Ecosyste.ms: Issues

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GitHub / allenai/scispacy issues and pull requests

#532 - update installation note with Mac M4

Pull Request - State: open - Opened by LinglongQian 2 days ago - 1 comment

#530 - Version bump

Pull Request - State: closed - Opened by dakinggg 22 days ago

#529 - Add shorter version of pip installing nmslib from source

Pull Request - State: closed - Opened by svlandeg 23 days ago

#528 - installation guide of nmslib on Apple M2 Chip using Python 3.9

Issue - State: closed - Opened by Archertakesitez about 1 month ago - 2 comments

#527 - Models are not being able to identify the labels.

Issue - State: closed - Opened by prantasaha107 about 2 months ago

#526 - old scipy workflow

Pull Request - State: closed - Opened by dakinggg 2 months ago

#525 - Update Dockerfile

Pull Request - State: closed - Opened by dakinggg 2 months ago

#524 - Add support matrix for nmslib installation

Pull Request - State: closed - Opened by dakinggg 2 months ago

#523 - Support Python 3.12 via newer scipy and nmslib-metabrainz

Pull Request - State: closed - Opened by jason-nance 3 months ago - 1 comment

#522 - Update RxNorm Entity Linker Data

Issue - State: closed - Opened by ulc0 3 months ago - 4 comments

#521 - It fails installation scipy<1.11

Issue - State: closed - Opened by ainilaha 4 months ago - 2 comments

#520 - EntityLinker import hangs

Issue - State: closed - Opened by mezarque 4 months ago - 2 comments

#519 - scipy pin preventing Python 3.12 support?

Issue - State: closed - Opened by jason-nance 4 months ago - 7 comments

#518 - pip install scispacy > ERROR: Failed cleaning build dir for nmslib

Issue - State: closed - Opened by science-labs-f 4 months ago - 3 comments

#517 - Resources for Abbreviation Disambiguation in Scispacy?

Issue - State: closed - Opened by dagmawinegesse12 5 months ago - 1 comment

#516 - Filtering CUI/TUI returned entities?

Issue - State: open - Opened by ddofer 5 months ago - 1 comment

#515 - Interactive demo is not working

Issue - State: open - Opened by xuanyshi 6 months ago - 2 comments

#514 - About the "en_core_sci_scibert 0.5.4" library

Issue - State: closed - Opened by rhyhck 6 months ago - 1 comment

#513 - Scispacy library not working with medspacy.

Issue - State: closed - Opened by DeFrayne 7 months ago - 2 comments

#511 - Fix export_umls_json.py

Pull Request - State: closed - Opened by ethanhkim 8 months ago

#510 - About Tanse

Issue - State: closed - Opened by rhyhck 8 months ago - 1 comment

#509 - export_umls_json.py failing

Issue - State: closed - Opened by ethanhkim 8 months ago - 4 comments

#508 - Update publish workflow to trusted publisher

Pull Request - State: closed - Opened by dakinggg 8 months ago

#507 - Update for spacy 3.7 compatibility

Pull Request - State: closed - Opened by dakinggg 9 months ago

#506 - Update CDK stack for public API to reflect new unauthenticated limits

Issue - State: closed - Opened by ca16 9 months ago - 1 comment

#505 - Can't add sciscpacy pipe

Issue - State: closed - Opened by miquelmongeAZ 9 months ago

#504 - SciSpacy Python 3.11 Installation Fails / Broken nmslib dependency

Issue - State: closed - Opened by ksaadDE 10 months ago - 7 comments

#503 - Module for scispacy not working

Issue - State: closed - Opened by Akkun4 10 months ago - 1 comment

#502 - POS tagging results are not correct

Issue - State: closed - Opened by adityakadrekar16 10 months ago - 1 comment

#501 - Spcay recoginize similar words into different entities

Issue - State: closed - Opened by LeiGong0125Carrot 12 months ago - 1 comment

#500 - NER-classes: Where to find definitions?

