Annoying new warning in terminal

[jakobnissen]

When launching new versions of Vamb, this warning appears:

/home/jakni/miniconda3/envs/recluster/lib/python3.12/site-packages/numpy/core/getlimits.py:549: UserWarning: The value of the smallest subnormal for <class 'numpy.float64'> type is zero.
  setattr(self, word, getattr(machar, word).flat[0])
/home/jakni/miniconda3/envs/recluster/lib/python3.12/site-packages/numpy/core/getlimits.py:89: UserWarning: The value of the smallest subnormal for <class 'numpy.float64'> type is zero.
  return self._float_to_str(self.smallest_subnormal)
/home/jakni/miniconda3/envs/recluster/lib/python3.12/site-packages/numpy/core/getlimits.py:549: UserWarning: The value of the smallest subnormal for <class 'numpy.float32'> type is zero.
  setattr(self, word, getattr(machar, word).flat[0])
/home/jakni/miniconda3/envs/recluster/lib/python3.12/site-packages/numpy/core/getlimits.py:89: UserWarning: The value of the smallest subnormal for <class 'numpy.float32'> type is zero.
  return self._float_to_str(self.smallest_subnormal)

As far as I can tell from googling around this happens because

• Some library loaded by Vamb is compiled with -ffast-math
• The -ffast-math option toggles the FTZ and DAZ flags in the CPU for the duration the library is running. These flags modify the behaviour of floating point ops, for all libraries in the same process.
• This may cause incorrect computation

The solution is to figure out which library does this and remove/upgrade/downgrade it.

[jakobnissen]

This is due to pyhmmer, which is currently version 0.10.12

[jakobnissen]

Closed by a temporary fix in #357