Updates to get kalisiris working and improved subpix (#578)

# Changelog

All changes that impact users of this project will be documented in this file.

The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),

and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).

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## [0.6.0]

### Added

- Abstract DEM interface that supports ellipsoids #576

- Fourier-Mellon subpixel registration #558

### Changed

- Updates center of gravity style subpixel matcher to use scipy.ndimage.center_of_mass of determining subpixel shifts

- Use `kalisiris` instead of `pysis` #573

- Moved `acn_submit` cluster submission script into the library and added tests for cluster submission #567

- Point identifier no longer needs to be a unique string

### Fixed

- Image to ground to support multiple input types with proper output type handling #580

- Support for ISIS special pixels in image data #577

- Fix for no correlation map returned from `geom_match_simple` #556

from autocnet.io.db.model import Points, Measures

from autocnet.utils.serializers import object_hook

def watch_insert_queue(queue, queue_name, counter_name, engine, stop_event):

def watch_insert_queue(queue, queue_name, counter_name, engine, stop_event, sleep_time=5):

    """

    A worker process to be launched in a thread that will asynchronously insert or update 

    objects in the Session using dicts pulled from a redis queue. Using this queuing approach

                measures = [measure for sublist in measures for measure in sublist]

                conn.execute(

                    insert(Measures.__table__), measures)

        time.sleep(5)

        time.sleep(sleep_time)

def watch_update_queue(queue, queue_name, counter_name, engine, stop_event):

def watch_update_queue(queue, queue_name, counter_name, engine, stop_event, sleep_time=5):

    """

    A worker process to be launched in a thread that will asynchronously insert or update 

    objects in the Session using dicts pulled from a redis queue. Using this queuing approach

                    stmt, measures

                )

    time.sleep(5)

    time.sleep(sleep_time)

                else:

                    continue

    def add_from_remote_database(self, source_db_config, path,  query_string='SELECT * FROM public.images LIMIT 10'):

    def add_from_remote_database(self, source_db_config, path=None,  query_string='SELECT * FROM public.images LIMIT 10'):

        """

        This is a constructor that takes an existing database containing images and sensors,

        copies the selected rows into the project specified in the autocnet_config variable,

               The PATH to which images in the database specified in the config

               will be copied to. This method duplicates the data and copies it

               to a user defined PATH to avoid issues with updating image ephemeris

               across projects.

               across projects. The default PATH is (None), meaning the data will

               not be copied.

        query_string : str

                       An optional string to select a subset of the images in the

        sourcesession.close()

        # Create the graph, copy the images, and compute the overlaps

        if path:

            self.copy_images(path)

        self.from_database()

        self._execute_sql(compute_overlaps_sql)

import json

from unittest.mock import patch

import fakeredis

import numpy as np

import pytest

                'processing_queue':'processing'}

    return arg_dict

@pytest.fixture

def queue():

    return fakeredis.FakeStrictRedis()

@pytest.fixture

def simple_message():

    return json.dumps({"job":"do some work",

    id = Column(Integer, primary_key=True, autoincrement=True)

    _pointtype = Column("pointType", IntEnum(PointType), nullable=False)  # 2, 3, 4 - Could be an enum in the future, map str to int in a decorator

    identifier = Column(String, unique=True)

    identifier = Column(String)

    overlapid = Column(Integer, ForeignKey('overlay.id'))

    _geom = Column("geom", Geometry('POINT', srid=latitudinal_srid, dimension=2, spatial_index=True))

    cam_type = Column(String)