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This page was generated on 2024-12-23 11:47 -0500 (Mon, 23 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4372
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 2212/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
universalmotif 1.25.1  (landing page)
Benjamin Jean-Marie Tremblay
Snapshot Date: 2024-12-22 13:40 -0500 (Sun, 22 Dec 2024)
git_url: https://git.bioconductor.org/packages/universalmotif
git_branch: devel
git_last_commit: 8fc0c9e
git_last_commit_date: 2024-11-11 08:25:45 -0500 (Mon, 11 Nov 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  


INSTALL results for universalmotif on kunpeng2

To the developers/maintainers of the universalmotif package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/universalmotif.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: universalmotif
Version: 1.25.1
Command: /home/biocbuild/R/R/bin/R CMD INSTALL universalmotif
StartedAt: 2024-12-22 19:51:05 -0000 (Sun, 22 Dec 2024)
EndedAt: 2024-12-22 19:53:44 -0000 (Sun, 22 Dec 2024)
EllapsedTime: 159.5 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL universalmotif
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’
* installing *source* package ‘universalmotif’ ...
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
using C++11
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from RcppExports.cpp:4:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c add_multifreq.cpp -o add_multifreq.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c calc_complexity.cpp -o calc_complexity.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from calc_complexity.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c compare_motifs.cpp -o compare_motifs.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from compare_motifs.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
In file included from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/aarch64-unknown-linux-gnu/bits/c++allocator.h:33,
                 from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/allocator.h:46,
                 from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/alloc_traits.h:39,
                 from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/ext/alloc_traits.h:34,
                 from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/hashtable_policy.h:39,
                 from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/hashtable.h:35,
                 from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/unordered_map.h:33,
                 from /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/unordered_map:41,
                 from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include/Rcpp/platform/compiler.h:153,
                 from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include/Rcpp/r/headers.h:66,
                 from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include/RcppCommon.h:30,
                 from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include/Rcpp.h:27,
                 from compare_motifs.cpp:1:
In member function ‘void std::__new_allocator<_Tp>::deallocate(_Tp*, size_type) [with _Tp = double]’,
    inlined from ‘static void std::allocator_traits<std::allocator<_Tp1> >::deallocate(allocator_type&, pointer, size_type) [with _Tp = double]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/alloc_traits.h:513:23,
    inlined from ‘void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:389:19,
    inlined from ‘std::_Vector_base<_Tp, _Alloc>::~_Vector_base() [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:368:15,
    inlined from ‘std::vector<_Tp, _Alloc>::~vector() [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:738:7,
    inlined from ‘double compare_eucl(const list_num_t&, const list_num_t&, const str_t&, const vec_num_t&, const vec_num_t&)’ at compare_motifs.cpp:406:28:
/opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/new_allocator.h:172:33: warning: ‘void operator delete(void*)’ called on pointer ‘<unknown>’ with nonzero offset [8, 9223372036854775800] [-Wfree-nonheap-object]
  172 |         _GLIBCXX_OPERATOR_DELETE(_GLIBCXX_SIZED_DEALLOC(__p, __n));
      |                                 ^
In member function ‘_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = double]’,
    inlined from ‘static _Tp* std::allocator_traits<std::allocator<_Tp1> >::allocate(allocator_type&, size_type) [with _Tp = double]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/alloc_traits.h:478:28,
    inlined from ‘std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:380:33,
    inlined from ‘void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:398:44,
    inlined from ‘std::_Vector_base<_Tp, _Alloc>::_Vector_base(std::size_t, const allocator_type&) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:334:26,
    inlined from ‘std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:571:47,
    inlined from ‘double compare_eucl(const list_num_t&, const list_num_t&, const str_t&, const vec_num_t&, const vec_num_t&)’ at compare_motifs.cpp:406:47:
/opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/new_allocator.h:151:55: note: returned from ‘void* operator new(std::size_t)’
  151 |         return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp)));
      |                                                       ^
In member function ‘void std::__new_allocator<_Tp>::deallocate(_Tp*, size_type) [with _Tp = double]’,
    inlined from ‘static void std::allocator_traits<std::allocator<_Tp1> >::deallocate(allocator_type&, pointer, size_type) [with _Tp = double]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/alloc_traits.h:513:23,
