Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-24 13:05:51 -0500 (Mon, 24 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4080
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4141
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for adSplit on tokay2


To the developers/maintainers of the adSplit package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/adSplit.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 20/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
adSplit 1.64.0  (landing page)
Claudio Lottaz
Snapshot Date: 2022-01-23 01:55:04 -0500 (Sun, 23 Jan 2022)
git_url: https://git.bioconductor.org/packages/adSplit
git_branch: RELEASE_3_14
git_last_commit: 32f150e
git_last_commit_date: 2021-10-26 11:49:19 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 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: adSplit
Version: 1.64.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:adSplit.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings adSplit_1.64.0.tar.gz
StartedAt: 2022-01-23 15:04:07 -0500 (Sun, 23 Jan 2022)
EndedAt: 2022-01-23 15:11:57 -0500 (Sun, 23 Jan 2022)
EllapsedTime: 469.8 seconds
RetCode: 0
Status:   OK  
CheckDir: adSplit.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:adSplit.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings adSplit_1.64.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/adSplit.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'adSplit/DESCRIPTION' ... OK
* this is package 'adSplit' version '1.64.0'
* 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 'adSplit' 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 line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking include directives in Makefiles ... 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-3.14-bioc/R/library/adSplit/libs/i386/adSplit.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.14-bioc/R/library/adSplit/libs/x64/adSplit.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
  Found 'printf', possibly from 'printf' (C)

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
randomDiana2means 33.91   0.53   34.46
makeEID2PROBESenv 29.01   0.56   29.58
drawRandomPS      26.93   0.71   27.63
adSplit            8.66   0.47   50.30
image.splitSet     0.20   0.05    6.34
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
makeEID2PROBESenv 35.19   0.64   35.83
randomDiana2means 34.64   0.81   35.45
drawRandomPS      33.17   1.07   34.24
adSplit            8.00   0.39   46.62
image.splitSet     0.25   0.03    6.72
* 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-3.14-bioc/meat/adSplit.Rcheck/00check.log'
for details.



Installation output

adSplit.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/adSplit_1.64.0.tar.gz && rm -rf adSplit.buildbin-libdir && mkdir adSplit.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=adSplit.buildbin-libdir adSplit_1.64.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL adSplit_1.64.0.zip && rm adSplit_1.64.0.tar.gz adSplit_1.64.0.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 51116  100 51116    0     0   329k      0 --:--:-- --:--:-- --:--:--  330k

install for i386

* installing *source* package 'adSplit' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c adSplit.cpp -o adSplit.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o adSplit.dll tmp.def adSplit.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/adSplit.buildbin-libdir/00LOCK-adSplit/00new/adSplit/libs/i386
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'adSplit'
    finding HTML links ... done
    adSplit-internal                        html  
    adSplit                                 html  
    diana2means                             html  
    drawRandomPS                            html  
    golubKEGGSplits                         html  
    hist.splitSet                           html  
    image.splitSet                          html  
    makeEID2PROBESenv                       html  
    print.split                             html  
    print.splitSet                          html  
    randomDiana2means                       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 'adSplit' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c adSplit.cpp -o adSplit.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o adSplit.dll tmp.def adSplit.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/adSplit.buildbin-libdir/adSplit/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'adSplit' as adSplit_1.64.0.zip
* DONE (adSplit)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'adSplit' successfully unpacked and MD5 sums checked

Tests output


Example timings

adSplit.Rcheck/examples_i386/adSplit-Ex.timings

nameusersystemelapsed
adSplit 8.66 0.4750.30
diana2means1.330.121.45
drawRandomPS26.93 0.7127.63
golubKEGGSplits000
hist.splitSet0.000.010.01
image.splitSet0.200.056.34
makeEID2PROBESenv29.01 0.5629.58
print.splitSet000
randomDiana2means33.91 0.5334.46

adSplit.Rcheck/examples_x64/adSplit-Ex.timings

nameusersystemelapsed
adSplit 8.00 0.3946.62
diana2means1.470.061.53
drawRandomPS33.17 1.0734.24
golubKEGGSplits000
hist.splitSet000
image.splitSet0.250.036.72
makeEID2PROBESenv35.19 0.6435.83
print.splitSet000
randomDiana2means34.64 0.8135.45