PROCTools: enable flake8 and fix code

Tools/PROCTools/CMakeLists.txt

Tools/PROCTools/python/CreateTierZeroArgdict.py

Tools/PROCTools/python/DataFormatRates.py

Tools/PROCTools/python/ExtractEvents.py

Tools/PROCTools/python/UploadAMITag.py

Tools/PROCTools/python/UploadTfAMITag.py

Tools/PROCTools/python/checkUPD1.py

Tools/PROCTools/python/compareNtuple.py

Tools/PROCTools/python/compareTCTs.py

Tools/PROCTools/python/copyTCTOutput.py

Tools/PROCTools/python/diffTAGTree.py

Tools/PROCTools/python/getCurrentCOMCONDTag.py

Tools/PROCTools/python/getFileLists.py

Tools/PROCTools/python/outputTest_v2.py

Tools/PROCTools/python/provideTwikiSummary.py

Tools/PROCTools/python/root_lsr_rank.py

Tools/PROCTools/python/showOutput.py

Tools/PROCTools/python/testIfMatch.py