Muhammad Ahmer Jamil
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/MethTargetedNGS |
| Branch: RELEASE_3_7 |
| Last Commit: 26b0cb8 |
| Last Changed Date: 2018-04-30 10:35:36 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:40:25 -0400 (Wed, 17 Oct 2018).
| Package 884/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| MethTargetedNGS 1.12.0 Muhammad Ahmer Jamil
| 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: MethTargetedNGS |
| Version: 1.12.0 |
| Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MethTargetedNGS.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings MethTargetedNGS_1.12.0.tar.gz |
| StartedAt: 2018-10-17 03:14:17 -0400 (Wed, 17 Oct 2018) |
| EndedAt: 2018-10-17 03:16:43 -0400 (Wed, 17 Oct 2018) |
| EllapsedTime: 146.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MethTargetedNGS.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MethTargetedNGS.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings MethTargetedNGS_1.12.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/MethTargetedNGS.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MethTargetedNGS/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MethTargetedNGS' version '1.12.0'
* 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 'MethTargetedNGS' 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 ... OK
** 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 ... 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 ... NOTE
compare_samples: no visible global function definition for 'par'
compare_samples: no visible global function definition for 'plot'
compare_samples: no visible global function definition for 'lines'
fishertest_cpg: no visible global function definition for 'fisher.test'
fishertest_cpg: no visible global function definition for 'p.adjust'
fishertest_cpg: no visible global function definition for 'barplot'
fishertest_cpg: no visible global function definition for 'abline'
methAlign: no visible global function definition for 'subject'
methAlign: no visible global function definition for 'pattern'
nhmmer: no visible global function definition for 'read.table'
nhmmer: no visible global function definition for 'setNames'
Undefined global functions or variables:
abline barplot fisher.test lines p.adjust par pattern plot read.table
setNames subject
Consider adding
importFrom("graphics", "abline", "barplot", "lines", "par", "plot")
importFrom("stats", "fisher.test", "p.adjust", "setNames")
importFrom("utils", "read.table")
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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
odd_ratio 6.94 0.00 6.94
compare_samples 6.80 0.12 6.97
** running examples for arch 'x64' ... 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
'C:/Users/biocbuild/bbs-3.7-bioc/meat/MethTargetedNGS.Rcheck/00check.log'
for details.
MethTargetedNGS.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/MethTargetedNGS_1.12.0.tar.gz && rm -rf MethTargetedNGS.buildbin-libdir && mkdir MethTargetedNGS.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MethTargetedNGS.buildbin-libdir MethTargetedNGS_1.12.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL MethTargetedNGS_1.12.0.zip && rm MethTargetedNGS_1.12.0.tar.gz MethTargetedNGS_1.12.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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100 14233 100 14233 0 0 252k 0 --:--:-- --:--:-- --:--:-- 289k
install for i386
* installing *source* package 'MethTargetedNGS' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'MethTargetedNGS'
finding HTML links ... done
MethTargetedNGS-package html
bconv html
compare_samples html
fishertest_cpg html
hmmbuild html
methAlign html
methAvg html
methEntropy html
methHeatmap html
nhmmer html
odd_ratio html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'MethTargetedNGS' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MethTargetedNGS' as MethTargetedNGS_1.12.0.zip
* DONE (MethTargetedNGS)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'MethTargetedNGS' successfully unpacked and MD5 sums checked
In R CMD INSTALL
|
MethTargetedNGS.Rcheck/examples_i386/MethTargetedNGS-Ex.timings
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MethTargetedNGS.Rcheck/examples_x64/MethTargetedNGS-Ex.timings
|