debian/changelog: specify the bug report that this version should close, but not closing the bug as asked by the reporter.

Update version of the software by bumping it to 3.5.0, along with update of the min required cmake version.

debian/changelog && debian/control: fixes to the build-depends field and bumped up the standards version.

Port to Qt5 done, save for the plugins, which were removed temporarily from the subdirs of CMakeLists.txt. Built and ran fine.

Added two post-translational modifications for protein-1-letter pol chem def. This is also an example for Hala.

Implemented feature that allows one to enter a coordinates string in the sequence editor window so as to select a specific sequence or make a multi-region selection or make a multi-selection region.

Implemented for fragmentations and mass searches the features previously developed for cleavages: ability to export data to mzMiner through the clipboard. Other cosmetic changes.