Skip to content
[Jenkins]Jenkins
log in

Failed

OmeroPy.test.integration.tablestest.test_service.TestTables.testMask (from pytest)

Failing for the past 2 builds (Since #412 )
Took 41 ms.

Error Message

omero.InternalException: exception ::omero::InternalException
{
    serverStackTrace = Traceback (most recent call last):
  File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/util/decorators.py", line 71, in exc_handler
    rv = func(*args, **kwargs)
         ^^^^^^^^^^^^^^^^^^^^^
  File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/util/decorators.py", line 31, in handler
    return func(*args, **kwargs)
           ^^^^^^^^^^^^^^^^^^^^^
  File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/tables.py", line 285, in addData
    self.storage.append(cols)
  File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/util/decorators.py", line 96, in with_lock
    return func(*args, **kwargs)
           ^^^^^^^^^^^^^^^^^^^^^
  File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/hdfstorageV2.py", line 85, in flush_after
    return func(*args, **kwargs)
           ^^^^^^^^^^^^^^^^^^^^^
  File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/hdfstorageV2.py", line 514, in append
    col.append(self.__mea)  # Potential corruption !!!
    ^^^^^^^^^^^^^^^^^^^^^^
  File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/columns.py", line 543, in append
    masks.append(numpy.fromstring(x, count=len(x),
                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
ValueError: The binary mode of fromstring is removed, use frombuffer instead

    serverExceptionClass = 
    message = Internal exception
}

Stacktrace

self = <test_service.TestTables object at 0x7fc46af4bdd0>

    def testMask(self):
        grid = self.client.sf.sharedResources()
        repoMap = grid.repositories()
        repoObj = repoMap.descriptions[0]
        table = grid.newTable(repoObj.id.val, "/test")
        assert table
        mask = self.createMaskCol()
    
        table.initialize([mask])
>       table.addData([mask])

test/integration/tablestest/test_service.py:120: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

self = 75e5dac5-a97d-471e-84d4-40b44acececa/Table-3fad1c89-6d91-4ed1-9c1f-7c6cd38b6f9f -t -e 1.1:tcp -h 172.18.0.12 -p 33635 -t 60000
cols = [object #0 (::omero::grid::MaskColumn)
{
    name = mask
    description = desc
    imageId = 
    {
        [0] = 1
 ...        [0] = 16
            [1] = 17
            [2] = 18
            [3] = 19
            [4] = 20
        }
    }
}]
_ctx = None

    def addData(self, cols, _ctx=None):
>       return _M_omero.grid.Table._op_addData.invoke(self, ((cols, ), _ctx))
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
E       omero.InternalException: exception ::omero::InternalException
E       {
E           serverStackTrace = Traceback (most recent call last):
E         File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/util/decorators.py", line 71, in exc_handler
E           rv = func(*args, **kwargs)
E                ^^^^^^^^^^^^^^^^^^^^^
E         File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/util/decorators.py", line 31, in handler
E           return func(*args, **kwargs)
E                  ^^^^^^^^^^^^^^^^^^^^^
E         File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/tables.py", line 285, in addData
E           self.storage.append(cols)
E         File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/util/decorators.py", line 96, in with_lock
E           return func(*args, **kwargs)
E                  ^^^^^^^^^^^^^^^^^^^^^
E         File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/hdfstorageV2.py", line 85, in flush_after
E           return func(*args, **kwargs)
E                  ^^^^^^^^^^^^^^^^^^^^^
E         File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/hdfstorageV2.py", line 514, in append
E           col.append(self.__mea)  # Potential corruption !!!
E           ^^^^^^^^^^^^^^^^^^^^^^
E         File "/home/omero/workspace/OMERO-test-integration/.venv3/lib64/python3.11/site-packages/omero/columns.py", line 543, in append
E           masks.append(numpy.fromstring(x, count=len(x),
E                        ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
E       ValueError: The binary mode of fromstring is removed, use frombuffer instead
E       
E           serverExceptionClass = 
E           message = Internal exception
E       }

../../../../.venv3/lib64/python3.11/site-packages/omero_Tables_ice.py:1273: InternalException