diff options
Diffstat (limited to 'uploader/expression_data/views.py')
| -rw-r--r-- | uploader/expression_data/views.py | 39 |
1 files changed, 19 insertions, 20 deletions
diff --git a/uploader/expression_data/views.py b/uploader/expression_data/views.py index c5a75e7..88c4528 100644 --- a/uploader/expression_data/views.py +++ b/uploader/expression_data/views.py @@ -105,15 +105,14 @@ def index(): if not bool(request.args.get("species_id")): return render_template("expression-data/index.html", species=order_by_family(all_species(conn)), - activelink="genotypes") + activelink="expression-data") species = species_by_id(conn, request.args.get("species_id")) if not bool(species): - flash(f"Could not find species with ID '{request.args.get('species_id')}'!", - "alert-danger") + flash("Could not find species selected!", "alert-danger") return redirect(url_for("species.populations.expression-data.index")) - return redirect(url_for("species.populations.expression-data.select_population", - species_id=species["SpeciesId"])) - return render_template() + return redirect(url_for( + "species.populations.expression-data.select_population", + species_id=species["SpeciesId"])) @exprdatabp.route("<int:species_id>/populations/expression-data/select-population", @@ -124,7 +123,7 @@ def select_population(species_id: int): with database_connection(app.config["SQL_URI"]) as conn: species = species_by_id(conn, species_id) if not bool(species): - flash("Invalid species provided!", "alert-danger") + flash("No such species!", "alert-danger") return redirect(url_for("species.populations.expression-data.index")) if not bool(request.args.get("population_id")): @@ -133,12 +132,12 @@ def select_population(species_id: int): populations=order_by_family( populations_by_species(conn, species_id), order_key="FamilyOrder"), - activelink="genotypes") + activelink="expression-data") population = population_by_species_and_id( conn, species_id, request.args.get("population_id")) if not bool(population): - flash("Invalid population selected!", "alert-danger") + flash("No such population!", "alert-danger") return redirect(url_for( "species.populations.expression-data.select_population", species_id=species_id)) @@ -202,34 +201,34 @@ def data_review(): @require_login def parse_file(species_id: int, population_id: int): """Trigger file parsing""" - errors = False + _errors = False filename = request.args.get("filename") filetype = request.args.get("filetype") species = with_db_connection(lambda con: species_by_id(con, species_id)) if not bool(species): flash("No such species.", "alert-danger") - errors = True + _errors = True if filename is None: flash("No file provided", "alert-danger") - errors = True + _errors = True if filetype is None: flash("No filetype provided", "alert-danger") - errors = True + _errors = True if filetype not in ("average", "standard-error"): flash("Invalid filetype provided", "alert-danger") - errors = True + _errors = True if filename: filepath = os.path.join(app.config["UPLOAD_FOLDER"], filename) if not os.path.exists(filepath): flash("Selected file does not exist (any longer)", "alert-danger") - errors = True + _errors = True - if errors: + if _errors: return redirect(url_for("species.populations.expression-data.upload_file")) redisurl = app.config["REDIS_URL"] @@ -272,7 +271,7 @@ def parse_status(species_id: int, population_id: int, job_id: str): progress = float(job["percent"]) status = job["status"] filename = job.get("filename", "uploaded file") - errors = jsonpickle.decode( + _errors = jsonpickle.decode( job.get("errors", jsonpickle.encode(tuple()))) if status in ("success", "aborted"): return redirect(url_for("species.populations.expression-data.results", @@ -293,7 +292,7 @@ def parse_status(species_id: int, population_id: int, job_id: str): progress = progress, message = job.get("message", ""), job_name = f"Parsing '{filename}'", - errors=errors, + errors=_errors, species=with_db_connection( lambda conn: species_by_id(conn, species_id)), population=with_db_connection( @@ -313,13 +312,13 @@ def results(species_id: int, population_id: int, job_id: uuid.UUID): if job: filename = job["filename"] - errors = jsonpickle.decode(job.get("errors", jsonpickle.encode(tuple()))) + _errors = jsonpickle.decode(job.get("errors", jsonpickle.encode(tuple()))) app.jinja_env.globals.update( isinvalidvalue=isinvalidvalue, isduplicateheading=isduplicateheading) return render_template( "expression-data/parse-results.html", - errors=errors, + errors=_errors, job_name = f"Parsing '{filename}'", user_aborted = job.get("user_aborted"), job_id=job["jobid"], |