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Table locking & column preallocation #586

Merged
152 commits merged into from
Feb 6, 2023
Merged

Table locking & column preallocation #586

152 commits merged into from
Feb 6, 2023

Commits on Oct 27, 2022

  1. Add an AddScoresStage to the sid pipeline, and validate the scores ag… 

    …ainst the classification labels
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    dagardner-nv committed Oct 27, 2022
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Commits on Oct 28, 2022

  1. Parametarize running the test for both row and column major

    @dagardner-nv
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  2. Use get_meta method to ensure slixing is applied

    @dagardner-nv
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  3. Parametarize the pipeline_batch_size

    @dagardner-nv
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Commits on Oct 29, 2022

  1. Perform cuda copy using cudf::type_dispatcher

    @dagardner-nv
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  2. Parametarize values

    @dagardner-nv
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  3. Move compare_class_to_scores to utils.py

    @dagardner-nv
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  4. Add add-scores test

    @dagardner-nv
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  5. Merge branch 'branch-22.11' into david-add-scores-bug

    @dagardner-nv
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Commits on Oct 31, 2022

  1. Concatinate the input rather that repeating it, this forces the 

    deserialize stage to slice up the input and trigger the bug
    @dagardner-nv
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  2. Merge branch 'david-add-scores-bug' of github.com:dagardner-nv/Morphe… 

    …us into david-add-scores-bug
    @dagardner-nv
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  3. fix tests

    @dagardner-nv
    dagardner-nv committed Oct 31, 2022
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  4. Fix type hint on convmesg class

    @dagardner-nv
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  5. Fix offset in ConvMdg

    @dagardner-nv
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  6. Remove unused imports

    @dagardner-nv
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  7. Parametrize column ordering, pipeline size, and data size in filter d… 

    …etection stage tests, also fix multi-segment tests
    @dagardner-nv
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  8. Adding fixes for making sliced copies and for calling set_meta() with… 

    … types size > 1
    @mdemoret-nv
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  9. FIrst pass at making a TableInfo and MutableTableInfo

    @mdemoret-nv
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  10. Merge branch 'branch-22.11' into mdd_table-info-locking

    @mdemoret-nv
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Commits on Nov 1, 2022

  1. Partially working

    @mdemoret-nv
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  2. All tests passing locally

    @mdemoret-nv
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Commits on Nov 2, 2022

  1. Undoing incorrectly committed changes to test_sid.py

    @mdemoret-nv
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  2. General cleanup

    @mdemoret-nv
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  3. Forgot to add imports

    @mdemoret-nv
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  4. Fixing file source stage and ensuring the repeat option works correctly

    @mdemoret-nv
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  5. Fixing imports

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Commits on Nov 4, 2022

  1. Merge branch 'branch-22.11' into mdd_table-info-locking

    @mdemoret-nv
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Commits on Nov 14, 2022

  1. Merge branch 'branch-22.11' into david-mdd_table-info-locking

    @dagardner-nv
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  2. Remove warning about tests not having a return value, also removes co… 

    …de that is always bypassed
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  3. wip

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  4. Merge branch 'branch-22.11' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv committed Nov 14, 2022
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  5. Add debug logging

    @dagardner-nv
    dagardner-nv committed Nov 14, 2022
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  6. Fixed preallocation in python only exec

    @dagardner-nv
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Commits on Nov 15, 2022

  1. wip

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  2. wip

    @dagardner-nv
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  3. logging

    @dagardner-nv
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  4. Fix handling of bool string '?' as '?1' isn't supported by numpy

    @dagardner-nv
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  5. wip

    @dagardner-nv
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  6. Clean up includes

    @dagardner-nv
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  7. Handle multi messages

    @dagardner-nv
    dagardner-nv committed Nov 15, 2022
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  8. Use an ordered dict

    @dagardner-nv
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  9. Use an ordered dict and remove debug logs

    @dagardner-nv
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  10. PreallocateStage is now a template class allowing support for both Me… 

