[Debian-med-packaging] Cmake error in diamond-aligner: pthreads - not found

[Andreas Tille]

Hi folks,

I have problems to upgrade diamond-aligner[1] to its latest upstream
version and upstream can't reproduce the issue.  Sorry, currently I'm
swamped with COVID-19 issues so I'd like to ask here simply for a patch
which is probably not that hard.  In pbuilder I get:

...
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE..
CMake Error at CMakeLists.txt:69 (else):
  else An ELSE command was found outside of a proper IF ENDIF structure.  Or
  its arguments did not match the opening IF command.


CMake Error at CMakeLists.txt:166 (endif):
  endif An ENDIF command was found outside of a proper IF ENDIF structure.
  Or its arguments did not match the opening IF command.


CMake Error at CMakeLists.txt:271 (add_executable):
  add_executable cannot create target "diamond" because another target with
  the same name already exists.  The existing target is an executable created
  in source directory "/build/diamond-aligner-0.9.31".  See documentation for
  policy CMP0002 for more details.


-- Configuring incomplete, errors occurred!
See also "/build/diamond-aligner-0.9.31/obj-x86_64-linux-gnu/CMakeFiles/CMakeOutput.log".
See also "/build/diamond-aligner-0.9.31/obj-x86_64-linux-gnu/CMakeFiles/CMakeError.log".
...


Any patch would be really welcome.

Thanks a lot

      Andreas.


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


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