Mark Robinson
| Snapshot Date: 2025-06-12 13:40 -0400 (Thu, 12 Jun 2025) |
| git_url: https://git.bioconductor.org/packages/Repitools |
| git_branch: RELEASE_3_21 |
| git_last_commit: 5f0efc7 |
| git_last_commit_date: 2025-04-15 10:09:01 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-06-16 11:42 -0400 (Mon, 16 Jun 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4838 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4578 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4602 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.0 RC (2025-04-04 r88129) -- "How About a Twenty-Six" | 4556 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4576 |
| 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 | ||||
| Package 1752/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Repitools 1.54.0 (landing page) Mark Robinson
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the Repitools package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Repitools.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. |
| Package: Repitools |
| Version: 1.54.0 |
| Command: rm -rf Repitools.buildbin-libdir && mkdir Repitools.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=Repitools.buildbin-libdir Repitools_1.54.0.tar.gz |
| StartedAt: 2025-06-13 09:58:54 -0400 (Fri, 13 Jun 2025) |
| EndedAt: 2025-06-13 10:01:12 -0400 (Fri, 13 Jun 2025) |
| EllapsedTime: 139.0 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: Repitools_1.54.0.zip |
| PackageFileSize: 2.378 MiB |
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### Running command:
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### rm -rf Repitools.buildbin-libdir && mkdir Repitools.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=Repitools.buildbin-libdir Repitools_1.54.0.tar.gz
###
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* installing *source* package 'Repitools' ...
** this is package 'Repitools' version '1.54.0'
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 14.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -D R_NO_REMAP -I. -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c const.c -o const.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -D R_NO_REMAP -I. -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c hyp2f1.c -o hyp2f1.o
In file included from hyp2f1.c:81:
./mconf.h:100:9: warning: "DOMAIN" redefined
100 | #define DOMAIN 1 /* argument domain error */
| ^~~~~~
In file included from E:/biocbuild/bbs-3.21-bioc/R/include/Rmath.h:43,
from hyp2f1.c:80:
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:29:9: note: this is the location of the previous definition
29 | #define DOMAIN _DOMAIN
| ^~~~~~
./mconf.h:101:9: warning: "SING" redefined
101 | #define SING 2 /* argument singularity */
| ^~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:30:9: note: this is the location of the previous definition
30 | #define SING _SING
| ^~~~
./mconf.h:102:9: warning: "OVERFLOW" redefined
102 | #define OVERFLOW 3 /* overflow range error */
| ^~~~~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:31:9: note: this is the location of the previous definition
31 | #define OVERFLOW _OVERFLOW
| ^~~~~~~~
./mconf.h:103:9: warning: "UNDERFLOW" redefined
103 | #define UNDERFLOW 4 /* underflow range error */
| ^~~~~~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:32:9: note: this is the location of the previous definition
32 | #define UNDERFLOW _UNDERFLOW
| ^~~~~~~~~
./mconf.h:104:9: warning: "TLOSS" redefined
104 | #define TLOSS 5 /* total loss of precision */
| ^~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:33:9: note: this is the location of the previous definition
33 | #define TLOSS _TLOSS
| ^~~~~
./mconf.h:105:9: warning: "PLOSS" redefined
105 | #define PLOSS 6 /* partial loss of precision */
| ^~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:34:9: note: this is the location of the previous definition
34 | #define PLOSS _PLOSS
| ^~~~~
hyp2f1.c: In function 'hyp2f1':
hyp2f1.c:126:8: warning: old-style function definition [-Wold-style-definition]
126 | double hyp2f1( a, b, c, x )
| ^~~~~~
hyp2f1.c: In function 'hyt2f1':
hyp2f1.c:294:9: warning: old-style function definition [-Wold-style-definition]
294 | double hyt2f1( a, b, c, x, loss )
| ^~~~~~
hyp2f1.c: In function 'hys2f1':
hyp2f1.c:438:9: warning: old-style function definition [-Wold-style-definition]
438 | double hys2f1( a, b, c, x, loss )
| ^~~~~~
g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mmeansd.cpp -o mmeansd.o
mmeansd.cpp: In function 'SEXPREC* moving_mean_sd(SEXP, SEXP, SEXP)':
mmeansd.cpp:33:24: warning: variable 'is' set but not used [-Wunused-but-set-variable]
33 | int * x, nval, hs, is, i;
| ^~
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -D R_NO_REMAP -I. -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c mtherr.c -o mtherr.o
In file included from mtherr.c:58:
./mconf.h:100:9: warning: "DOMAIN" redefined
100 | #define DOMAIN 1 /* argument domain error */
| ^~~~~~
In file included from E:/biocbuild/bbs-3.21-bioc/R/include/R.h:45,
from mtherr.c:56:
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:29:9: note: this is the location of the previous definition
29 | #define DOMAIN _DOMAIN
| ^~~~~~
./mconf.h:101:9: warning: "SING" redefined
101 | #define SING 2 /* argument singularity */
| ^~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:30:9: note: this is the location of the previous definition
30 | #define SING _SING
| ^~~~
./mconf.h:102:9: warning: "OVERFLOW" redefined
102 | #define OVERFLOW 3 /* overflow range error */
| ^~~~~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:31:9: note: this is the location of the previous definition
31 | #define OVERFLOW _OVERFLOW
| ^~~~~~~~
./mconf.h:103:9: warning: "UNDERFLOW" redefined
103 | #define UNDERFLOW 4 /* underflow range error */
| ^~~~~~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:32:9: note: this is the location of the previous definition
32 | #define UNDERFLOW _UNDERFLOW
| ^~~~~~~~~
./mconf.h:104:9: warning: "TLOSS" redefined
104 | #define TLOSS 5 /* total loss of precision */
| ^~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:33:9: note: this is the location of the previous definition
33 | #define TLOSS _TLOSS
| ^~~~~
./mconf.h:105:9: warning: "PLOSS" redefined
105 | #define PLOSS 6 /* partial loss of precision */
| ^~~~~
C:/rtools45/x86_64-w64-mingw32.static.posix/include/math.h:34:9: note: this is the location of the previous definition
34 | #define PLOSS _PLOSS
| ^~~~~
mtherr.c: In function 'mtherr':
mtherr.c:77:5: warning: old-style function definition [-Wold-style-definition]
77 | int mtherr( name, code )
| ^~~~~~
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -D R_NO_REMAP -I. -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c ringo_stuff.c -o ringo_stuff.o
ringo_stuff.c:13:24: warning: 'Ringo_calls' defined but not used [-Wunused-variable]
13 | static R_CallMethodDef Ringo_calls[] = {
| ^~~~~~~~~~~
g++ -std=gnu++17 -shared -s -static-libgcc -o Repitools.dll tmp.def const.o hyp2f1.o mmeansd.o mtherr.o ringo_stuff.o -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/meat/Repitools.buildbin-libdir/00LOCK-Repitools/00new/Repitools/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 'Repitools' as Repitools_1.54.0.zip
* DONE (Repitools)