    …sageMeta and MultiMessage classes
    @dagardner-nv
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  11. Add some doc strings

    @dagardner-nv
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  12. Perform column pre-allocation on a per-segment basis

    @dagardner-nv
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  13. Change type string to one supported by Morpheus' DType class

    @dagardner-nv
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  14. Update ConvMsg to set a specific type for probs

    @dagardner-nv
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  15. Merge branch 'branch-22.11' into david-mdd_table-info-locking

    @dagardner-nv
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  16. Merge branch 'branch-22.11' into mdd_table-info-locking

    @mdemoret-nv
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  17. Move 'Building Segment' logs to the inner_build so that they corelate… 

    … to the actual build
    @dagardner-nv
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  18. Use the C++ impl of Preallocate if we can even if the souce stage doe… 

    …sn't have a cpp impl
    @dagardner-nv
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  19. Merge branch 'mdd_table-info-locking' into david-mdd_table-info-locking

    @dagardner-nv
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  20. Add docstring for probs_type

    @dagardner-nv
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  21. Remove wip prints

    @dagardner-nv
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Commits on Nov 16, 2022

  1. Fixing merge issue

    @mdemoret-nv
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  2. Return the boundary egress/ingress nodes that were created

    @dagardner-nv
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  3. Tests for preallocation feature

    @dagardner-nv
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  4. Group the docstring to apply to both overloads

    @dagardner-nv
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  5. Move preallocation logic to a mixin class

    @dagardner-nv
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  6. Add a docstring for the class and re-introduce support for DataFrames

    @dagardner-nv
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Commits on Nov 17, 2022

  1. wip

    @dagardner-nv
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  2. Move inheritance order

    @dagardner-nv
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  3. Add PreallocatorMixin class to the other sources

    @dagardner-nv
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  4. Replace needed_columns property with get_needed_columns & set_needed_… 

    …columns pair
    @dagardner-nv
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  5. Add some docstrings

    @dagardner-nv
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  6. Pre-instantiate PreallocateStage & PreallocateStageInterfaceProxy for… 

    … MessageMeta & MultiMessage and move impls to cpp file
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  7. wip

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  8. Use a single vector of tuples rather than two vectors

    @dagardner-nv
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  9. Merge branch 'mdd_table-info-locking' into david-mdd_table-info-locking

    @dagardner-nv
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  10. Tighten up the set_meta method

    @dagardner-nv
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  11. Catch any potential exceptions encountered fetching the column, and t… 

    …hrow a descriptive error
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  12. Move error handling to get_meta which is where the exception is throw… 

    …n, add a test for the error
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  13. wip

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  14. wip

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Commits on Nov 18, 2022

  1. Revert "wip" 

    This reverts commit 11de2e5.
    @dagardner-nv
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  2. Update the real world phishing example to reflect that the returned d… 

    …f is a copy of the original
    @dagardner-nv
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  3. Merge branch 'david-mdd_table-info-locking-mixin' into david-mdd_tabl… 

    …e-info-locking
    @dagardner-nv
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  4. Add PreallocatorMixin to NLPVizFileSource

    @dagardner-nv
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Commits on Nov 21, 2022

  1. Merge DataType & DType classes, rename type_util.cu to type_util.cpp … 

    …as it doesn't contain any cuda code
    @dagardner-nv
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  2. Rename type_util to dtype

    @dagardner-nv
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  3. Replace make_str_to_type_id with an initializer list, make str_to_typ… 

    …e_id a const
    @dagardner-nv
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  4. Expose TypeId enum to python

    @dagardner-nv
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  5. Use TypeId enum on python side to specify needed column types

    @dagardner-nv
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Commits on Nov 22, 2022

  1. Remove unused function

    @dagardner-nv
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  2. Use cudf.Scalar to define the new columns instead of cupy.zeros as th… 

