| Back to Mac ARM64 build report for BioC 3.17 |
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This page was generated on 2023-10-20 09:38:12 -0400 (Fri, 20 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson2 | macOS 12.6.1 Monterey | arm64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4347 |
| 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 1885/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| seqbias 1.48.0 (landing page) Daniel Jones
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | ERROR | ERROR | skipped | skipped | ||||||||
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To the developers/maintainers of the seqbias package: - 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: seqbias |
| Version: 1.48.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL seqbias |
| StartedAt: 2023-10-15 15:38:37 -0400 (Sun, 15 Oct 2023) |
| EndedAt: 2023-10-15 15:38:46 -0400 (Sun, 15 Oct 2023) |
| EllapsedTime: 8.6 seconds |
| RetCode: 1 |
| Status: ERROR |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL seqbias
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘seqbias’ ...
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
$SEQBIAS_OBJ is [common.o miscmath.o pos_table.o kmer_matrix.o logger.o motif.o seqbias.o sequencing_bias.o twobitseq.o]
$YAML_CPP_OBJ is [aliasmanager.o conversion.o directives.o emitfromevents.o emitter.o emitterstate.o emitterutils.o exp.o iterator.o nodebuilder.o node.o nodeownership.o null.o ostream.o parser.o regex.o scanner.o scanscalar.o scantag.o scantoken.o simplekey.o singledocparser.o stream.o tag.o]
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/zlibbioc/include' -I/opt/R/arm64/include -Wall -Wextra -I. -fPIC -falign-functions=64 -Wall -g -O2 -c common.c -o common.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/zlibbioc/include' -I/opt/R/arm64/include -Wall -Wextra -I. -fPIC -falign-functions=64 -Wall -g -O2 -c miscmath.c -o miscmath.o
miscmath.c:21:12: error: implicitly declaring library function 'finite' with type 'int (double)' [-Werror,-Wimplicit-function-declaration]
return finite(a) && 0.0 <= a && a <= 1.0;
^
miscmath.c:21:12: note: include the header <math.h> or explicitly provide a declaration for 'finite'
1 error generated.
make: *** [miscmath.o] Error 1
ERROR: compilation failed for package ‘seqbias’
* removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/seqbias’