Bug Description
Debian wants to upgrade pandas to version 1.5. In connection with this pandas version the test suite of q2templates throws an error. This is documented in a bug report.

Steps to reproduce the behavior
You can install the prerequisites (specifically pandas 1.5) as we used in the full build log. This ends with the following error:

=================================== FAILURES ===================================
______________________ TestDataFrameToHTML.test_defaults _______________________

self = <q2templates.tests.test_util.TestDataFrameToHTML testMethod=test_defaults>

    def test_defaults(self):
        df = pd.DataFrame({'col1': ['foo', 'bar', 'baz'], 'col2': [1, 2, 4.2]})

        obs = df_to_html(df)

>       self.assertIn('border="0"', obs)
E       AssertionError: 'border="0"' not found in '<table class="dataframe table table-striped table-hover">\n  <thead>\n    <tr style="text-align: right;">\n      <th></th>\n      <th>col1</th>\n      <th>col2</th>\n    </tr>\n  </thead>\n  <tbody>\n    <tr>\n      <th>0</th>\n      <td>foo</td>\n      <td>1.0</td>\n    </tr>\n    <tr>\n      <th>1</th>\n        <td>bar</td>\n      <td>2.0</td>\n    </tr>\n    <tr>\n      <th>2</th>\n      <td>baz</td>\n      <td>4.2</td>\n    </tr>\n  </tbody>\n</table>'

q2templates/tests/test_util.py:33: AssertionError
=========================== short test summary info ============================
FAILED q2templates/tests/test_util.py::TestDataFrameToHTML::test_defaults - A...
========================= 1 failed, 2 passed in 0.33s ==========================

Expected behavior
Passing the test suite as with previous pandas version.

Computation Environment

• OS: Debian (unstable + python3-pandas from experimental)
• QIIME 2 Release: 2022.8.0

Kind regards, Andreas.

Navigation through the history while in a summarize tab will break the overall tab controller. If you're on a tab, go to a second, and navigate back the iframe will change location but the tab for your previous location will still be highlighted.

Moved from qiime2/q2-feature-table/issues/79 as tab handling moved here since that issue was created.

Thoughts on how this package could work.

A simple plugin method:

# plugin/plugin_viz.py
TEMPLATE_DIR = pkg_resources.resource_filename('q2_plugin', 'assets')

def cool_viz(output_dir: str, data: pd.Series) -> None:
    processed_data = foo(data)
    plugin_template = os.path.join(TEMPLATE_DIR, 'index.html')
    outfile = os.path.join(output_dir, 'index.html')
    template_cxt = {'processed_data', processed_data}
    q2design.render(plugin_template, 'plugin_base', outfile, template_cxt)

{# plugin/assets/index.html #}
{% extends base_template %}

{% block title %}The coolest viz!{% endblock title %}
{% block content %}
<h1>A really cool viz</h1>
<ul>
    {% for obj in processed_data %}
    <li>{{ obj.attr_a }} - {{ obj.attr_b }}<li>
    {% endfor %}
</ul>
{% endblock content %}

There should be blocks for a plugin dev to provide their own CSS and JS assets. In the call to q2design.render, the first arg is the input template, the second arg is the base template to use (provided by q2design, the third arg is where to write the resulting file, and the fourth arg is the template context.

The body padding is pushing the content off of the page by 10px. Change to pad all sides.

See metadata tabulate and longitudinal volatility for examples.

Bug Description
df_to_html sets the display.max_colwidth parameter to -1 to disable truncating the cell values. This parameter value (-1) is no longer supported, and should be replaced with None to opt into the same behavior

Steps to reproduce the behavior

1. Install pandas 1.0: conda install -c conda-forge -c bioconda pandas=1.0

import pandas as pd
from q2templates import df_to_html

df = pd.DataFrame([])
df_to_html(df)

3. Observe the following error: Value must be a nonnegative integer or None

Expected behavior
No error.

References

1. Busywork.