Atomic operations failing with certain paths

[montesmariana]

Certain operations - in particular atomic operations on metadata - fail on data objects or collections where the path contains an apostrophe followed by and. This is a known issue that should be fixed on the PRC side, I understand.

In the meantime, we could patch this with a try-except that uses individual adding and removal when atomic operations fail, just in case. The patch would look something like this:

1. A function to mimic the atomic operations, taken from mango-portal utils

def mimic_atomic_operations(
  catalog_item: iRODSDataObject \| iRODSCollection, avu_operations
  ):
  for avu_operation in avu_operations:
    if avu_operation.operation == "remove":
      catalog_item.metadata.remove(avu_operation.avu)
    if avu_operation.operation == "add":
      catalog_item.metadata.add(avu_operation.avu)

2. A try except on each part that calls the atomic operations

a. Where old metadata is removed:

try:
    item.metadata.apply_atomic_operations(
      *[AVUOperation(operation="remove", avu=x) for x in existing_avus]
    )
except:
    mimic_atomic_operations(item, [AVUOperation(operation="remove", avu=x) for x in existing_avus])

b. Where the metadata is added:

try:
    item.metadata.apply_atomic_operations(
       *[AVUOperation(operation="add", avu=x) for x in avus]
      )
except:
    mimic_atomic_operations(item, [AVUOperation(operation="add", avu=x) for x in avus])

This can be made more compact and should be tested, but it is a valid patch.