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5 changes: 3 additions & 2 deletions backend/core/process/builders/upload_builder.py
Original file line number Diff line number Diff line change
Expand Up @@ -28,7 +28,8 @@ def build(self):
if not check.get("success"):
raise ValueError(check.get("message"))

product.status = ProductStatus.PROCESSING
created_product = product.data
created_product.status = ProductStatus.PROCESSING
product.save()

return product.data
return created_product
5 changes: 4 additions & 1 deletion backend/core/process/service.py
Original file line number Diff line number Diff line change
Expand Up @@ -44,8 +44,11 @@ def submit(self):
)

self.process.orchestration_process_id = orch_process.get("id")
self.process.used_config = json.loads(orch_process.get("used_config", "{}"))
self.process.path = orch_process.get("path_str")
orch_used_config = orch_process.get("used_config", {})
if isinstance(orch_used_config, str):
orch_used_config = json.loads(orch_used_config or "{}")
self.process.used_config = orch_used_config
self.process.save()

def stop(self):
Expand Down
28 changes: 28 additions & 0 deletions backend/core/test/test_process_logs.py
Original file line number Diff line number Diff line change
@@ -0,0 +1,28 @@
import tempfile
from pathlib import Path

from core.utils import get_logs
from django.test import SimpleTestCase, override_settings


class GetLogsTestCase(SimpleTestCase):
def test_returns_empty_logs_when_paths_are_missing(self):
logs = get_logs(None, None)

self.assertEqual("", logs["pipeline"]["content"])
self.assertEqual("", logs["slurm"]["content"])

def test_reads_logs_from_product_dir_when_process_dir_is_missing(self):
with tempfile.TemporaryDirectory() as upload_root:
product_relpath = "validation_results/sample-product"
pipeline_log = (
Path(upload_root) / product_relpath / "process_info" / "pipeline.log"
)
pipeline_log.parent.mkdir(parents=True, exist_ok=True)
pipeline_log.write_text("pipeline output", encoding="utf-8")

with override_settings(UPLOAD_DIR=upload_root):
logs = get_logs(None, product_relpath)

self.assertEqual("pipeline output", logs["pipeline"]["content"])
self.assertEqual("", logs["slurm"]["content"])
116 changes: 116 additions & 0 deletions backend/core/test/test_process_service.py
Original file line number Diff line number Diff line change
@@ -0,0 +1,116 @@
from types import SimpleNamespace
from unittest import mock

from core.models import Pipeline, Process, Product, ProductStatus, ProductType
from core.process.builders.upload_builder import UploadBuilder
from core.process.service import ProcessService
from django.contrib.auth.models import User
from django.test import TestCase


class UploadBuilderTestCase(TestCase):
def setUp(self):
self.user = User.objects.create_user(
"john", "john@snow.com", "you_know_nothing"
)
self.product_type = ProductType.objects.create(
name="validation_results",
display_name="Validation Results",
)
self.pipeline = Pipeline.objects.create(
name="combine_redshift_dedup",
display_name="Combine Redshift Dedup",
version="1.0.0",
output_product_type=self.product_type,
)

def test_build_sets_upload_status_to_processing(self):
serializer = SimpleNamespace(
initial_data={
"pipeline": self.pipeline.pk,
"display_name": "Combined Catalog",
"description": "Generated by process",
}
)

product = UploadBuilder(serializer, self.user).build()

self.assertEqual(ProductStatus.PROCESSING, product.status)
self.assertIsNotNone(product.path)


class ProcessServiceTestCase(TestCase):
def setUp(self):
self.user = User.objects.create_user(
"john", "john@snow.com", "you_know_nothing"
)
self.product_type = ProductType.objects.create(
name="redshift_catalog",
display_name="Redshift Catalog",
)
self.pipeline = Pipeline.objects.create(
name="combine_redshift_dedup",
display_name="Combine Redshift Dedup",
version="1.0.0",
output_product_type=self.product_type,
)
self.upload = Product.objects.create(
product_type=self.product_type,
user=self.user,
display_name="Combined Catalog",
internal_name="1_combined_catalog",
path="redshift_catalog/1_combined_catalog",
status=ProductStatus.PROCESSING,
)
self.process = Process.objects.create(
display_name="Combined Catalog",
pipeline=self.pipeline,
upload=self.upload,
user=self.user,
)

