malva.serve.serve module

exception malva.serve.serve.SequenceValidationError(message, help_text=None)

Bases: ValueError

Custom error for sequence validation issues

__init__(message, help_text=None)

malva.serve.serve.interactive_query_standard(sequence, sliding_size=128, pct_threshold=0.65, low_complexity_filter=True, countmaxkmer=100000, countminkmer=10)

Process standard sequence query

Return type:

Tuple[ndarray, ndarray, List]

class malva.serve.serve.MalvaProxyFix(app, uuid)

Bases: object

Custom middleware for handling proxy prefixes

__init__(app, uuid)

class malva.serve.serve.SpatialData(coordinates, values, bounds)

Bases: object

Class to hold spatial data and related methods

coordinates: ndarray

values: ndarray

bounds: Tuple[float, float, float, float]

property xmin: float

property xmax: float

property ymin: float

property ymax: float

__init__(coordinates, values, bounds)

class malva.serve.serve.GlobalState

Bases: object

Singleton class to manage global state and data

__init__()

initialize_from_index(index_path, max_mem=32)

Initialize global state from a malva index file

initialize(coordinates, values, bounds)

Initialize with data

get_bounds()

Get the coordinate bounds

get_coordinates()

Get the spatial coordinates

class malva.serve.serve.UserSession(session_id)

Bases: object

Class to manage per-user session data

__init__(session_id)

initialize_background()

Initialize session with background data from global state

add_query_result(locations, intensities)

Add query results to user session

add_background_data(coordinates, values)

Store background data

get_tile_data(x, y, zoom)

Get tile data for this user’s view

Return type:

ndarray

cleanup()

Clean up session data

malva.serve.serve.create_app(init_state=True, _uuid=None)

Application factory function