From 1b5de8142fface85eb6d2de4fdbff9a41536968a Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Mon, 2 Dec 2024 15:50:50 -0600
Subject: Add UI to view status of the job as it runs.

---
 uploader/phenotypes/views.py                  | 27 +++++++++++
 uploader/templates/phenotypes/job-status.html | 69 +++++++++++++++++++++++++++
 2 files changed, 96 insertions(+)
 create mode 100644 uploader/templates/phenotypes/job-status.html

(limited to 'uploader')

diff --git a/uploader/phenotypes/views.py b/uploader/phenotypes/views.py
index 79aab81..f23b377 100644
--- a/uploader/phenotypes/views.py
+++ b/uploader/phenotypes/views.py
@@ -366,3 +366,30 @@ def add_phenotypes(species: dict, population: dict, dataset: dict, **kwargs):# p
         #     f"{app.config['UPLOAD_FOLDER']}/job_errors")
 
     raise NotImplementedError("Please implement this...")
+
+
+@phenotypesbp.route(
+    "<int:species_id>/populations/<int:population_id>/phenotypes/datasets"
+    "/<int:dataset_id>/job/<uuid:job_id>",
+    methods=["GET"])
+@require_login
+@with_dataset(
+    species_redirect_uri="species.populations.phenotypes.index",
+    population_redirect_uri="species.populations.phenotypes.select_population",
+    redirect_uri="species.populations.phenotypes.list_datasets")
+def job_status(species: dict, population: dict, dataset: dict, job_id: uuid, **kwargs):
+    """Retrieve current status of a particular phenotype QC job."""
+    from uploader.debug import __pk__
+
+    with Redis.from_url(app.config["REDIS_URL"], decode_responses=True) as rconn:
+        try:
+            job = jobs.job(rconn, jobs.jobsnamespace(), str(job_id))
+        except jobs.JobNotFound as _jnf:
+            job = None
+        return render_template("phenotypes/job-status.html",
+                               species=species,
+                               population=population,
+                               dataset=dataset,
+                               job_id=job_id,
+                               job=job,
+                               activelink="add-phenotypes")
diff --git a/uploader/templates/phenotypes/job-status.html b/uploader/templates/phenotypes/job-status.html
new file mode 100644
index 0000000..d531a71
--- /dev/null
+++ b/uploader/templates/phenotypes/job-status.html
@@ -0,0 +1,69 @@
+{%extends "phenotypes/base.html"%}
+{%from "cli-output.html" import cli_output%}
+{%from "flash_messages.html" import flash_all_messages%}
+{%from "macro-table-pagination.html" import table_pagination%}
+{%from "phenotypes/macro-display-pheno-dataset-card.html" import display_pheno_dataset_card%}
+
+{%block extrameta%}
+{%if job and job.status not in ("success", "completed:success", "error", "completed:error")%}
+<meta http-equiv="refresh" content="5" />
+{%endif%}
+{%endblock%}
+
+{%block title%}Phenotypes{%endblock%}
+
+{%block pagetitle%}Phenotypes{%endblock%}
+
+{%block lvl4_breadcrumbs%}
+<li {%if activelink=="add-phenotypes"%}
+    class="breadcrumb-item active"
+    {%else%}
+    class="breadcrumb-item"
+    {%endif%}>
+  <a href="{{url_for('species.populations.phenotypes.add_phenotypes',
+           species_id=species.SpeciesId,
+           population_id=population.Id,
+           dataset_id=dataset.Id)}}">View Datasets</a>
+</li>
+{%endblock%}
+
+{%block contents%}
+
+{%if job%}
+<div class="row">
+  <p><strong>Status:</strong> {{job.status}}</p>
+  {%if job.status in ("completed:success", "success")%}
+  <p><a href="#"
+        class="not-implemented btn btn-primary"
+        title="Continue to process data">Continue</a>
+  </p>
+  {%endif%}
+</div>
+
+<div class="row">
+  {{cli_output(job, "stdout")}}
+</div>
+
+<div class="row">
+  {{cli_output(job, "stderr")}}
+</div>
+{%else%}
+<div class="row">
+  <h3 class="text-danger">No Such Job</h3>
+  <p>Could not find a job with the ID: {{job_id}}</p>
+  <p>
+    Please go back to
+    <a href="{{url_for('species.populations.phenotypes.view_dataset',
+             species_id=species.SpeciesId,
+             population_id=population.Id,
+             dataset_id=dataset.Id)}}"
+       title="'{{dataset.Name}}' dataset page">
+      the '{{dataset.Name}}' dataset page</a>
+    to upload new phenotypes or edit existing ones.</p>
+</div>
+{%endif%}
+{%endblock%}
+
+{%block sidebarcontents%}
+{{display_pheno_dataset_card(species, population, dataset)}}
+{%endblock%}
-- 
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