| Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-01-24 11:40 -0500 (Fri, 24 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4609 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4393 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 3839 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 3835 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4408 |
| 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 1716/2286 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Repitools 1.53.0 (landing page) Mark Robinson
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | ERROR | ERROR | skipped | skipped | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | ERROR | ERROR | skipped | ||||||||||
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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: 1.53.0 |
| Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL Repitools |
| StartedAt: 2025-01-23 16:56:00 -0500 (Thu, 23 Jan 2025) |
| EndedAt: 2025-01-23 16:56:03 -0500 (Thu, 23 Jan 2025) |
| EllapsedTime: 3.8 seconds |
| RetCode: 1 |
| Status: ERROR |
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### Running command:
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### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL Repitools
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'Repitools' ...
** this is package 'Repitools' version '1.53.0'
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -D R_NO_REMAP -I. -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c const.c -o const.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -D R_NO_REMAP -I. -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c hyp2f1.c -o hyp2f1.o
In file included from hyp2f1.c:81:
./mconf.h:100: warning: "DOMAIN" redefined
100 | #define DOMAIN 1 /* argument domain error */
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In file included from E:/biocbuild/bbs-3.21-bioc/R/include/Rmath.h:43,
from hyp2f1.c:80:
c:\rtools44\x86_64-w64-mingw32.static.posix\include\math.h:29: note: this is the location of the previous definition
29 | #define DOMAIN _DOMAIN
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./mconf.h:101: warning: "SING" redefined
101 | #define SING 2 /* argument singularity */
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c:\rtools44\x86_64-w64-mingw32.static.posix\include\math.h:30: note: this is the location of the previous definition
30 | #define SING _SING
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./mconf.h:102: warning: "OVERFLOW" redefined
102 | #define OVERFLOW 3 /* overflow range error */
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c:\rtools44\x86_64-w64-mingw32.static.posix\include\math.h:31: note: this is the location of the previous definition
31 | #define OVERFLOW _OVERFLOW
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./mconf.h:103: warning: "UNDERFLOW" redefined
103 | #define UNDERFLOW 4 /* underflow range error */
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c:\rtools44\x86_64-w64-mingw32.static.posix\include\math.h:32: note: this is the location of the previous definition
32 | #define UNDERFLOW _UNDERFLOW
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./mconf.h:104: warning: "TLOSS" redefined
104 | #define TLOSS 5 /* total loss of precision */
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c:\rtools44\x86_64-w64-mingw32.static.posix\include\math.h:33: note: this is the location of the previous definition
33 | #define TLOSS _TLOSS
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./mconf.h:105: warning: "PLOSS" redefined
105 | #define PLOSS 6 /* partial loss of precision */
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c:\rtools44\x86_64-w64-mingw32.static.posix\include\math.h:34: note: this is the location of the previous definition
34 | #define PLOSS _PLOSS
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g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c mmeansd.cpp -o mmeansd.o
In file included from E:/biocbuild/bbs-3.21-bioc/R/include/Rdefines.h:41,
from mmeansd.cpp:10:
mmeansd.cpp: In function 'SEXPREC* moving_mean_sd(SEXP, SEXP, SEXP)':
mmeansd.cpp:49:20: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'?
49 | PROTECT( res = allocVector( REALSXP, nval * 3) );
| ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT'
388 | #define PROTECT(s) Rf_protect(s)
| ^
make: *** [E:/biocbuild/bbs-3.21-bioc/R/etc/x64/Makeconf:296: mmeansd.o] Error 1
ERROR: compilation failed for package 'Repitools'
* removing 'E:/biocbuild/bbs-3.21-bioc/R/library/Repitools'