nalaf

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Bumps [urllib3](https://github.com/urllib3/urllib3) from 1.24.3 to 1.26.5. Release notes Sourced from urllib3's releases. 1.26.5 :warning: IMPORTANT: urllib3 v2.0 will drop support for Python 2: Read more in the v2.0 Roadmap Fixed...

dependabot[bot]

Bug trying to run example (related to GNormPlus)

5

``` shell python example_annotate.py -c /usr/local/bin/ -s "This is c.A1003G an example" Due to a dependence on GNormPlus, running nalaf with -s and -d switches might take a long time....

juanmirocks

Some classes in nalaf depend on directly, instead of as a parameter. PRO_CLASS_ID = 'e_1' MUT_CLASS_ID = 'e_2' ORG_CLASS_ID = 'e_3' PRO_REL_MUT_CLASS_ID = 'r_4' # e_1/e_2 PRO_REL_ORG_CLASS_ID = 'r_5' #...

abojchevski

Delete Output Formats wiki page ?

2

- Wiki page: https://github.com/Rostlab/nalaf/wiki/Output-Formats - [ ] Confirm if you still use the simple JSON export - `if yes`: - [ ] fix documentation of format (I guess it's wrong...

juanmirocks

juanmirocks

Show test coverage badge

6

- [ ] Test coverage: https://coveralls.io/

juanmirocks

Maybe use Jython

juanmirocks

Part_id bug with idp4 dataset from tagtog

7

Indeed old doc didn't have `s4s1f1p1` but its text was somehow included at the end of `s4s1p2`. By parsing the doc again in latest version of tagtog, `s4s1f1p1` is indeed...

abojchevski

Check partids creation with datasets other than plain.html's

1

The commit c541aab90453c38d9390dfaefb57ec0ce15a16da may have created problems with other datasets. Verify this and implement due unit tests. **Bug Indeed** --> genormplus-generated documents so far create the parts with names "title"...

juanmirocks

- [ ] Rename relations_context and move to nalaf - [ ] Rename relations_entityhead and move to nalaf - [ ] Move all relna feature files to nalaf and rename...

juanmirocks