
The following should produce a GUI window with a single transition and a picked peak:

$ python gui/TAPIR.py  --in test/data/gui/dataset1.yaml 
$ python gui/TAPIR.py  --in test/data/gui/dataset1.csv test/data/gui/dataset1.chrom.mzML 

The following should produce a GUI window with 3 runs and 2 peptides (one of
which has 2 charge states). All three options are viable, depending on the
input data that is available to you:

$ python gui/TAPIR.py  --in test/data/gui/dataset2_file* \
    test/data/gui/dataset2_simple_description.csv --fileType simple

$ python gui/TAPIR.py  --in test/data/gui/dataset2_file* \
    test/data/gui/dataset2_description.TraML  

$ python gui/TAPIR.py  --in test/data/gui/dataset2_file* \
    test/data/gui/dataset2_description.csv

