BioC 3.2: CHECK report for flowcatchR on moscato1

Package: flowcatchR

Version: 1.4.0

Command: rm -rf flowcatchR.buildbin-libdir flowcatchR.Rcheck && mkdir flowcatchR.buildbin-libdir flowcatchR.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowcatchR.buildbin-libdir flowcatchR_1.4.0.tar.gz >flowcatchR.Rcheck\00install.out 2>&1 && cp flowcatchR.Rcheck\00install.out flowcatchR-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=flowcatchR.buildbin-libdir --install="check:flowcatchR-install.out" --force-multiarch --no-vignettes --timings flowcatchR_1.4.0.tar.gz

StartedAt: 2016-04-23 02:15:45 -0700 (Sat, 23 Apr 2016)

EndedAt: 2016-04-23 02:18:14 -0700 (Sat, 23 Apr 2016)

EllapsedTime: 148.8 seconds

RetCode: 0

Status:  OK

CheckDir: flowcatchR.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf flowcatchR.buildbin-libdir flowcatchR.Rcheck && mkdir flowcatchR.buildbin-libdir flowcatchR.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowcatchR.buildbin-libdir flowcatchR_1.4.0.tar.gz >flowcatchR.Rcheck\00install.out 2>&1 && cp flowcatchR.Rcheck\00install.out flowcatchR-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=flowcatchR.buildbin-libdir --install="check:flowcatchR-install.out" --force-multiarch --no-vignettes --timings flowcatchR_1.4.0.tar.gz
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* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/flowcatchR.Rcheck'
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowcatchR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowcatchR' version '1.4.0'
* 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 ... NOTE
Found the following hidden files and directories:
  .travis.yml
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'flowcatchR' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.3Mb
  sub-directories of 1Mb or more:
    data   1.9Mb
    doc    3.0Mb
* 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 ... NOTE
'library' or 'require' call to 'EBImage' which was already attached by Depends.
  Please remove these calls from your code.
* 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 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' ... [19s] OK
** running examples for arch 'x64' ... [20s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
normalizeFrames 4.07   1.45    5.52
* 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
  'D:/biocbld/bbs-3.2-bioc/meat/flowcatchR.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'flowcatchR' ...
** R
** data
*** moving datasets to lazyload DB
** 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 'flowcatchR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowcatchR' as flowcatchR_1.4.0.zip
* DONE (flowcatchR)

name	user	system	elapsed
Frames	0.51	0.19	0.70
add.contours	0.02	0.00	0.02
channel.Frames	0.36	0.16	0.51
crop.Frames	0.48	0.09	0.58
export.Frames	0	0	0
export.particles	0	0	0
inspect.Frames	0.00	0.01	0.02
kinematics	0.5	0.0	0.5
length.Frames	0.14	0.04	0.17
link.particles	0.18	0.00	0.19
matchTrajToParticles	0.45	0.00	0.45
normalizeFrames	3.45	1.40	4.85
particles	0.02	0.00	0.06
penaltyFunctionGenerator	0	0	0
plot.TrajectorySet	0.28	0.02	0.30
plot2D.TrajectorySet	0.42	0.01	0.43
preprocess.Frames	1.31	0.19	2.53
read.Frames	0	0	0
read.particles	0	0	0
rotate.Frames	1.43	0.23	1.67
select.Frames	1.84	0.97	2.81
select.particles	0.03	0.00	0.03
shinyFlow	0	0	0
show-Frames-method	0.10	0.03	0.13
show-KinematicsFeatures-method	0.25	0.00	0.24
show-KinematicsFeaturesSet-method	0.26	0.00	0.27
show-LinkedParticleSet-method	0.17	0.00	0.17
show-ParticleSet-method	0.02	0.00	0.02
show-TrajectorySet-method	0.2	0.0	0.2
snap	0	0	0
trajectories	0.21	0.02	0.22

name	user	system	elapsed
Frames	0.55	0.21	0.75
add.contours	0.00	0.01	0.02
channel.Frames	0.47	0.05	0.51
crop.Frames	0.33	0.14	0.46
export.Frames	0	0	0
export.particles	0	0	0
inspect.Frames	0.00	0.01	0.02
kinematics	0.37	0.02	0.39
length.Frames	0.14	0.00	0.14
link.particles	0.17	0.02	0.19
matchTrajToParticles	0.35	0.00	0.34
normalizeFrames	4.07	1.45	5.52
particles	0.00	0.01	0.02
penaltyFunctionGenerator	0	0	0
plot.TrajectorySet	0.39	0.00	0.39
plot2D.TrajectorySet	0.56	0.02	0.58
preprocess.Frames	1.08	0.21	1.30
read.Frames	0	0	0
read.particles	0	0	0
rotate.Frames	1.06	0.20	1.26
select.Frames	2.0	1.2	3.2
select.particles	0.04	0.02	0.06
shinyFlow	0	0	0
show-Frames-method	0.14	0.01	0.16
show-KinematicsFeatures-method	0.25	0.00	0.25
show-KinematicsFeaturesSet-method	0.41	0.00	0.40
show-LinkedParticleSet-method	0.43	0.02	0.46
show-ParticleSet-method	0.04	0.00	0.03
show-TrajectorySet-method	0.49	0.03	0.53
snap	0	0	0
trajectories	0.44	0.01	0.45