[Debian-med-packaging] Help with C++ issue in sina needed

[Andreas Tille]

Hi,

the Debian Med team is working on Sina[1]

...
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I./include -DBOOST_TEST_DYN_LINK -DBOOST_TEST_MAIN -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -g -O2 -fdebug-prefix-map=/build/sina-1.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/build/sina-1.6.1=. -fstack-protector-strong -Wformat -Werror=format-security -W -c src/cseq.cpp  -fPIC -DPIC -o src/.libs/cseq.o
In file included from src/sina.cpp:62:
/usr/include/tbb/task_scheduler_init.h:21:154: note: #pragma message: TBB Warning: tbb/task_scheduler_init.h is deprecated. For details, please see Deprecated Features appendix in the TBB reference manual.
   21 | #pragma message("TBB Warning: tbb/task_scheduler_init.h is deprecated. For details, please see Deprecated Features appendix in the TBB reference manual.")
      |                                                                                                                                                          ^
src/sina.cpp: In function ‘int real_main(int, char**)’:
src/sina.cpp:404:29: warning: ‘template<class Output> class tbb::flow::interface11::source_node’ is deprecated: TBB Warning: tbb::flow::source_node is deprecated, use tbb::flow::input_node. [-Wdeprecated-declarations]
  404 |     using source_node = tf::source_node<tray>;                                                                                                                                       xd
      |                             ^~~~~~~~~~~                                                                                                                                              re
In file included from src/sina.cpp:64:                                                                                                                                                       de
/usr/include/tbb/flow_graph.h:1181:1: note: declared here                                                                                                                                    on
 1181 | source_node : public graph_node, public sender< Output > {                                                                                                                           to
      | ^~~~~~~~~~~                                                                                                                                                                          on
src/align.cpp: In function ‘void sina::do_align(sina::cseq&, const cseq&, MASTER&, transition&, std::ostream&)’:
src/align.cpp:481:55: error: ‘tbb_allocator’ is not a member of ‘tbb’
  481 |     using mesh_t = mesh<MASTER, cseq, data_type, tbb::tbb_allocator<data_type>>;
      |                                                       ^~~~~~~~~~~~~
src/align.cpp:481:55: error: ‘tbb_allocator’ is not a member of ‘tbb’
src/align.cpp:481:69: error: template argument 4 is invalid
  481 |     using mesh_t = mesh<MASTER, cseq, data_type, tbb::tbb_allocator<data_type>>;
      |                                                                     ^~~~~~~~~
src/align.cpp:482:59: error: ‘mesh_t’ has not been declared
  482 |     logger->debug("Allocating {}MB for alignment matrix", mesh_t::guessMem(m, c)/1024/1024);
...


Any hint how to fix this?

Kind regards

     Andreas.


[1] https://salsa.debian.org/med-team/sina

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