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Removed task monitor and enabled background data save flow #251

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merged 4 commits into from
Dec 31, 2022
Merged

Removed task monitor and enabled background data save flow #251

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af2da9e
removed task monitor and enabled background data save flow
kushagra189 Nov 26, 2022
40d95f7
fixed docstrings
kushagra189 Dec 3, 2022
88292d3
fix review comments
kushagra189 Dec 31, 2022
e849652
remove app version
uniqueg Dec 31, 2022
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2 changes: 0 additions & 2 deletions cwl_wes/app.py
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Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,6 @@
from flask import current_app
from foca import Foca

from cwl_wes.tasks.register_celery import register_task_service
from cwl_wes.ga4gh.wes.service_info import ServiceInfo
from cwl_wes.exceptions import NotFound

Expand All @@ -25,7 +24,6 @@ def init_app() -> App:
service_info.set_service_info(
data=current_app.config.foca.custom.service_info.dict()
)
register_task_service()
return app


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36 changes: 17 additions & 19 deletions cwl_wes/config.yaml
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Expand Up @@ -118,13 +118,27 @@ custom:
tmp_dir: '/data/tmp'
remote_storage_url: 'ftp://ftp-private.ebi.ac.uk/upload/foivos'
celery:
monitor:
timeout: 0.1
timeout: 0.1
message_maxsize: 16777216
endpoint_params:
controller:
default_page_size: 5
timeout_cancel_run: 60
timeout_run_workflow: null
tes_server:
url: 'http://62.217.122.249:31567/'
timeout: 5
status_query_params: 'FULL'
drs_server:
port: null # use this port for resolving DRS URIs; set to `null` to use default (443)
base_path: null # use this base path for resolving DRS URIs; set to `null` to use default (`ga4gh/drs/v1`)
use_http: False # use `http` for resolving DRS URIs; set to `False` to use default (`https`)
file_types: # extensions of files to scan for DRS URI resolution
- cwl
- yaml
- yml
runs_id:
length: 6
charset: string.ascii_uppercase + string.digits
service_info:
contact_info: 'https://github.com/elixir-cloud-aai/cwl-WES'
auth_instructions_url: 'https://www.elixir-europe.org/services/compute/aai'
Expand All @@ -147,19 +161,3 @@ custom:
default_value: '5'
tags:
known_tes_endpoints: 'https://tes.tsi.ebi.ac.uk/|https://tes-dev.tsi.ebi.ac.uk/|https://csc-tesk.c03.k8s-popup.csc.fi/|https://tesk.c01.k8s-popup.csc.fi/'
app_version: 0.15.0
tes_server:
url: 'https://csc-tesk.c03.k8s-popup.csc.fi/'
timeout: 5
status_query_params: 'FULL'
drs_server:
port: null # use this port for resolving DRS URIs; set to `null` to use default (443)
base_path: null # use this base path for resolving DRS URIs; set to `null` to use default (`ga4gh/drs/v1`)
use_http: False # use `http` for resolving DRS URIs; set to `False` to use default (`https`)
file_types: # extensions of files to scan for DRS URI resolution
- cwl
- yaml
- yml
runs_id:
length: 6
charset: string.ascii_uppercase + string.digits
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