CCTBX-using applications are best launched using cctbx.python rather than a standard system python - however, you may have named it something different, right? So what I will do is at the same time change the way that the launcher scripts work - if you have defined the environment variable XIA2_PYTHON this will be used for the execution, else cctbx.python will be - this means that if you have carefully installed one for xia2 to use, you can tell the program by e.g. exporting XIA2_PYTHON=/usr/xtal/cctbx/cctbx_build/bin/cctbx.python, which will then be executed even if it does not occur in the path.
Probably will make for a simpler life.
Just have to figure out how to test for an environment variable being set on Windows :o(
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