Parse URLs for DOIs, PubMed identifiers, PMC identifiers, arXiv identifiers, etc.

Overview

citation-url

Tests Cookiecutter template from @cthoyt PyPI PyPI - Python Version PyPI - License Code style: black

Parse URLs for DOIs, PubMed identifiers, PMC identifiers, arXiv identifiers, etc.

This module has a single parse() function that takes in a URL and gives back a CURIE pair (with None as the first entry if it could not parse)

>> citation_url.parse("http://www.ncbi.nlm.nih.gov/pubmed/34739845") ('pubmed', '34739845') >>> citation_url.parse("https://example.com/true-garbage") (None, 'https://example.com/true-garbage')">
>>> import citation_url
>>> citation_url.parse("https://joss.theoj.org/papers/10.21105/joss.01708")
('doi', '10.21105/joss.01708')
>>> citation_url.parse("http://www.ncbi.nlm.nih.gov/pubmed/34739845")
('pubmed', '34739845')
>>> citation_url.parse("https://example.com/true-garbage")
(None, 'https://example.com/true-garbage')

🚀 Installation

The most recent release can be installed from PyPI with:

$ pip install citation_url

The most recent code and data can be installed directly from GitHub with:

$ pip install git+https://github.com/cthoyt/citation-url.git

👐 Contributing

Contributions, whether filing an issue, making a pull request, or forking, are appreciated. See CONTRIBUTING.md for more information on getting involved.

👋 Attribution

⚖️ License

The code in this package is licensed under the MIT License.

🍪 Cookiecutter

This package was created with @audreyfeldroy's cookiecutter package using @cthoyt's cookiecutter-snekpack template.

🛠️ For Developers

See developer instrutions

The final section of the README is for if you want to get involved by making a code contribution.

Development Installation

To install in development mode, use the following:

$ git clone git+https://github.com/cthoyt/citation-url.git
$ cd citation-url
$ pip install -e .

🥼 Testing

After cloning the repository and installing tox with pip install tox, the unit tests in the tests/ folder can be run reproducibly with:

$ tox

Additionally, these tests are automatically re-run with each commit in a GitHub Action.

📖 Building the Documentation

$ tox -e docs

📦 Making a Release

After installing the package in development mode and installing tox with pip install tox, the commands for making a new release are contained within the finish environment in tox.ini. Run the following from the shell:

$ tox -e finish

This script does the following:

  1. Uses Bump2Version to switch the version number in the setup.cfg and src/citation_url/version.py to not have the -dev suffix
  2. Packages the code in both a tar archive and a wheel
  3. Uploads to PyPI using twine. Be sure to have a .pypirc file configured to avoid the need for manual input at this step
  4. Push to GitHub. You'll need to make a release going with the commit where the version was bumped.
  5. Bump the version to the next patch. If you made big changes and want to bump the version by minor, you can use tox -e bumpversion minor after.
You might also like...
MeSH2Matrix - A set of Python codes for the generation of biomedical ontologies from the MeSH keywords of the PubMed scholarly publications

A set of Python codes for the generation of biomedical ontologies from the MeSH keywords of the PubMed scholarly publications

Empirical Study of Transformers for Source Code & A Simple Approach for Handling Out-of-Vocabulary Identifiers in Deep Learning for Source Code

Transformers for variable misuse, function naming and code completion tasks The official PyTorch implementation of: Empirical Study of Transformers fo

Simple DDL Parser to parse SQL (HQL, TSQL, AWS Redshift, Snowflake and other dialects) ddl files to json/python dict with full information about columns: types, defaults, primary keys, etc.

Simple DDL Parser Build with ply (lex & yacc in python). A lot of samples in 'tests/. Is it Stable? Yes, library already has about 5000+ usage per day

Python based Web Scraper which can discover javascript files and parse them for juicy information (API keys, IP's, Hidden Paths etc)
Python based Web Scraper which can discover javascript files and parse them for juicy information (API keys, IP's, Hidden Paths etc)

Python based Web Scraper which can discover javascript files and parse them for juicy information (API keys, IP's, Hidden Paths etc).

🗃 Open source self-hosted web archiving. Takes URLs/browser history/bookmarks/Pocket/Pinboard/etc., saves HTML, JS, PDFs, media, and more...
🗃 Open source self-hosted web archiving. Takes URLs/browser history/bookmarks/Pocket/Pinboard/etc., saves HTML, JS, PDFs, media, and more...

ArchiveBox Open-source self-hosted web archiving. ▶️ Quickstart | Demo | Github | Documentation | Info & Motivation | Community | Roadmap "Your own pe

arxiv-sanity, but very lite, simply providing the core value proposition of the ability to tag arxiv papers of interest and have the program recommend similar papers.
arxiv-sanity, but very lite, simply providing the core value proposition of the ability to tag arxiv papers of interest and have the program recommend similar papers.

arxiv-sanity, but very lite, simply providing the core value proposition of the ability to tag arxiv papers of interest and have the program recommend similar papers.

