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Minotour API, web and client code

License: GNU General Public License v3.0

Python 6.30% HTML 4.08% JavaScript 66.66% Shell 0.31% CSS 2.40% Dockerfile 0.07% Makefile 0.18% C++ 15.65% C 0.79% Perl 0.46% Roff 0.13% SCSS 1.56% Less 1.39%

minotourapp's Issues

Django 2.0 on_delete required

Trying to get minotour to run from a fresh install and it's therefore trying to use the latest django (v2.0 released 2nd Dec 2017). As soon as I run manage.py I'm getting errors back from every model with a foreign key saying they're missing the mandatory argument 'on_delete'.

See: https://docs.djangoproject.com/en/1.11/ref/models/fields/#django.db.models.ForeignKey

Example:

~$ python manage.py
Traceback (most recent call last):
  File "manage.py", line 22, in <module>
    execute_from_command_line(sys.argv)
  File "/Users/teriforey/venvs/minotour/lib/python3.6/site-packages/django/core/management/__init__.py", line 371, in execute_from_command_line
    utility.execute()
  File "/Users/teriforey/venvs/minotour/lib/python3.6/site-packages/django/core/management/__init__.py", line 347, in execute
    django.setup()
  File "/Users/teriforey/venvs/minotour/lib/python3.6/site-packages/django/__init__.py", line 24, in setup
    apps.populate(settings.INSTALLED_APPS)
  File "/Users/teriforey/venvs/minotour/lib/python3.6/site-packages/django/apps/registry.py", line 112, in populate
    app_config.import_models()
  File "/Users/teriforey/venvs/minotour/lib/python3.6/site-packages/django/apps/config.py", line 198, in import_models
    self.models_module = import_module(models_module_name)
  File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/importlib/__init__.py", line 126, in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
  File "<frozen importlib._bootstrap>", line 978, in _gcd_import
  File "<frozen importlib._bootstrap>", line 961, in _find_and_load
  File "<frozen importlib._bootstrap>", line 950, in _find_and_load_unlocked
  File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 678, in exec_module
  File "<frozen importlib._bootstrap>", line 205, in _call_with_frames_removed
  File "/Users/teriforey/PycharmProjects/minotourapp/reads/models.py", line 134, in <module>
    class MinIONControl(models.Model):
  File "/Users/teriforey/PycharmProjects/minotourapp/reads/models.py", line 135, in MinIONControl
    minION = models.ForeignKey(MinION, blank=True, null=True, related_name='minioncontrol')
TypeError: __init__() missing 1 required positional argument: 'on_delete'

remove incorrect tasks

It's possible that we might need to delete a task that has been created in error. We should consider task deletion as an option.

Read Counts Table

The table currently is not clear - it should display only All Reads unless barcoded data are present. The pass/fail data should be presented as totals as well - pass fail should be a subset of this data.

Mapping visualisation

Data is parsed, need to store in database and pull out for table.
Edit - need to display all lines, have better colours.

Messages build up.

I've been running minotour for a few days and I now have over 900 messages in the system. This is fine, but the messages api call that runs every few seconds in the main pages might perhaps want to limit the number of calls it makes?

Multiplication of event listeners on tabs causes eventual browser crash

During the setTimeout call of checkFlowcellTabs there appears to be a repeat addition of an on click event listener to the flowcell tabs.

If I were the lead developer on a codebase such as this, I would ensure that there was no additional duplications by checking for existing tabs and not append new event listeners.

Thanks you for your time

Rory Munro

Flowcell name on FLowcell page

Currently a flowcell is named as:

Flowcell FAR12345 4 (4)

This name isn't helpful to the user. We should hide the internal run id - eg 4 - in this case. We should also show the sample name.

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