@mock.patch("core.process.service.InputsBuilder.build", return_value=[])
@mock.patch("core.process.service.BasePipelineHandler.get_handler")
@mock.patch("core.process.service.Maestro")
def test_submit_accepts_dict_used_config(
self,
maestro_cls,
get_handler,
_build_inputs,
):
class FakeHandler:
def __init__(self, request, process):
self.request = request
self.process = process

def build_config(self):
return {"param": {"debug": True}}

get_handler.return_value = FakeHandler

maestro = maestro_cls.return_value
maestro.start.return_value = {
"id": 123,
"path_str": "combine_redshift_dedup/00000123",
"used_config": {
"param": {"debug": True},
"inputs": {"specz": []},
"output_dir": self.upload.path,
},
}

request = SimpleNamespace(data={})

ProcessService(request, self.process).submit()
self.process.refresh_from_db()

self.assertEqual(123, self.process.orchestration_process_id)
self.assertEqual("combine_redshift_dedup/00000123", self.process.path)
self.assertEqual(
{
"param": {"debug": True},
"inputs": {"specz": []},
"output_dir": self.upload.path,
},
self.process.used_config,
)
23 changes: 16 additions & 7 deletions backend/core/utils.py
Original file line number Diff line number Diff line change
Expand Up @@ -36,20 +36,29 @@ def get_logs(process_dir, product_dir):

logs = get_lognames()

process_dir = pathlib.Path(settings.PROCESSING_DIR, process_dir)
product_dir = pathlib.Path(settings.UPLOAD_DIR, product_dir)
search_roots = []

if process_dir:
search_roots.append(
("process_dir", pathlib.Path(settings.PROCESSING_DIR, process_dir))
)

if product_dir:
search_roots.append(
("product_dir", pathlib.Path(settings.UPLOAD_DIR, product_dir))
)

for key, data in logs.items():
log = []
lognames = data.get("filename", [])
logger.debug(f"Searching for log files: {key}")

for fname in lognames:
log = glob.glob(f"{process_dir}/**/{fname}", recursive=True)
logger.debug(f"process_dir: {process_dir}/**/{fname} -> {log}")
if not log:
log = glob.glob(f"{product_dir}/**/{fname}", recursive=True)
logger.debug(f"product_dir: {product_dir}/**/{fname} -> {log}")
for root_name, root_path in search_roots:
log = glob.glob(f"{root_path}/**/{fname}", recursive=True)
logger.debug(f"{root_name}: {root_path}/**/{fname} -> {log}")
if log:
break

if log:
break
Expand Down
16 changes: 14 additions & 2 deletions backend/core/views/process.py
Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,7 @@

import requests
from core.maestro import Maestro
from core.models import Process
from core.models import Process, ProductStatus
from core.process.builders.upload_builder import UploadBuilder
from core.process.service import ProcessService
from core.serializers import ProcessSerializer
Expand Down Expand Up @@ -84,7 +84,19 @@ def create(self, request):
try:
ProcessService(request, process).submit()
except Exception as err:
LOGGER.error(err)
process.status = "Failed"
process.comment = str(err)
process.save(update_fields=["status", "comment"])
process.upload.status = ProductStatus.FAILED
process.upload.save()
LOGGER.exception(
"Process submission failed: process_id=%s upload_id=%s orchestration_process_id=%s process_path=%s upload_path=%s",
process.pk,
process.upload_id,
process.orchestration_process_id,
process.path,
process.upload.path,
)
return Response(
{"error": str(err)},
status=status.HTTP_500_INTERNAL_SERVER_ERROR,
Expand Down
5 changes: 4 additions & 1 deletion backend/pzserver/test_settings.py
Original file line number Diff line number Diff line change
Expand Up @@ -127,8 +127,9 @@
STATIC_URL = "/django_static/"
STATIC_ROOT = os.path.join(BASE_DIR, "django_static")

UPLOAD_DIR = os.getenv("UPLOAD_DIR", os.path.join(BASE_DIR, "archive/data/"))
MEDIA_URL = os.path.join(BASE_DIR, "archive/data/")
MEDIA_ROOT = os.path.join(BASE_DIR, "archive/data/")
MEDIA_ROOT = os.getenv("MEDIA_ROOT", UPLOAD_DIR)
PRODUCT_DOWNLOAD_COMPRESSION_LEVEL = int(
os.getenv("PRODUCT_DOWNLOAD_COMPRESSION_LEVEL", "6")
)
Expand All @@ -151,6 +152,8 @@
os.getenv("PRODUCT_DOWNLOAD_PREPARE_POLL_INTERVAL_SECONDS", "0.5")
)

PROCESSING_DIR = os.getenv("PROCESSING_DIR", os.path.join(BASE_DIR, "processes"))


# Default primary key field type
# https://docs.djangoproject.com/en/4.0/ref/settings/#default-auto-field
Expand Down
2 changes: 1 addition & 1 deletion orchestration
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