Issue - State: closed - Opened by raven44099 12 months ago - 1 comment

#499 - add progress bar to http_get

Pull Request - State: closed - Opened by WeixiongLin about 1 year ago - 2 comments

#498 - pip install scispacy en_core_sci_sm-0.5.3 fails with python 3.12.0

Issue - State: closed - Opened by mihogarth about 1 year ago - 1 comment

#497 - Unable to install scispacy on Macbook Pro M1

Issue - State: closed - Opened by kaushaltaliun about 1 year ago - 2 comments

#496 - add progress bar to http_get

Pull Request - State: closed - Opened by WeixiongLin about 1 year ago - 2 comments

#495 - Fixes #485 Project Page URL in setup.py

Pull Request - State: closed - Opened by sajedjalil about 1 year ago

#494 - Update to latest spacy version

Pull Request - State: closed - Opened by dakinggg about 1 year ago

#493 - Updating nmslib hyperparameters guide url

Pull Request - State: closed - Opened by kaushikacharya about 1 year ago

#491 - en_core_si_lg: dimensionality of word vectors is 300?

Issue - State: closed - Opened by barebra about 1 year ago - 2 comments

#490 - Add progress bar for installation downloading

Issue - State: closed - Opened by WeixiongLin over 1 year ago - 3 comments

#489 - Drop umls and umls_ents attributes in linker

Pull Request - State: closed - Opened by JohnGiorgi over 1 year ago

#488 - Entity linker sets redundant extensions on Span objects

Issue - State: closed - Opened by JohnGiorgi over 1 year ago - 2 comments

#487 - Issues in Installing scispacy , Building wheel for nmslib didnt not work

Issue - State: closed - Opened by Teezq over 1 year ago - 5 comments

#486 - Add support for spaCy 3.5.x

Issue - State: closed - Opened by de-code over 1 year ago - 5 comments

#485 - Project URL pointing to non-existing GitHub Pages site

Issue - State: closed - Opened by de-code over 1 year ago - 1 comment

#484 - Add a note about make_serializable argument

Pull Request - State: closed - Opened by JohnGiorgi over 1 year ago - 3 comments

#483 - Avoid highly specific matches on general terms

Issue - State: closed - Opened by kristinlindquist over 1 year ago - 2 comments

#482 - Duplicate aliases in UMLS concepts dictionary

Issue - State: closed - Opened by rxk2rxk over 1 year ago - 1 comment

#481 - Convert nmslib to annoy

Pull Request - State: closed - Opened by nanthony007 over 1 year ago - 11 comments

#480 - Support custom N-Gram ranges (Solves #479)

Pull Request - State: closed - Opened by nachollorca over 1 year ago

#479 - Support for custom N-Gram ranges

Issue - State: closed - Opened by nachollorca over 1 year ago

#478 - Support UMLS filtering by language (Solves #477)

Pull Request - State: closed - Opened by nachollorca over 1 year ago

#477 - Support languages other than English

Issue - State: closed - Opened by nachollorca over 1 year ago

#476 - Update README.md

Pull Request - State: closed - Opened by dakinggg over 1 year ago

#474 - Update to the latest UMLS version

Pull Request - State: closed - Opened by dakinggg over 1 year ago

#473 - Remove NMSLIB dependency

Issue - State: closed - Opened by nanthony007 over 1 year ago - 13 comments

#472 - Update EntityLinker docstring

Pull Request - State: closed - Opened by andyjessen over 1 year ago

#471 - S3 download failes for ud_ontonotes!

Issue - State: closed - Opened by shahryary over 1 year ago - 1 comment

#470 - Difficulty installing nmslib

Issue - State: closed - Opened by GBULLR over 1 year ago - 1 comment

#469 - Configuration for model locations

Issue - State: open - Opened by buddha314 over 1 year ago - 3 comments
Labels: enhancement

#468 - How to extract all species names in a document?

Issue - State: closed - Opened by bpersevere almost 2 years ago - 4 comments

#467 - Can you finetune the pre-trained algoritms in scispacy to add more labels?

Issue - State: closed - Opened by kharanshu2 almost 2 years ago - 1 comment

#466 - Update release readme

Issue - State: closed - Opened by dakinggg almost 2 years ago
Labels: documentation

#465 - Degradation in en-core-sci-scibert model performance

Issue - State: closed - Opened by aryehgigi almost 2 years ago - 1 comment

#464 - UserWarning: [W036] The component 'matcher' does not have any patterns defined.

