Back to Multiple platform build/check report for BioC 3.16
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2022-06-24 11:06:50 -0400 (Fri, 24 Jun 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4331
palomino4Windows Server 2022 Datacenterx644.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" 4136
lconwaymacOS 12.2.1 Montereyx86_644.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" 4147
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 Mulcom on palomino4


To the developers/maintainers of the Mulcom package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Mulcom.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? 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 1257/2118HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Mulcom 1.47.0  (landing page)
Claudio Isella
Snapshot Date: 2022-06-23 14:00:04 -0400 (Thu, 23 Jun 2022)
git_url: https://git.bioconductor.org/packages/Mulcom
git_branch: master
git_last_commit: aed8c03
git_last_commit_date: 2022-04-26 11:05:42 -0400 (Tue, 26 Apr 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: Mulcom
Version: 1.47.0
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Mulcom.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings Mulcom_1.47.0.tar.gz
StartedAt: 2022-06-24 03:44:08 -0400 (Fri, 24 Jun 2022)
EndedAt: 2022-06-24 03:45:42 -0400 (Fri, 24 Jun 2022)
EllapsedTime: 93.6 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: Mulcom.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Mulcom.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings Mulcom_1.47.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/Mulcom.Rcheck'
* using R version 4.2.0 Patched (2022-06-02 r82447 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'Mulcom/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Mulcom' version '1.47.0'
* 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 'Mulcom' can be installed ... OK
* checking installed package size ... OK
* checking package 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
* 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 x64 is not available
File 'F:/biocbuild/bbs-3.16-bioc/R/library/Mulcom/libs/x64/Mulcom.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (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' ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
  'Mulcom.Rmd'
Package has no Sweave vignette sources and no VignetteBuilder field.
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
       user system elapsed
mulInt 4.83   1.34    6.17
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 1 NOTE
See
  'F:/biocbuild/bbs-3.16-bioc/meat/Mulcom.Rcheck/00check.log'
for details.



Installation output

Mulcom.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.16/bioc/src/contrib/Mulcom_1.47.0.tar.gz && rm -rf Mulcom.buildbin-libdir && mkdir Mulcom.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Mulcom.buildbin-libdir Mulcom_1.47.0.tar.gz && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL Mulcom_1.47.0.zip && rm Mulcom_1.47.0.tar.gz Mulcom_1.47.0.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
  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 1119k  100 1119k    0     0  6927k      0 --:--:-- --:--:-- --:--:-- 6911k
only one architecture so ignoring '--merge-multiarch'
* installing *source* package 'Mulcom' ...
** using staged installation
** libs
g++ -std=gnu++11  -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG     -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c mulLibs.cc -o mulLibs.o
mulLibs.cc: In function 'void Single_SimulationC(double*, double*, double*, double*, double*, double*, int*, int*, int*, int*, int*)':
mulLibs.cc:708:17: warning: statement has no effect [-Wunused-value]
  708 |                 current_cluster ;
      |                 ^~~~~~~~~~~~~~~
mulLibs.cc: In function 'void Complete_SimulationC(double*, int*, double*, double*, int*, int*, int*, int*, int*)':
mulLibs.cc:1022:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
 1022 |                  for ( int i = 0 ; i < sss2.size() ; i++ ) {
      |                                    ~~^~~~~~~~~~~~~
mulLibs.cc:1023:46: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
 1023 |                          for ( int j = 0 ; j < harmonic_means.size() ; j++ ) {
      |                                            ~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -shared -s -static-libgcc -o Mulcom.dll tmp.def mulLibs.o -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.16-bioc/meat/Mulcom.buildbin-libdir/00LOCK-Mulcom/00new/Mulcom/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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
* MD5 sums
packaged installation of 'Mulcom' as Mulcom_1.47.0.zip
* DONE (Mulcom)
* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
package 'Mulcom' successfully unpacked and MD5 sums checked

Tests output


Example timings

Mulcom.Rcheck/Mulcom-Ex.timings

nameusersystemelapsed
MULCOM-class0.250.010.26
MULCOM_P0.310.000.31
mulCAND0.750.030.78
mulCalc0.190.030.22
mulDELTA0.180.020.20
mulDiff0.800.040.84
mulFSG0.700.020.72
mulIndex0.140.000.14
mulInt4.831.346.17
mulOpt3.600.454.05
mulOptPars0.620.020.64
mulOptPlot1.170.061.24
mulParOpt1.110.071.17
mulPerm0.610.000.61
mulPermC0.140.000.14
mulScores0.290.010.32