BioC 3.0: CHECK report for mQTL.NMR on moscato1

Package: mQTL.NMR

Version: 1.0.0

Command: rm -rf mQTL.NMR.buildbin-libdir mQTL.NMR.Rcheck && mkdir mQTL.NMR.buildbin-libdir mQTL.NMR.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=mQTL.NMR.buildbin-libdir mQTL.NMR_1.0.0.tar.gz >mQTL.NMR.Rcheck\00install.out 2>&1 && cp mQTL.NMR.Rcheck\00install.out mQTL.NMR-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=mQTL.NMR.buildbin-libdir --install="check:mQTL.NMR-install.out" --force-multiarch --no-vignettes --timings mQTL.NMR_1.0.0.tar.gz

StartedAt: 2015-04-10 03:25:16 -0700 (Fri, 10 Apr 2015)

EndedAt: 2015-04-10 03:33:03 -0700 (Fri, 10 Apr 2015)

EllapsedTime: 466.7 seconds

RetCode: 0

Status: OK

CheckDir: mQTL.NMR.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf mQTL.NMR.buildbin-libdir mQTL.NMR.Rcheck && mkdir mQTL.NMR.buildbin-libdir mQTL.NMR.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=mQTL.NMR.buildbin-libdir mQTL.NMR_1.0.0.tar.gz >mQTL.NMR.Rcheck\00install.out 2>&1 && cp mQTL.NMR.Rcheck\00install.out mQTL.NMR-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=mQTL.NMR.buildbin-libdir --install="check:mQTL.NMR-install.out" --force-multiarch --no-vignettes --timings mQTL.NMR_1.0.0.tar.gz
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* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/mQTL.NMR.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'mQTL.NMR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'mQTL.NMR' version '1.0.0'
* 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 'mQTL.NMR' 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
** 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 ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [201s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
mQTL.NMR-package 59.98   0.20   60.66
pre_mQTL         52.80   0.02   52.82
align_mQTL       51.18   0.04   51.21
process_mGWA      6.79   0.01    7.31
** running examples for arch 'x64' ... [195s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
mQTL.NMR-package 57.05   0.09   57.54
pre_mQTL         55.00   0.08   55.08
align_mQTL       49.78   0.03   49.82
process_mGWA      6.27   0.01    6.38
* 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


install for i386

* installing *source* package 'mQTL.NMR' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'mQTL.NMR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'mQTL.NMR' as mQTL.NMR_1.0.0.zip
* DONE (mQTL.NMR)

name	user	system	elapsed
SRV	1.78	0.01	1.79
SRV.plot	2.78	0.03	2.82
SRV_lod.plot	0.14	0.02	0.16
Top_SRV.plot	2.91	0.01	2.93
alignSp	1.09	0.00	1.10
align_mQTL	51.18	0.04	51.21
attachSegments	1.06	0.01	1.08
circle_mQTL	0.2	0.0	0.2
configureRSPA	0.02	0.02	0.03
format_mGWA	0.97	0.01	1.09
format_mQTL	2.01	0.02	2.03
load_datafiles	0.04	0.03	0.06
load_demo_data	0	0	0
mQTL.NMR-package	59.98	0.20	60.66
matchSegments	1.25	0.06	1.32
normalise	0.53	0.00	0.53
normalise_mQTL	4.43	0.04	4.49
peakPeaks	0.49	0.01	0.50
post_mQTL	0.21	0.08	0.33
ppersp	0.07	0.05	0.10
pplot	0.03	0.04	0.08
pre_mQTL	52.80	0.02	52.82
process_mGWA	6.79	0.01	7.31
process_mQTL	1.43	0.04	1.47
segmentateSp	0.94	0.01	0.95
selectRefSp	1.98	0.00	1.98
setupRSPA	0.05	0.00	0.05
sgolay	0	0	0
sgolayDeriv	0.27	0.00	0.27
simple.plot	2.55	0.02	2.57
summary_mQTL	0.05	0.01	0.06

name	user	system	elapsed
SRV	2.02	0.05	2.06
SRV.plot	2.46	0.01	2.53
SRV_lod.plot	0.16	0.02	0.17
Top_SRV.plot	2.31	0.03	2.34
alignSp	1.07	0.00	1.08
align_mQTL	49.78	0.03	49.82
attachSegments	0.92	0.00	0.92
circle_mQTL	0.23	0.00	0.53
configureRSPA	0.02	0.02	0.03
format_mGWA	0.75	0.01	1.26
format_mQTL	1.46	0.00	1.47
load_datafiles	0.02	0.02	0.03
load_demo_data	0	0	0
mQTL.NMR-package	57.05	0.09	57.54
matchSegments	0.89	0.02	0.91
normalise	0.36	0.00	0.36
normalise_mQTL	3.23	0.06	3.29
peakPeaks	0.40	0.03	0.44
post_mQTL	0.24	0.05	0.31
ppersp	0.04	0.04	0.10
pplot	0.06	0.02	0.08
pre_mQTL	55.00	0.08	55.08
process_mGWA	6.27	0.01	6.38
process_mQTL	1.10	0.02	1.12
segmentateSp	0.92	0.00	0.92
selectRefSp	1.99	0.00	1.98
setupRSPA	0.01	0.01	0.04
sgolay	0.02	0.00	0.01
sgolayDeriv	0.32	0.00	0.33
simple.plot	2.38	0.04	2.42
summary_mQTL	0.03	0.03	0.06

BioC 3.0: CHECK report for mQTL.NMR on moscato1

Summary

Command output