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Unresponsive Virtuoso in CD

Description

In CD, when you navigate to a datasets page, say:

you get the following stack trace:

      GeneNetwork 2.11-rc2  https://cd.genenetwork.org/datasets/BXDPublish (11:31AM UTC Apr 02, 2024) 
Traceback (most recent call last):
  File "/gnu/store/jl6x90wdbwbs7c7zxnyz2kfd0qx8bf5h-profile/lib/python3.10/site-packages/flask/app.py", line 1523, in full_dispatch_request
    rv = self.dispatch_request()
  File "/gnu/store/jl6x90wdbwbs7c7zxnyz2kfd0qx8bf5h-profile/lib/python3.10/site-packages/flask/app.py", line 1509, in dispatch_request
    return self.ensure_sync(self.view_functions[rule.endpoint])(**req.view_args)
  File "/genenetwork2/gn2/wqflask/views.py", line 1176, in get_dataset
    return render_template(
  File "/gnu/store/jl6x90wdbwbs7c7zxnyz2kfd0qx8bf5h-profile/lib/python3.10/site-packages/flask/templating.py", line 148, in render_template
    return _render(
  File "/gnu/store/jl6x90wdbwbs7c7zxnyz2kfd0qx8bf5h-profile/lib/python3.10/site-packages/flask/templating.py", line 128, in _render
    rv = template.render(context)
  File "/gnu/store/jl6x90wdbwbs7c7zxnyz2kfd0qx8bf5h-profile/lib/python3.10/site-packages/jinja2/environment.py", line 1291, in render
    self.environment.handle_exception()
  File "/gnu/store/jl6x90wdbwbs7c7zxnyz2kfd0qx8bf5h-profile/lib/python3.10/site-packages/jinja2/environment.py", line 926, in handle_exception
    raise rewrite_traceback_stack(source=source)
  File "/genenetwork2/gn2/wqflask/templates/dataset.html", line 1, in top-level template code
    {% extends "base.html" %}
  File "/genenetwork2/gn2/wqflask/templates/base.html", line 200, in top-level template code
    {% block content %}
  File "/genenetwork2/gn2/wqflask/templates/dataset.html", line 91, in block 'content'
    <a hx-get={{ url_for('metadata.view_history', id_=dataset.id.split('/')[-1], name=name, title=(dataset.title or dataset.label or dataset.altLabel)) }} hx-target=".dataset-content" hx-push-url="true" hx-select="#history">History</a>
  File "/gnu/store/jl6x90wdbwbs7c7zxnyz2kfd0qx8bf5h-profile/lib/python3.10/site-packages/jinja2/environment.py", line 475, in getattr
    return getattr(obj, attribute)
jinja2.exceptions.UndefinedError: 'dict object' has no attribute 'id'

Doing a CURL on the CD RDF endpoint yields:

������munyoki@saitama ~  ���������  curl https://cd.genenetwork.org/api3/metadata/datasets/BXDPublish 
{}

Resolution

At one point, CD was restarted and the password was not set. To remedy this:

SQL> set password "dba" "XXXXXXXXXX";
SQL> UPDATE ws.ws.sys_dav_user SET u_account_disabled=1 WHERE u_name='dav';
SQL> CHECKPOINT;

Refer to the following for more details:

  • closed
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