    …is works for string columns. On the python side use a literal as pandas doesn't have an associated Scalar class. Need to test RecipientFeaturesStage when cpp execution is disabled, I had problems with the python triton client claiming the server was down
    @dagardner-nv
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Commits on Dec 13, 2022

  1. Merge branch 'branch-23.01' into david-mdd_table-info-locking

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Commits on Dec 29, 2022

  1. Merge branch 'branch-23.01' into david-mdd_table-info-locking

    @dagardner-nv
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  2. Fix missed srf ref

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  3. srf->mrc

    @dagardner-nv
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  4. Remove reundant definition of size_in_bits and fix doc group

    @dagardner-nv
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  5. Fix merge error

    @dagardner-nv
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  6. srf->mrc

    @dagardner-nv
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  7. First pass at a context manager around mutating the dataframe

    @dagardner-nv
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  8. First pass at exposing MutableTableInfo to python as a context manage… 

    …r -- Untested
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Commits on Dec 30, 2022

  1. wip

    @dagardner-nv
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  2. Define explicit constructors for MessageMeta and subclasses, dataclas… 

    …ses and property methods don't co-exist well
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  3. Update MultiMessage to use the mutable_dataframe ctx manager and _df … 

    …attr as needed
    @dagardner-nv
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  4. Update preallocate mixin to use mutable_dataframe ctx manager

    @dagardner-nv
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  5. Unittest for new MessageMeta functionality

    @dagardner-nv
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Commits on Dec 31, 2022

  1. Fixes a problem where with blocks don't have their own scope, and t… 

    …he value

returned by the context manager's __enter__ function continues to exist in the
current scope. At best we can return something that throws exceptions
when used outside of the with block.

TODO: Need a way to force the MutableTableInfo to go out of scope

ex:
	In [1]: with open('/tmp/detections.jsonlines') as fh:
	   ...:     c = fh.read()
	   ...:

	In [2]: print(fh.closed)
	True

	In [3]: fh.read()
	---------------------------------------------------------------------------
	ValueError                                Traceback (most recent call last)
	Cell In[3], line 1
	----> 1 fh.read()

	ValueError: I/O operation on closed file.
    @dagardner-nv
    dagardner-nv committed Dec 31, 2022
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Commits on Jan 3, 2023

  1. Both MutableTableInfo and pybind11::object are now unique_ptrs, allow… 

    …ing explicit control of when the context manager does and does not hold a reference to it
    @dagardner-nv
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  2. Update to mutable dataframe changes

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    dagardner-nv committed Jan 3, 2023
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  3. Mark any test that executes a pipeline as slow

    @dagardner-nv
    dagardner-nv committed Jan 3, 2023
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  4. Ignore our own warning about the df property when runnin tests

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  5. Manipulate the dataframe in-place using the new mutable_dataframe con… 

    …text manager
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  6. Add a comment explaining the usage of the _needed_columns attribute

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    dagardner-nv committed Jan 3, 2023
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  7. Use the _sep_token attribute

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    dagardner-nv committed Jan 3, 2023
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  8. Update docs to reflect the new preallocate and mutable_dataframe changes

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    dagardner-nv committed Jan 3, 2023
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  9. Restore _preallocate_df method

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  10. Document PreallocatorMixin and fix type-os

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    dagardner-nv committed Jan 3, 2023
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  11. punctuation

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    dagardner-nv committed Jan 3, 2023
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  12. Add blank line

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    dagardner-nv committed Jan 3, 2023
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Commits on Jan 4, 2023

  1. Update copyright year

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    dagardner-nv committed Jan 4, 2023
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  2. Merge branch 'branch-23.01' into david-mdd_table-info-locking

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  3. Add MORPHEUS_CONTAINER as an arg

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    dagardner-nv committed Jan 4, 2023
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  4. Update CR year

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    dagardner-nv committed Jan 4, 2023
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  5. Fix DFP example due to recent changes

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    dagardner-nv committed Jan 4, 2023
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  6. Formatting fixes

