Multiple platform build/check report for BioC 3.19 - BUILD BIN results for CardinalIO on palomino3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.0 (2024-04-24) -- "Puppy Cup"	4760
palomino3	Windows Server 2022 Datacenter	x64	4.4.0 (2024-04-24 ucrt) -- "Puppy Cup"	4494
merida1	macOS 12.7.4 Monterey	x86_64	4.4.0 (2024-04-24) -- "Puppy Cup"	4508
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.0 (2024-04-24) -- "Puppy Cup"	4466
palomino7	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4362
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*

BUILD BIN results for CardinalIO on palomino3

To the developers/maintainers of the CardinalIO package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CardinalIO.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: CardinalIO

Version: 1.2.1

Command: rm -rf CardinalIO.buildbin-libdir && mkdir CardinalIO.buildbin-libdir && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL --build --library=CardinalIO.buildbin-libdir CardinalIO_1.2.1.tar.gz

StartedAt: 2024-06-27 07:56:43 -0400 (Thu, 27 Jun 2024)

EndedAt: 2024-06-27 07:57:11 -0400 (Thu, 27 Jun 2024)

EllapsedTime: 28.2 seconds

RetCode: 0

Status: OK

PackageFile: CardinalIO_1.2.1.zip

PackageFileSize: 1.266 MiB

Command output

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### Running command:
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###   rm -rf CardinalIO.buildbin-libdir && mkdir CardinalIO.buildbin-libdir && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL --build --library=CardinalIO.buildbin-libdir CardinalIO_1.2.1.tar.gz
###
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* installing *source* package 'CardinalIO' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c CardinalIO.cpp -o CardinalIO.o
In file included from CardinalIO.h:5,
                 from CardinalIO.cpp:2:
imzML.h: In member function 'int imzML::get_params(pugi::xml_node, int, SEXP, SEXP)':
imzML.h:346:43: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
  346 |                         while ( node && i < count ) {
      |                                         ~~^~~~~~~
imzML.h:367:32: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
  367 |                         if ( i != count )
      |                              ~~^~~~~~~~
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c init.cpp -o init.o
In file included from CardinalIO.h:5,
                 from init.cpp:3:
imzML.h: In member function 'int imzML::get_params(pugi::xml_node, int, SEXP, SEXP)':
imzML.h:346:43: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
  346 |                         while ( node && i < count ) {
      |                                         ~~^~~~~~~
imzML.h:367:32: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'int' [-Wsign-compare]
  367 |                         if ( i != count )
      |                              ~~^~~~~~~~
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pugixml.cpp -o pugixml.o
pugixml.cpp:2303:23: warning: 'void pugi::impl::{anonymous}::as_utf8_end(char*, size_t, const wchar_t*, size_t)' defined but not used [-Wunused-function]
 2303 |         PUGI__FN void as_utf8_end(char* buffer, size_t size, const wchar_t* str, size_t length)
      |                       ^~~~~~~~~~~
pugixml.cpp:2297:25: warning: 'size_t pugi::impl::{anonymous}::as_utf8_begin(const wchar_t*, size_t)' defined but not used [-Wunused-function]
 2297 |         PUGI__FN size_t as_utf8_begin(const wchar_t* str, size_t length)
      |                         ^~~~~~~~~~~~~
pugixml.cpp:248:25: warning: 'size_t pugi::impl::{anonymous}::strlength_wide(const wchar_t*)' defined but not used [-Wunused-function]
  248 |         PUGI__FN size_t strlength_wide(const wchar_t* s)
      |                         ^~~~~~~~~~~~~~
g++ -std=gnu++17 -shared -s -static-libgcc -o CardinalIO.dll tmp.def CardinalIO.o init.o pugixml.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.19-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.19-bioc/meat/CardinalIO.buildbin-libdir/00LOCK-CardinalIO/00new/CardinalIO/libs/x64
** R
** 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 'CardinalIO' as CardinalIO_1.2.1.zip
* DONE (CardinalIO)