10504067794

Committed 22 Aug 2024 07:54AM UTC coverage: 84.772%. First build

Build # 10504067794

Build Type

Pull #3622

github

Committed by

web-flow

Commit Message

Merge 9063fc86c into 44bbe281f

Pull Request Pull Request #3622: feat(delivery file mover service)

Run Details

49 of 51 new or added lines in 5 files covered. (96.08%)

21989 of 25939 relevant lines covered (84.77%)

0.85 hits per line

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0.0

/cg/services/file_delivery/abstract_classes.py

from abc import abstractmethod, ABC

from cg.services.file_delivery.fetch_file_service.fetch_delivery_files_service import (
    FetchDeliveryFilesService,
)
from cg.services.file_delivery.move_files_service.move_delivery_files_service import (
    MoveDeliveryFilesService,
)


class FormatDeliveryFilesService(ABC):
    """
    Abstract class that encapsulates the logic required for formatting files to deliver.
    """

    @abstractmethod
    def format_files(self, case_id: str) -> None:
        """Format the files to deliver."""
        pass


class DeliverFilesService(ABC):
    """
    Abstract class that encapsulates the logic required for delivering files to the customer.

    1. Get the files to deliver from Housekeeper based on workflow and data delivery
    2. Create a delivery folder structure in the customer folder on Hasta and move the files there
    3. Reformatting of output / renaming of files
    4. Start a Rsync job to upload the files to Caesar
    5. Track the status of the Rsync job in Trailblazer
    """

    @abstractmethod
    def __init__(
        self,
        delivery_file_manager_service: FetchDeliveryFilesService,
        move_file_service: MoveDeliveryFilesService,
    ):
        self.file_manager = delivery_file_manager_service
        self.file_mover = move_file_service

    @abstractmethod
    def deliver_files_for_case(self, case_id: str) -> None:
        """Deliver the files to the customer folder."""
        pass

1	from abc import abstractmethod, ABC	×
2
3	from cg.services.file_delivery.fetch_file_service.fetch_delivery_files_service import (	×
4	FetchDeliveryFilesService,
5	)
NEW 6	from cg.services.file_delivery.move_files_service.move_delivery_files_service import (	×
7	MoveDeliveryFilesService,
8	)
9
10
11	class FormatDeliveryFilesService(ABC):	×
12	"""
13	Abstract class that encapsulates the logic required for formatting files to deliver.
14	"""
15
16	@abstractmethod	×
17	def format_files(self, case_id: str) -> None:	×
18	"""Format the files to deliver."""
19	pass	×
20
21
22	class DeliverFilesService(ABC):	×
23	"""
24	Abstract class that encapsulates the logic required for delivering files to the customer.
25
26	1. Get the files to deliver from Housekeeper based on workflow and data delivery
27	2. Create a delivery folder structure in the customer folder on Hasta and move the files there
28	3. Reformatting of output / renaming of files
29	4. Start a Rsync job to upload the files to Caesar
30	5. Track the status of the Rsync job in Trailblazer
31	"""
32
33	@abstractmethod	×
34	def __init__(	×
35	self,
36	delivery_file_manager_service: FetchDeliveryFilesService,
37	move_file_service: MoveDeliveryFilesService,
38	):
39	self.file_manager = delivery_file_manager_service	×
40	self.file_mover = move_file_service	×
41
42	@abstractmethod	×
43	def deliver_files_for_case(self, case_id: str) -> None:	×
44	"""Deliver the files to the customer folder."""
45	pass	×

Clinical-Genomics / cg / 10504067794

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