Issue - State: closed - Opened by hrshdhgd almost 2 years ago - 1 comment

#463 - "Mesh" and "Hpo" linkers give the same result

Issue - State: closed - Opened by almogmor almost 2 years ago - 8 comments

#462 - incompatability error when installing en_core_sci_sm

Issue - State: closed - Opened by EmanuelFaria almost 2 years ago - 1 comment

#461 - entity recognition doesn't recognize locations

Issue - State: closed - Opened by maayansharon10 almost 2 years ago - 1 comment

#460 - Update UMLS to latest release

Issue - State: closed - Opened by rxk2rxk almost 2 years ago - 15 comments
Labels: enhancement

#459 - Run Sample ERROR.

Issue - State: closed - Opened by vegaviazhang almost 2 years ago - 5 comments

#458 - CVE-2007-4559 Patch

Pull Request - State: closed - Opened by TrellixVulnTeam almost 2 years ago

#457 - Cannot find how to access that umls_semantic_type_tree.tsv file

Issue - State: closed - Opened by agr505 about 2 years ago

#456 - Update README.md

Pull Request - State: closed - Opened by dakinggg about 2 years ago

#455 - nmslib install error using a conda env on mac m1

Issue - State: closed - Opened by briangriner about 2 years ago - 6 comments

#454 - Is it possible to pre-download data file for UMLS?

Issue - State: closed - Opened by rjiang9 about 2 years ago - 2 comments

#453 - Fix typo

Pull Request - State: closed - Opened by andyjessen about 2 years ago

#452 - Modify short form filter function

Pull Request - State: closed - Opened by andyjessen about 2 years ago - 4 comments

#451 - Conjunctions in noun phrases

Issue - State: closed - Opened by chrishmorris about 2 years ago - 1 comment

#449 - 0.5.1 (spacy 3.4.x) upgrade

Pull Request - State: closed - Opened by dakinggg about 2 years ago

#448 - scibert model doesn't split sentences

Issue - State: closed - Opened by dakinggg about 2 years ago

#447 - Error running sample code: OSError: [Errno 36] File name too long

Issue - State: open - Opened by kryptec over 2 years ago - 1 comment
Labels: bug

#446 - Error thrown out at LINE: from scispacy.linking import EntityLinker

Issue - State: closed - Opened by rjiang9 over 2 years ago - 3 comments

#445 - Unable to install scispacy on windows using pip

Issue - State: closed - Opened by Cbezz over 2 years ago - 2 comments

#444 - Drug name entity recognition

Issue - State: closed - Opened by Frank-LIU-520 over 2 years ago - 1 comment

#443 - zipfile.BadZipFile: File is not a zip file

Issue - State: closed - Opened by lzxlin over 2 years ago - 4 comments

#442 - Error installing scispacy for M1 Mac

Issue - State: closed - Opened by pika97 over 2 years ago - 4 comments

#441 - Unexpected abbreviation detection behaviour

Issue - State: closed - Opened by mpetruc over 2 years ago - 3 comments
Labels: bug

#440 - Training scispacy pipelines require recreating the vocab file

Issue - State: open - Opened by Hammad-NobleAI over 2 years ago - 6 comments
Labels: bug

#439 - encoding="utf-8"

Pull Request - State: closed - Opened by jgroehm over 2 years ago - 3 comments

#437 - EntityLinker Import Kills Kernel

Issue - State: closed - Opened by Kate-Phillips over 2 years ago - 1 comment

#436 - Releasing a tool to PyPi with an `en_ner_craft_md` dependency

Issue - State: closed - Opened by hrshdhgd over 2 years ago - 1 comment

#435 - RxCUIs when 'rxnorm' is selected

Issue - State: closed - Opened by jeonge1 over 2 years ago - 1 comment

#434 - Spacy >=3.3.0

Issue - State: closed - Opened by mpetruc over 2 years ago - 4 comments

#433 - MeSH + OMIM entity linkers for a single piece of text at a time

Issue - State: closed - Opened by srishti-git1110 over 2 years ago - 1 comment