    @dagardner-nv
    dagardner-nv committed Jan 4, 2023
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  7. Remove unused import

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    dagardner-nv committed Jan 4, 2023
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  8. Remove unused imports

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    dagardner-nv committed Jan 4, 2023
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  9. Formatting fixes

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Commits on Jan 6, 2023

  1. Merge branch 'branch-23.01' into david-mdd_table-info-locking

    @dagardner-nv
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Commits on Jan 19, 2023

  1. Move TypeId & tyepid_to_numpy_str into the common module

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  2. Rename MutableCtxMgr --> MutableTableCtxMgr per PR feedback

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    dagardner-nv committed Jan 19, 2023
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  3. Merge branch 'branch-23.01' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv committed Jan 19, 2023
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  4. Don't call get_mutable_info until the __enter__ method

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    dagardner-nv committed Jan 19, 2023
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Commits on Jan 20, 2023

  1. Update to return the dataframe from the enter method of the context m… 

    …anager, TODO: Update docs
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    dagardner-nv committed Jan 20, 2023
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  2. Move MutableTableCtxMgr to its own compilation unit

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    dagardner-nv committed Jan 20, 2023
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  3. Add mutable_table_ctx_mgr.cpp to cmake

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    dagardner-nv committed Jan 20, 2023
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  4. Update docs

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    dagardner-nv committed Jan 20, 2023
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Commits on Jan 21, 2023

  1. MutableTableCtxMgr moved to separate compilation unit

    @dagardner-nv
    dagardner-nv committed Jan 21, 2023
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  2. py::attribute_error is probably a better error than a runtime

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    dagardner-nv committed Jan 21, 2023
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  3. MutableTableCtxMgr moved to separate compilation unit

    @dagardner-nv
    dagardner-nv committed Jan 21, 2023
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  4. Update python to match cpp changes

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    dagardner-nv committed Jan 21, 2023
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  5. More tests

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    dagardner-nv committed Jan 21, 2023
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  6. Merge branch 'branch-23.01' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv authored Jan 21, 2023
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  7. Fix CR year

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    dagardner-nv committed Jan 21, 2023
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  8. Add CR header

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    dagardner-nv committed Jan 21, 2023
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  9. Merge branch 'david-mdd_table-info-locking' of github.com:dagardner-n… 

    …v/Morpheus into david-mdd_table-info-locking
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    dagardner-nv committed Jan 21, 2023
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Commits on Jan 25, 2023

  1. Merge branch 'branch-23.01' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv committed Jan 25, 2023
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  2. Fix merge issues

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    dagardner-nv committed Jan 25, 2023
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  3. Fix merge errors

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    dagardner-nv committed Jan 25, 2023
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Commits on Jan 26, 2023

  1. fix_all.sh updates

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    dagardner-nv committed Jan 26, 2023
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  2. Merge branch 'branch-23.01' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv authored Jan 26, 2023
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Commits on Jan 27, 2023

  1. Merge branch 'branch-23.01' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv authored Jan 27, 2023
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Commits on Jan 31, 2023

  1. Merge branch 'branch-23.03' into david-mdd_table-info-locking

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Commits on Feb 1, 2023

  1. Merge branch 'branch-23.03' into david-mdd_table-info-locking

    @dagardner-nv
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  2. Merge branch 'branch-23.03' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv authored Feb 1, 2023
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Commits on Feb 6, 2023

  1. Merge branch 'branch-23.03' into david-mdd_table-info-locking

    @dagardner-nv
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  2. Merge branch 'david-mdd_table-info-locking' of github.com:dagardner-n… 

    …v/Morpheus into david-mdd_table-info-locking
    @dagardner-nv
    dagardner-nv committed Feb 6, 2023
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  3. Remove redundant import

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    dagardner-nv committed Feb 6, 2023
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  4. Merge branch 'branch-23.03' into david-mdd_table-info-locking

    @dagardner-nv
    dagardner-nv authored Feb 6, 2023
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