    inlined from ‘void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:389:19,
    inlined from ‘std::_Vector_base<_Tp, _Alloc>::~_Vector_base() [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:368:15,
    inlined from ‘std::vector<_Tp, _Alloc>::~vector() [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:738:7,
    inlined from ‘double compare_weucl(const list_num_t&, const list_num_t&, const str_t&, const vec_num_t&, const vec_num_t&, const vec_num_t&, const vec_num_t&)’ at compare_motifs.cpp:604:28:
/opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/new_allocator.h:172:33: warning: ‘void operator delete(void*)’ called on pointer ‘<unknown>’ with nonzero offset [8, 9223372036854775800] [-Wfree-nonheap-object]
  172 |         _GLIBCXX_OPERATOR_DELETE(_GLIBCXX_SIZED_DEALLOC(__p, __n));
      |                                 ^
In member function ‘_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = double]’,
    inlined from ‘static _Tp* std::allocator_traits<std::allocator<_Tp1> >::allocate(allocator_type&, size_type) [with _Tp = double]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/alloc_traits.h:478:28,
    inlined from ‘std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:380:33,
    inlined from ‘void std::_Vector_base<_Tp, _Alloc>::_M_create_storage(std::size_t) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:398:44,
    inlined from ‘std::_Vector_base<_Tp, _Alloc>::_Vector_base(std::size_t, const allocator_type&) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:334:26,
    inlined from ‘std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = double; _Alloc = std::allocator<double>]’ at /opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/stl_vector.h:571:47,
    inlined from ‘double compare_weucl(const list_num_t&, const list_num_t&, const str_t&, const vec_num_t&, const vec_num_t&, const vec_num_t&, const vec_num_t&)’ at compare_motifs.cpp:604:47:
/opt/ohpc/pub/compiler/gcc/14.2.0/include/c++/14.2.0/bits/new_allocator.h:151:55: note: returned from ‘void* operator new(std::size_t)’
  151 |         return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp)));
      |                                                       ^
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c get_bkg.cpp -o get_bkg.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from get_bkg.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c motif_finder.cpp -o motif_finder.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from motif_finder.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c motif_peaks.cpp -o motif_peaks.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c motif_pvalue.cpp -o motif_pvalue.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from motif_pvalue.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c scan_sequences.cpp -o scan_sequences.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from scan_sequences.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c shuffle_sequences.cpp -o shuffle_sequences.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from shuffle_sequences.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c trim_motifs.cpp -o trim_motifs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c universalmotif-class.cpp -o universalmotif-class.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c utils-exported.cpp -o utils-exported.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c utils-internal.cpp -o utils-internal.o
In file included from /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread.h:9,
                 from utils-internal.cpp:2:
/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: "R_NO_REMAP" redefined
   10 | #define R_NO_REMAP
      |         ^~~~~~~~~~
<command-line>: note: this is the location of the previous definition
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++11 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o universalmotif.so RcppExports.o add_multifreq.o calc_complexity.o compare_motifs.o get_bkg.o motif_finder.o motif_peaks.o motif_pvalue.o scan_sequences.o shuffle_sequences.o trim_motifs.o universalmotif-class.o utils-exported.o utils-internal.o -latomic -lpthread -L/home/biocbuild/R/R/lib -lR
if test -e "/usr/bin/strip" & test -e "/bin/uname" & [[ `uname` == "Linux" ]] ; then /usr/bin/strip --strip-debug universalmotif.so; fi
installing to /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/00LOCK-universalmotif/00new/universalmotif/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
in method for ‘convert_motifs’ with signature ‘motifs="MotifList"’: no definition for class “MotifList”
in method for ‘convert_motifs’ with signature ‘motifs="TFFMFirst"’: no definition for class “TFFMFirst”
in method for ‘convert_motifs’ with signature ‘motifs="PFMatrix"’: no definition for class “PFMatrix”
in method for ‘convert_motifs’ with signature ‘motifs="PWMatrix"’: no definition for class “PWMatrix”
in method for ‘convert_motifs’ with signature ‘motifs="ICMatrix"’: no definition for class “ICMatrix”
in method for ‘convert_motifs’ with signature ‘motifs="XMatrixList"’: no definition for class “XMatrixList”
in method for ‘convert_motifs’ with signature ‘motifs="pwm"’: no definition for class “pwm”
in method for ‘convert_motifs’ with signature ‘motifs="pcm"’: no definition for class “pcm”
in method for ‘convert_motifs’ with signature ‘motifs="pfm"’: no definition for class “pfm”
in method for ‘convert_motifs’ with signature ‘motifs="PWM"’: no definition for class “PWM”
in method for ‘convert_motifs’ with signature ‘motifs="Motif"’: no definition for class “Motif”
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (universalmotif)