mirror of
https://github.com/chanzuckerberg/cellxgene.git
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f3015cb9df
* Fix Makefile whitespace and .PHONY use
* Fix Makefile filename
* Modularize Makefile into client and server Makefiles
Part of the reason that the Makefile in the root directory is a bit
complicated is that it tries to handle tasks that can be handled
separately in the client and server modules.
This commit pushes some of the make logic specific to each module into
their own makefiles and calls out to those makefiles from that in the
project root.
* Add auto-formatting to client and server modules
One thing that can make linting faster is auto-formatting. This commit
adds the yapf auto-formatting tool to the server module and uses
eslint's "fix" functionality to speed up the linting/formatting process.
* Add yapf for automatic code formatting
* Add a root test target that calls sub-tests
* Apply yapf to python files
* Do not duplicate npm commands, simply pass through
* Update documentation
* Do not shadow reserved word len
* Add general test target
* Fix make call in dev-env
* Use black instead of yapf
* Run flake8 from the root directory
* Revert "Apply yapf to python files"
This reverts commit cdca128a01.
* Apply black to python code
* Resolve lint errors resulting from black format
* Add explanation of server unit tests in dev guidelines
45 lines
1.3 KiB
Python
45 lines
1.3 KiB
Python
from functools import wraps
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from flask import json
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from numpy import float32, integer
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from server.app.util.errors import DriverError
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class Float32JSONEncoder(json.JSONEncoder):
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def __init__(self, *args, **kwargs):
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"""
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NaN/Infinities are illegal in standard JSON. Python extends JSON with
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non-standard symbols that most JavaScript JSON parsers do not understand.
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The `allow_nan` parameter will force Python simplejson to throw an ValueError
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if it runs into non-finite floating point values which are unsupported by
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standard JSON.
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"""
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kwargs["allow_nan"] = False
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super().__init__(*args, **kwargs)
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def default(self, obj):
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if isinstance(obj, float32):
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return float(obj)
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elif isinstance(obj, integer):
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return int(obj)
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return json.JSONEncoder.default(self, obj)
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def custom_format_warning(msg, *args, **kwargs):
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return f"[cellxgene] Warning: {msg} \n"
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def jsonify_scanpy(data):
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return json.dumps(data, cls=Float32JSONEncoder, allow_nan=False)
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def requires_data(func):
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@wraps(func)
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def wrapped_function(self, *args, **kwargs):
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if self.data is None:
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raise DriverError(f"error data must be loaded before you call {func.__name__}")
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return func(self, *args, **kwargs)
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return wrapped_function
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