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98c2a1359b
* Specialize diffexp for tiledb This patch adds a new diffexp algorithm which is tuned for tiledb. This algorithm was written by Bruce and is adapted here to plug into the current framework. The anndata_adaptor still calls the original algotithm (which was move from diffexp.py to diffexp_generic.py). The cxg_adaptor now calls the new diffexp_tiledb version. Some code is shared between the two. This is part 1 of the diffexp for tiledb. Further tuning and global throttles are still needed. A script to run and time diffexp with various options is also added: test/run_diffexp.py.
31 lines
639 B
Python
31 lines
639 B
Python
from enum import Enum
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class AugmentedEnum(Enum):
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def __hash__(self):
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return self.value.__hash__()
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def __eq__(self, other):
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if isinstance(other, type(self)) or isinstance(other, str):
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return self.value == other
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return False
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def __str__(self) -> str:
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return self.value
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class Axis(AugmentedEnum):
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OBS = "obs"
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VAR = "var"
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class DiffExpMode(AugmentedEnum):
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TOP_N = "topN"
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VAR_FILTER = "varFilter"
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JSON_NaN_to_num_warning_msg = "JSON encoding failure - please verify all data are finite values (no NaN or Infinities)"
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REACTIVE_LIMIT = 1_000_000
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MAX_LAYOUTS = 30
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