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Pass a helper instance to SampleSetList instead of a set type

use auth.vidjil_accessible_query to include permissions

the on query for anon permissions was causing a cross join with the
auth_membership table, which made the file_count and file_size fields
incorrect

Follows 8db87b52 to fix #4232.
In sample_set_list_ we're dealing with sample sets, sets, and runs that may have different IDs
than sample sets

can_modify_sampleset need to make a db request to find the subset type, we should use can_modify_subset if we already know the sampleset type to avoid that

It appeared that between the sample_set/all and sample_set/index controller there was a difference in how
the permissions were checked. In the sample_set/index we used `auth.can_modify_sample_set` while in the
sample_set/all controller we used `auth.can_modify`. This is probably due to how permissions are handled
now (see #3077). Therefore I used the `can_modify_sample_set` function instead.

Fixes #3138

There were some places where the patient/run/generic id was used (such
as for permissions) but we want to migrate to full-on sample_set
management, so we can display the sample_set id to users.

In order to keep things simple for the time being, searching and saving
tags is now case insensitive.

Example: registering #Tag when #tag already exists will will simply link
the element to the existing #tag.
Searching for #Tag will also return #tag.

The downside to this is that auto_completion will always suggest what
the first user registered as opposed to that which the user is trying to
type.

See #2671

This feels pretty dirty, but it achieves a usage of tags which if
coherent with the usage of the such bar, which is to search for elements
containing all parts of the search.

See #2620

tags can now be queried and auto-completed by multiple group_ids. This
is in order to better manage tag auto-completion for samples added to multiple groups as well as auto-completion for search bars

Tag searching is now managed in the search box entirely. The contents is
filtered and separated into tags and search strings in order to provide
an easier way for users to manipulate tags and filter results in a
seamless manner.

Due to a length check in the wrong place, the button for incrementing
the page number was not appearing

In order to be able to indicate whether another page is available, we
query one more item than we would like to display. Therefore we need to
filter out this last element.

Previously patient and run lists has filtering. Generic sample_sets now
have filtering too.

Due to the amount of data being applied there was a considerable amount
of overhead involved in creating an object for each row in the query.

In order to attempt to preserve some of the generic code, the models
have been converted to helper classes.

The sample_set/all route contained mainy queries which not only gave it
a large amount of lines of code, but also made it difficult to test.
These changes place the queries in a class which represents a list of
sample sets.
Each querie has been isolated in its own method and can therefore be
called individually.
This will open the path for more thorough testing of our controllers and
also make them more maintainable and easier to understand.