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This streamlines the tests and prepares further RepSeq software checking.

Better if one wants to load the module

argparse can still be useful when loading vidjil-to-fasta externally

The test enforces that they are at the beginning of the list, but
since they are the most abundant clones in the example, this should not be a problem

These configs are the base configs used on the public server.
They should be included in any new install.

After discussions we considered it was better that by default all the files
provided on the command line are processed. The option is useful to restrict
the number of files fused from the server.

reference to id has changed in model, so this should fix the issue

At this point identity is a string, which cannot be NaN.
Therefore we start by converting the value to a float and
then we test whether is it NaN or not.

However the value may not be defined (when there are no indels),
in which case it is empty. In such a case we fallback to the
identity % without indels.

The 'smaller clones' were not displayed anymore since 2095ef31. This is fixed.

Thanks to landscape.io.

Thanks to landscape.io.

Thanks to landscape.io.

Thanks to landscape.io.

This is the case when compiling Vidjil from a fresh clone.

Shame on me. Fix c0bdefd2

Fix 223c9a49

Fix 9b3e08e6

Fused_files were previously preserved from previous runs. However the
decision has been made to no longer preserve these files as they do not
serve the expected purpose.

This reverts commit 0d40d04c.

The commit introduces a serious regression where some top clones would
be ignored. However the commit introduced an interesting feature, that
will be reintegrated (in a safer manner) in the future.

A large number of tasks were generated with the arrival of
pre-processing that simply indicated that vidjil could not yet be
started due to a pre-process having not yet finished. These tasks were
saturating the database and serve no purpose beyond the initial attempt
at launching Vidjil. This script deletes such scheduler_tasks and their associated
scheduler_uns.

In order to reduce the amount of queries to the database, the heartbeat
can now be set in the defs.py file.