Update sample and read group patch functions to always use their respective adapter's patch functions

'notes' is meant to contain free-form text for annotating
runs/samples/read groups

Previously, the `.update` method inside could still throw an exception
that is not directly wrapped by a `Try` object.

This is for compatibility with the database, that could not handle
BigInts and BigDecimals as-is.

This implements the changes necessary so that we can patch,
for example, samples without patching the runs containing it.

This is to ensure that all patch operations are successful before we
write anything.