
tube.pval: no visible global function definition for 'qnorm'
tube.pval: no visible global function definition for 'pnorm'
tubeSim: no visible global function definition for 'pnorm'
tubeSim: no visible global function definition for 'rbinom'
tubeSim: no visible global function definition for 'rnorm'
types.score: no visible global function definition for 'model.matrix'
types.score: no visible global function definition for 'as.formula'
types.score: no visible global function definition for 'glm'
types.score: no visible global function definition for 'binomial'
types.wald: no visible global function definition for 'model.frame'
types.wald: no visible global function definition for 'as.formula'
types.wald : <anonymous>: no visible global function definition for
'glm'
types.wald : <anonymous>: no visible global function definition for
'binomial'
types.wald : <anonymous>: no visible global function definition for
'as.formula'
types.wald: no visible global function definition for 'pnorm'
z.max: no visible global function definition for 'pnorm'
Undefined global functions or variables:
as.formula binomial glm model.frame model.matrix pbinom pchisq pnorm
qnorm rbinom rnorm title
Consider adding
importFrom("graphics", "title")
importFrom("stats", "as.formula", "binomial", "glm", "model.frame",
"model.matrix", "pbinom", "pchisq", "pnorm", "qnorm",
"rbinom", "rnorm")
to your NAMESPACE file.
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
h.traits 42.03 0.00 42.03
h.forestPlot 40.39 0.03 40.43
h.summary 39.97 0.08 40.04
h.types 24.79 0.00 24.79
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
h.types 23.25 0.01 23.27
h.forestPlot 11.61 0.05 11.65
h.traits 11.28 0.04 11.31
h.summary 11.22 0.01 11.24
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'runTests.R'
OK
** running tests for arch 'x64' ...
Running 'runTests.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 WARNING, 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/ASSET.Rcheck/00check.log'
for details.
ASSET.Rcheck/00install.out
install for i386
* installing *source* package 'ASSET' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'ASSET'
finding HTML links ... done
ASSET html
ex_trait html
ex_types html
h.forestPlot html
h.summary html
h.traits html
h.types html
p.dlm html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpcduKd6/R.INSTALL28dc352b421/ASSET/man/p.dlm.Rd:63: missing file link 'set.seed'
z.max html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'ASSET' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ASSET' as ASSET_1.16.0.zip
* DONE (ASSET)
In R CMD INSTALL
In R CMD INSTALL
|
ASSET.Rcheck/tests_i386/runTests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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.
> BiocGenerics:::testPackage("ASSET")
RUNIT TEST PROTOCOL -- Wed Apr 11 22:22:26 2018
***********************************************
Number of test functions: 4
Number of errors: 0
Number of failures: 0
1 Test Suite :
ASSET RUnit Tests - 4 test functions, 0 errors, 0 failures
Number of test functions: 4
Number of errors: 0
Number of failures: 0
There were 50 or more warnings (use warnings() to see the first 50)
>
> proc.time()
user system elapsed
20.06 0.04 20.09
|
ASSET.Rcheck/tests_x64/runTests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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.
> BiocGenerics:::testPackage("ASSET")
RUNIT TEST PROTOCOL -- Wed Apr 11 22:22:41 2018
***********************************************
Number of test functions: 4
Number of errors: 0
Number of failures: 0
1 Test Suite :
ASSET RUnit Tests - 4 test functions, 0 errors, 0 failures
Number of test functions: 4
Number of errors: 0
Number of failures: 0
There were 50 or more warnings (use warnings() to see the first 50)
>
> proc.time()
user system elapsed
14.01 0.17 14.18
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ASSET.Rcheck/examples_i386/ASSET-Ex.timings
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ASSET.Rcheck/examples_x64/ASSET-Ex.timings
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