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This page was generated on 2021-09-24 15:06:30 -0400 (Fri, 24 Sep 2021).

CHECK results for tigre on tokay2

To the developers/maintainers of the tigre package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/tigre.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1915/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
tigre 1.46.0  (landing page)
Antti Honkela
Snapshot Date: 2021-09-23 04:50:12 -0400 (Thu, 23 Sep 2021)
git_url: https://git.bioconductor.org/packages/tigre
git_branch: RELEASE_3_13
git_last_commit: 95c5a86
git_last_commit_date: 2021-05-19 11:45:13 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: tigre
Version: 1.46.0
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:tigre.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings tigre_1.46.0.tar.gz
StartedAt: 2021-09-24 05:45:45 -0400 (Fri, 24 Sep 2021)
EndedAt: 2021-09-24 05:48:56 -0400 (Fri, 24 Sep 2021)
EllapsedTime: 191.7 seconds
RetCode: 0
Status:   OK  
CheckDir: tigre.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:tigre.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings tigre_1.46.0.tar.gz
###
##############################################################################
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/tigre.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'tigre/DESCRIPTION' ... OK
* this is package 'tigre' version '1.46.0'
* 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 'tigre' 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 ... 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.13-bioc/R/library/tigre/libs/i386/tigre.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
File 'C:/Users/biocbuild/bbs-3.13-bioc/R/library/tigre/libs/x64/tigre.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
            user system elapsed
processData 5.52   0.42    5.94
** 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-3.13-bioc/meat/tigre.Rcheck/00check.log'
for details.



Installation output

tigre.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/tigre_1.46.0.tar.gz && rm -rf tigre.buildbin-libdir && mkdir tigre.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=tigre.buildbin-libdir tigre_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL tigre_1.46.0.zip && rm tigre_1.46.0.tar.gz tigre_1.46.0.zip
###
##############################################################################
##############################################################################


  % 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 85630  100 85630    0     0   535k      0 --:--:-- --:--:-- --:--:--  539k

install for i386

* installing *source* package 'tigre' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"c:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c miscCFunctions.c -o miscCFunctions.o
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o tigre.dll tmp.def miscCFunctions.o -Lc:/extsoft/lib/i386 -Lc:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/tigre.buildbin-libdir/00LOCK-tigre/00new/tigre/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'tigre'
    finding HTML links ... done
    ExpressionTimeSeries-class              html  
    finding level-2 HTML links ... done

    GPLearn                                 html  
    GPModel-class                           html  
    GPPlot                                  html  
    GPRankTargets                           html  
    SCGoptim                                html  
    drosophila_gpsim_fragment               html  
    drosophila_mmgmos_fragment              html  
    expTransform                            html  
    export                                  html  
    generateModels                          html  
    gpsimCreate                             html  
    kernCompute                             html  
    kernCreate                              html  
    kernDiagGradX                           html  
    kernGradient                            html  
    lnDiffErfs                              html  
    modelDisplay                            html  
    modelExpandParam                        html  
    modelExtractParam                       html  
    modelGradient                           html  
    modelTieParam                           html  
    optimiDefaultConstraint                 html  
    plotTimeseries                          html  
    processData                             html  
    scoreList-class                         html  
    tigre-package                           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 'tigre' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c miscCFunctions.c -o miscCFunctions.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o tigre.dll tmp.def miscCFunctions.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/tigre.buildbin-libdir/tigre/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'tigre' as tigre_1.46.0.zip
* DONE (tigre)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'tigre' successfully unpacked and MD5 sums checked

Tests output


Example timings

tigre.Rcheck/examples_i386/tigre-Ex.timings

nameusersystemelapsed
ExpressionTimeSeries-class000
GPLearn1.200.042.90
GPModel-class000
GPPlot000
GPRankTargets000
SCGoptim000
expTransform000
export000
generateModels000
gpsimCreate000
kernCompute000
kernCreate0.050.000.05
kernDiagGradX000
kernGradient000
lnDiffErfs000
modelDisplay0.100.020.13
modelExpandParam000
modelExtractParam0.220.030.25
modelGradient0.130.000.12
modelTieParam000
optimiDefaultConstraint000
plotTimeseries0.510.010.92
processData5.520.425.94
scoreList-class000
tigre-package000

tigre.Rcheck/examples_x64/tigre-Ex.timings

nameusersystemelapsed
ExpressionTimeSeries-class000
GPLearn0.890.090.98
GPModel-class000
GPPlot000
GPRankTargets000
SCGoptim000
expTransform000
export000
generateModels000
gpsimCreate000
kernCompute000
kernCreate000
kernDiagGradX000
kernGradient000
lnDiffErfs000
modelDisplay0.420.000.42
modelExpandParam000
modelExtractParam0.10.00.1
modelGradient0.120.020.14
modelTieParam000
optimiDefaultConstraint000
plotTimeseries0.110.020.12
processData3.810.294.11
scoreList-class000
tigre-package000