| Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-01-02 09:00:45 -0500 (Mon, 02 Jan 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| palomino5 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" | 4165 |
| 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 | ||||
|
To the developers/maintainers of the qrqc package: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1551/2158 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| qrqc 1.53.0 (landing page) Vince Buffalo
| palomino5 | Windows Server 2022 Datacenter / x64 | ERROR | ERROR | skipped | skipped | ||||||||
| Package: qrqc |
| Version: 1.53.0 |
| Command: chmod a+r qrqc -R && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data qrqc |
| StartedAt: 2022-12-28 19:56:21 -0500 (Wed, 28 Dec 2022) |
| EndedAt: 2022-12-28 19:56:24 -0500 (Wed, 28 Dec 2022) |
| EllapsedTime: 3.6 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### chmod a+r qrqc -R && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data qrqc
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* checking for file 'qrqc/DESCRIPTION' ... OK
* preparing 'qrqc':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
-----------------------------------
* installing *source* package 'qrqc' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 12.2.0'
gcc -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rhtslib/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c R_init_io.c -o R_init_io.o
gcc -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rhtslib/include' -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c io.c -o io.o
In file included from F:/biocbuild/bbs-3.17-bioc/R/include/R.h:78,
from io.c:7:
io.c: In function 'hash_seq_kmers':
io.c:222:39: error: 'SINT_MAX' undeclared (first use in this function); did you mean 'WINT_MAX'?
222 | char *a_kmer = Calloc(k + 2 + log10(SINT_MAX), char), *start_ptr;
| ^~~~~~~~
F:/biocbuild/bbs-3.17-bioc/R/include/R_ext/RS.h:53:56: note: in definition of macro 'Calloc'
53 | #define Calloc(n, t) (t *) R_chk_calloc( (R_SIZE_T) (n), sizeof(t) )
| ^
io.c:222:39: note: each undeclared identifier is reported only once for each function it appears in
222 | char *a_kmer = Calloc(k + 2 + log10(SINT_MAX), char), *start_ptr;
| ^~~~~~~~
F:/biocbuild/bbs-3.17-bioc/R/include/R_ext/RS.h:53:56: note: in definition of macro 'Calloc'
53 | #define Calloc(n, t) (t *) R_chk_calloc( (R_SIZE_T) (n), sizeof(t) )
| ^
In file included from io.c:12:
io.c: At top level:
F:/biocbuild/bbs-3.17-bioc/R/library/Rhtslib/include/htslib/kseq.h:171:20: warning: 'kseq_destroy' defined but not used [-Wunused-function]
171 | SCOPE void kseq_destroy(kseq_t *ks) \
| ^~~~~~~~~~~~
F:/biocbuild/bbs-3.17-bioc/R/library/Rhtslib/include/htslib/kseq.h:237:9: note: in expansion of macro '__KSEQ_BASIC'
237 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
F:/biocbuild/bbs-3.17-bioc/R/library/Rhtslib/include/htslib/kseq.h:240:35: note: in expansion of macro 'KSEQ_INIT2'
240 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
io.c:29:1: note: in expansion of macro 'KSEQ_INIT'
29 | KSEQ_INIT(FILE_TYPE*, gzreadclone)
| ^~~~~~~~~
make: *** [F:/biocbuild/bbs-3.17-bioc/R/etc/x64/Makeconf:257: io.o] Error 1
ERROR: compilation failed for package 'qrqc'
* removing 'F:/biocbuild/bbs-3.17-bioc-rtools43/tmpdir/RtmpyUwdwH/Rinst45fc3c0e1cc2/qrqc'
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ERROR: package installation failed