Support for DSSP 4.0 (https://github.com/PDB-REDO/dssp) has been
enabled in commit da57a1f6.
This worked if CLIBD_MON env var points to some CCP4 related
compound library. In the example of dssp shipped with Debian
bullseye, that's not the case. The observation there:
It works if applied on a PDB file downloaded from RCSB with all bells
and whistles but it doesn't work if only the fix from the above commit
is applied. As OpenStructure implements all functionality from DSSP
(secondary structure and solvent accessibility), the binding to an
external program has been deprecated. dssp.AssignDSSP still exists,
but mimics the old behaviour using OpenStructure internal implementations.

Don't ask, just feels better that way

This commit doesn't make OpenStructure work with Python 3. The goal of this
commit was to perform an automated port of the Python code and make it compile.
The performed steps:

- Edited CMakeLists.txt to search for Python with 3.6 as min version 3.6 is the
  Python version shipped by default with Ubuntu 18.04 LTS
- Add version 3.6 to cmake_support/FindPython.cmake
- Adapt setup_boost macro in cmake_support/OST.cmake to prefer versioned
  libraries and not first check for boost_python.so. In the example of
  Ubuntu 18.04, libboost_python.so is specific for Python 2 but
  libboost_python3.so is the one we want.
- apply the following command: 2to3-2.7 -n -w <OST_DIR>
- adapt base/pymod/wrap_base.cc, gui/pymod/wrap_gui.cc and
  gui/pymod/export_message_widget.cc as PyString functionalities do not exist
  anymore in the Python 3 interpreter (replaced by PyUnicode)
- adapt gui/src/python_shell/python_interpreter_worker.hh to resolve issue
  discussed in https://stackoverflow.com/questions/23068700/embedding-python3-in-qt-5
  Long story short: Qt does a typedef for "slots" which causes trouble with
  other headers that are pulled in from the Python interpreter

wrong branch, big sorry

This reverts commit e77d08a6.

seems that you have to play with casp structures to produce such errors...

While we are in there, also fix BZDNG-235 by checking that
DSSP is executable and not a directory and making sure the
output file exists before continuing.

Conflicts:

	modules/bindings/pymod/dssp.py

While we are in there, also fix BZDNG-235 by checking that
DSSP is executable and not a directory and making sure the
output file exists before continuing.

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2117 5a81b35b-ba03-0410-adc8-b2c5c5119f08

make dssp platform independent -> use popen.pipes instead of linux-type redirection of stderr/stdout


git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2115 5a81b35b-ba03-0410-adc8-b2c5c5119f08

The old signatures are still available in Python, but produce
a deprecation warning. After some time, we will remove the
long signatures completely.

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2113 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@1959 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@1935 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@1930 5a81b35b-ba03-0410-adc8-b2c5c5119f08