mirror of
https://github.com/chanzuckerberg/cellxgene.git
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308ee64f30
* Improvements to the matrix cache - Add a timelimit for the matrix in the cache. Once the timelimit is reached, the matrix can be removed. - If a DatasetAccessError occurs, then remove the dataset from the matrix cache. Fixes #1322
87 lines
1.8 KiB
Python
87 lines
1.8 KiB
Python
import yaml
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default_config = """
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# cellxgene configuration
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server:
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verbose: false
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debug: false
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host: "127.0.0.1"
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port : null
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scripts : []
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open_browser: false
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about_legal_tos: null
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about_legal_privacy: null
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force_https: false
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flask_secret_key: null
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generate_cache_control_headers: false
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presentation:
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max_categories: 1000
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multi_dataset:
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dataroot: null
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# The index page when in multi-dataset mode:
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# false or null: this returns a 404 code
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# true: loads a test index page, which links to the datasets that are available in the dataroot
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# string/URL: redirect to this URL: flask.redirect(config.multi_dataset__index)
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index: false
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# A list of allowed matrix types. If an empty list, then all matrix types are allowed
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allowed_matrix_types: []
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matrix_cache:
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# The maximum number of datasets that may be opened at one time. The least recently used dataset
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# is evicted from the cache first.
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max_datasets: 5
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# A matrix is automatically removed from the cache after timelimit_s number of seconds.
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# If timelimit_s is set to None, then there is no time limit.
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timelimit_s: 30
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single_dataset:
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datapath: null
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obs_names: null
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var_names: null
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about: null
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title: null
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user_annotations:
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enable: true
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type: local_file_csv
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local_file_csv:
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directory: null
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file: null
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ontology:
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enable: false
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obo_location: null
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embeddings:
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names : []
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enable_reembedding: false
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diffexp:
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enable: true
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lfc_cutoff: 0.01
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data_locator:
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s3:
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region_name: us-east-1
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adaptor:
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cxg_adaptor:
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tiledb_ctx:
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sm.tile_cache_size: 8589934592
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sm.num_reader_threads: 32
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vfs.s3.region: us-east-1
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anndata_adaptor:
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backed: false
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"""
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def get_default_config():
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return yaml.load(default_config, Loader=yaml.Loader)
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