Compound id bug

[bkieft-usa]

Three main changes were implemented to add more functionality to the targeted workflow:

1. Calculation of total score (from -1 to 3) for each compound and assigning an MSI Level quality was pulled into its own function
2. If only one reference-matching MSMS fragment ion is detected for a given compound, it will check whether the fragement is the precursor or not; if it is, it will give that compound an MSMS score of 0 and MSMS quality of 0, while if it is not, it will keep the MSMS scored calculated with matchMS and give the corresponding MSI Level. It will also print a note into the ms2_notes of the compound id sheet when a single fragment ion is found and tell the reviewer whether it's the precursor or not.
3. New logger statements print to the notebook console warning when only single fragment ions are detected.