Yinan Zheng
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/REMP |
| Branch: RELEASE_3_9 |
| Last Commit: f27d693 |
| Last Changed Date: 2019-10-05 03:51:13 -0400 (Sat, 05 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:37:47 -0400 (Wed, 16 Oct 2019).
| Package 1354/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| REMP 1.8.2 Yinan Zheng
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: REMP |
| Version: 1.8.2 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:REMP.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings REMP_1.8.2.tar.gz |
| StartedAt: 2019-10-16 06:25:51 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 06:44:10 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 1098.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: REMP.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:REMP.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings REMP_1.8.2.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/REMP.Rcheck'
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'REMP/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'REMP' version '1.8.2'
* 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 'REMP' 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 ... NOTE
'library' or 'require' calls in package code:
'IlluminaHumanMethylation450kanno.ilmn12.hg19'
'IlluminaHumanMethylationEPICanno.ilm10b2.hg19'
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
initREMP: no visible binding for global variable
'IlluminaHumanMethylation450kanno.ilmn12.hg19'
initREMP: no visible binding for global variable
'IlluminaHumanMethylationEPICanno.ilm10b2.hg19'
remprofile: no visible binding for global variable
'IlluminaHumanMethylation450kanno.ilmn12.hg19'
remprofile: no visible binding for global variable
'IlluminaHumanMethylationEPICanno.ilm10b2.hg19'
Undefined global functions or variables:
IlluminaHumanMethylation450kanno.ilmn12.hg19
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
* 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
fetchRMSK 16.74 1.08 52.06
remp 14.85 1.94 16.94
remprofile 11.22 0.89 13.14
rempTemplate 11.34 0.73 13.44
GRannot 9.92 1.33 28.20
initREMP 9.21 1.24 11.36
fetchRefSeqGene 6.03 0.81 7.83
getGM12878 5.91 0.25 8.50
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
remp 15.62 1.00 17.06
GRannot 13.76 1.00 15.86
fetchRMSK 13.20 0.79 15.14
remprofile 10.76 1.01 12.79
rempTemplate 10.57 0.91 12.33
initREMP 10.20 0.80 12.11
fetchRefSeqGene 6.61 0.46 10.62
getGM12878 6.34 0.36 6.70
grooMethy 3.27 0.39 6.60
* 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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.9-bioc/meat/REMP.Rcheck/00check.log'
for details.
REMP.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/REMP_1.8.2.tar.gz && rm -rf REMP.buildbin-libdir && mkdir REMP.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=REMP.buildbin-libdir REMP_1.8.2.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL REMP_1.8.2.zip && rm REMP_1.8.2.tar.gz REMP_1.8.2.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 76800 100 76800 0 0 1106k 0 --:--:-- --:--:-- --:--:-- 1250k
install for i386
* installing *source* package 'REMP' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'REMP'
finding HTML links ... done
Alu.hg19.demo html
finding level-2 HTML links ... done
Alu.hg38.demo html
GRannot html
REMP-package html
REMParcel-class html
REMProduct-class html
fetchRMSK html
fetchRefSeqGene html
findRECpG html
getBackend html
getGM12878 html
grooMethy html
initREMP html
options html
remp html
rempTemplate html
remprofile html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'REMP' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'REMP' as REMP_1.8.2.zip
* DONE (REMP)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'REMP' successfully unpacked and MD5 sums checked
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REMP.Rcheck/examples_i386/REMP-Ex.timings
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REMP.Rcheck/examples_x64/REMP-Ex.timings
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