creates a link that actually functions within the vidjil app by creating
a callback which is triggered when clicking on a tag url.

This module will allow the automatic creation and decoration of tags
within selected text fields.
A database entry is created for each new tag which will then be linked
to database records. This will later allow for easy querying.

Identified by @RyanHerb: the unit browser tests do not fail on Gitlab-CI even
if nightmare fails. To avoid that we make sure that the tap_output file
exists. That assumes that the repo was clean before launching the tests.

see vidjil/vdj#474

NightmareJS was previously installed with a hack. According to
documentation, the correct way to manage this is to either install
nightmare locally (too long for our CI uses) or `npm link` the global
installation

Feature c/2540 axe preset concensus length 2

See merge request !81

Thonier Florian authored Sep 26, 2017 and Mathieu Giraud committed Sep 27, 2017

link to #2540 bug correction

BibloLeHibou authored Sep 25, 2017 and Mathieu Giraud committed Sep 27, 2017

link to #2540

BibloLeHibou authored Sep 25, 2017 and Mathieu Giraud committed Sep 27, 2017

link to #2540

Sequences from the report can now be pasted to a text document while showing boundaries between V/D/J and N segments.

Feature by @flothoni, see !82 and #2627

link to #2627

Now, a specific span with the spaces string is use between each segments spans.
link to #2627

(
ex with enpty seqN)
link with #2627

update tests

Feature c/2628 bug get printable seg sequence

Closes #2628

See merge request !80

link to #2628

The instructions should be in the documentation rather than the Makefile. The
commands depend very much on the server architecture it is therefore poorly
portable to have such instructions in the Makefile.

Revert 717eea9e. Actually this produced more warnings for all gcc versions
than we had for some versions of clang.

- deploys and closes #2642 and #2598
- IMGT changes:
  - some metadata in headers
  - welcome back to IGLJ3*02, IGLJ4*01, IGLJ5*01, and IGLJ7*01, removed in 5ac869aa
  - updated sequences of IGHG1*01 and TRAV11*01, with one nucleotide deleted / added

See #1801.
These sequences should be distributed too, see #2642.

See #1801.

See #1801.
Note that we could also use XML or JSON from genenames.org : http://www.genenames.org/help/rest-web-service-help

Inspired from Jenkins job

See #2598.

Moving data to algo/test/data

Closes #2611 and #2636

See merge request !73

Some of the scripts are highly linked to the algorithm (however not all of
them).

Fixes #2636

See !73.