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-rw-r--r--uploader/population/views.py63
1 files changed, 27 insertions, 36 deletions
diff --git a/uploader/population/views.py b/uploader/population/views.py
index af0a043..5136ee0 100644
--- a/uploader/population/views.py
+++ b/uploader/population/views.py
@@ -4,8 +4,8 @@ import json
import base64
import traceback
+from requests.models import Response
from MySQLdb.cursors import DictCursor
-from pymonad.either import Left, Right, Either
from flask import (flash,
request,
url_for,
@@ -14,11 +14,11 @@ from flask import (flash,
current_app as app)
from uploader.samples.views import samplesbp
+from uploader.oauth2.client import oauth2_post
from uploader.ui import make_template_renderer
from uploader.authorisation import require_login
-from uploader.db_utils import database_connection
from uploader.genotypes.views import genotypesbp
-from uploader.oauth2.client import oauth2_get, oauth2_post
+from uploader.db_utils import database_connection
from uploader.species.models import (all_species,
species_by_id,
order_species_by_family)
@@ -107,7 +107,7 @@ def create_population(species_id: int):
).decode("utf8")
error_values = json.loads(base64.b64decode(
- error_values.encode("utf8")).decode("utf8"))
+ error_values.encode("utf8")).decode("utf8"))# type: ignore[union-attr]
return render_template(
"populations/create-population.html",
species=species,
@@ -126,7 +126,7 @@ def create_population(species_id: int):
flash("You must select a species.", "alert-danger")
return redirect(url_for("species.populations.index"))
- errors = tuple()
+ errors: tuple[tuple[str, str], ...] = tuple()
population_name = (request.form.get(
"population_name") or "").strip()
@@ -168,48 +168,39 @@ def create_population(species_id: int):
"GeneticType": request.form.get("population_genetic_type") or None
})
- def __select_inbredset_resource_category__(categories) -> Either:
- from uploader.debug import __pk__
- _cat = tuple(
- category for category in categories
- if category["resource_category_key"] == "inbredset-group")
- if len(_cat) == 0:
- return Left("Could not find appropriate category key.")
- if len(_cat) > 1:
- return Left(
- f"Invalid categories — Expected one, got {{len(_cat)}}")
- return Right(_cat[0])
-
def __handle_error__(error):
error_format = (
"\n\nThere was an error creating the population:\n\t%s\n\n")
if issubclass(type(error), Exception):
app.logger.debug(error_format, traceback.format_exc())
raise error
+ if issubclass(type(error), Response):
+ try:
+ _data = error.json()
+ except Exception as _exc:
+ raise Exception(error.content) from _exc
+ raise Exception(_data)
+
app.logger.debug(error_format, error)
raise Exception(error)
- return oauth2_get(
- "auth/resource/categories"
- ).then(
- __select_inbredset_resource_category__
- ).then(
- lambda category: oauth2_post(
- "auth/resource/create",
- json={
- "resource_name": f"Population — {population_name}",
- "resource_category": category["resource_category_id"],
- "public": "on"
- })
- ).then(
- lambda resp: flash("Successfully created resource.",
- "alert-success") or resp
- ).either(
- __handle_error__,
- lambda _success: redirect(url_for(
+ def __flash_success__(_success):
+ flash("Successfully created resource.", "alert-success")
+ return redirect(url_for(
"species.populations.view_population",
species_id=species["SpeciesId"],
- population_id=new_population["InbredSetId"])))
+ population_id=new_population["InbredSetId"]))
+
+ app.logger.debug("We begin setting up the privileges here…")
+ return oauth2_post(
+ "auth/resource/populations/create",
+ json={
+ **dict(request.form),
+ "species_id": species_id,
+ "population_id": new_population["Id"],
+ "public": "on"
+ }
+ ).either(__handle_error__, __flash_success__)
@popbp.route("/<int:species_id>/populations/<int:population_id>",