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This page was generated on 2023-01-02 09:00:21 -0500 (Mon, 02 Jan 2023).

HostnameOSArch (*)R versionInstalled pkgs
palomino5Windows Server 2022 Datacenterx64R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" 4165
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INSTALL results for biovizBase on palomino5


To the developers/maintainers of the biovizBase package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 202/2158HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biovizBase 1.47.0  (landing page)
Michael Lawrence
Snapshot Date: 2022-12-28 11:00:06 -0500 (Wed, 28 Dec 2022)
git_url: https://git.bioconductor.org/packages/biovizBase
git_branch: master
git_last_commit: 73f68c1
git_last_commit_date: 2022-11-01 11:06:19 -0500 (Tue, 01 Nov 2022)
palomino5Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  

Summary

Package: biovizBase
Version: 1.47.0
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL biovizBase
StartedAt: 2022-12-28 16:08:43 -0500 (Wed, 28 Dec 2022)
EndedAt: 2022-12-28 16:09:29 -0500 (Wed, 28 Dec 2022)
EllapsedTime: 46.7 seconds
RetCode: 0
Status:   OK  

Command output

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### Running command:
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###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL biovizBase
###
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* installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library'
* installing *source* package 'biovizBase' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 12.2.0'
gcc  -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG     -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c R_init_biovizBase.c -o R_init_biovizBase.o
gcc  -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG     -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c bin_offsets.c -o bin_offsets.o
bin_offsets.c: In function 'scan_bam_bin_offsets':
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of 'strncmp' differ in signedness [-Wpointer-sign]
   57 |   if (strncmp(b, "BAI\1", 4))
      |               ^
      |               |
      |               Rbyte * {aka unsigned char *}
In file included from F:/biocbuild/bbs-3.17-bioc/R/include/R_ext/RS.h:34,
                 from F:/biocbuild/bbs-3.17-bioc/R/include/Rdefines.h:38,
                 from bin_offsets.h:1,
                 from bin_offsets.c:3:
c:\rtools43\x86_64-w64-mingw32.static.posix\include\string.h:86:35: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'}
   86 |   int __cdecl strncmp(const char *_Str1,const char *_Str2,size_t _MaxCount);
      |                       ~~~~~~~~~~~~^~~~~
gcc -shared -s -static-libgcc -o biovizBase.dll tmp.def R_init_biovizBase.o bin_offsets.o -Lc:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -Lc:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-biovizBase/00new/biovizBase/libs/x64
** R
** data
*** moving datasets to lazyload DB
** 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
* DONE (biovizBase)