Jan

Implement norm with `np.hypot`

2

Would be nice to check whether it is faster:)

I suggest writing a step-by-step documentation on what is going on behind `download_dataset`. The source code is very hard to follow (I am blaming myself). We had multiple discussions about...

Unify abstract and section paragraphs

1

We should be able to assign an embedding to the abstract. However, currently the abstract is a separate field/attribute of the `Article` class. **Todos** - [x] Decide on the best...

`bluesearch.utils.find_files` can be slow when doing regex

1

## 🐛 Bug description We noticed that `find_files` can get really slow when we try to do recursive matching for a regex pattern. It would be nice to investigate whether...

The following command: ``` bbs_database run -n --luigi-config-args "AddTask.db_url:my.sqlite" ``` gives this error. ``` change = re.split(r"[.:]", param, maxsplit=3) TypeError: set() takes from 3 to 4 positional arguments but 5...

Handle external signals to `topic-extract` gracefully

1

## 🚀 Feature It would be very useful to be able to send a signal (e.g. SIGINT / keyboard interrupt) to a running `bbs_database topic-extract` process and have a guarantee...

## 🐛 Bug description Currently, the `add` command does not put the abstract in the sentences table. One problematic implication of this behavior is that adding pubmed articles will always...

## 🚀 Feature The `topic-extract` command seems take all the files in the directory by default. However, it can totally happen that the user has some unwanted files inside of...

## 🚀 Feature Currently, the `bbs_database add` is going to error out when an article is already in the database. When trying to add all articles in a folder It...

## 🚀 Feature The `topic-extract` step extracts a lot of information about a topic of an article. However, in the current pipeline it is only used to decide whether a...