Listing arxiv - Personalized list of today's articles from ArXiv
Listing arxiv - Personalized list of today's articles from ArXiv

Personalized list of today's articles from ArXiv Print and/or send to your gmail

Arxiv harvester - Poor man's simple harvester for arXiv resources

Poor man's simple harvester for arXiv resources This modest Python script takes

This tool extracts Credit card numbers, NTLM(DCE-RPC, HTTP, SQL, LDAP, etc), Kerberos (AS-REQ Pre-Auth etype 23), HTTP Basic, SNMP, POP, SMTP, FTP, IMAP, etc from a pcap file or from a live interface.

This tool extracts Credit card numbers, NTLM(DCE-RPC, HTTP, SQL, LDAP, etc), Kerberos (AS-REQ Pre-Auth etype 23), HTTP Basic, SNMP, POP, SMTP, FTP, IMAP, etc from a pcap file or from a live interface.

Parse feeds in Python

feedparser - Parse Atom and RSS feeds in Python. Copyright 2010-2020 Kurt McKee cont[email protected] Copyright 2002-2008 Mark Pilgrim feedparser

A python module to parse the Open Graph Protocol

OpenGraph is a module of python for parsing the Open Graph Protocol, you can read more about the specification at http://ogp.me/ Installation $ pip in

Parse human-readable date/time strings

parsedatetime Parse human-readable date/time strings. Python 2.6 or greater is required for parsedatetime version 1.0 or greater. While we still test

Parse 11.000 free proxies!

Proxy Machine Description I did this project in order to boost views with the teleboost ✈️ in my Telegram channel. You can use it not only for boostin

Parse Robinhood 1099 Tax Document from PDF into CSV
Parse Robinhood 1099 Tax Document from PDF into CSV

Robinhood 1099 Parser This project converts Robinhood Securities 1099 tax document from PDF to CSV file. This tool will be helpful for those who need

Release of SPLASH: Dataset for semantic parse correction with natural language feedback in the context of text-to-SQL parsing
Release of SPLASH: Dataset for semantic parse correction with natural language feedback in the context of text-to-SQL parsing

SPLASH: Semantic Parsing with Language Assistance from Humans SPLASH is dataset for the task of semantic parse correction with natural language feedba

Aggrokatz is an aggressor plugin extension for Cobalt Strike which enables pypykatz to interface with the beacons remotely and allows it to parse LSASS dump files and registry hive files to extract credentials and other secrets stored without downloading the file and without uploading any suspicious code to the beacon.
Using context-free grammar formalism to parse English sentences to determine their structure to help computer to better understand the meaning of the sentence.

Sentance Parser Executing the Program Make sure Python 3.6+ is installed. Install requirements $ pip install requirements.txt Run the program:

Releases(v0.1.0)
Owner
Charles Tapley Hoyt
Bio/cheminformatician, open scientist, maintainer of @pybel and @pykeen, part of @indralab (he/him)
Charles Tapley Hoyt
Extract XML from the OS X dictionaries.

Extract XML from the OS X dictionaries.

Joshua Olson 13 Dec 11, 2022
Python Classes Without Boilerplate

attrs is the Python package that will bring back the joy of writing classes by relieving you from the drudgery of implementing object protocols (aka d

The attrs Cabal 4.6k Jan 06, 2023
Random Number Generator Analysis With Python

Random-Number-Generator-Analysis Governor's Honors Program Project to determine

Jack Prewitt 2 Jan 23, 2022
A way to write regex with objects instead of strings.

Py Idiomatic Regex (AKA iregex) Documentation Available Here An easier way to write regex in Python using OOP instead of strings. Makes the code much

Ryan Peach 18 Nov 15, 2021
A set of Python scripts to surpass human limits in accomplishing simple tasks.

Human benchmark fooler Summary A set of Python scripts with Selenium designed to surpass human limits in accomplishing simple tasks available on https

Bohdan Dudchenko 3 Feb 10, 2022
iOS Snapchat parser for chats and cached files

ParseSnapchat iOS Snapchat parser for chats and cached files Tested on Windows and Linux install required libraries: pip install -r requirements.txt c

11 Dec 05, 2022
A tool to create the basics of a project

Project-Scheduler Instalação Para instalar o Project Maker, você necessita está em um ambiente de desenvolvimento Linux ou wsl com alguma distro debia

2 Dec 17, 2021
We provide useful util functions. When adding a util function, please add a description of the util function.

Utils Collection Motivation When we implement codes, we often search for util functions that are already implemented. Here, we are going to share util

6 Sep 09, 2021
Python 3 script unpacking statically x86 CryptOne packer.

Python 3 script unpacking statically x86 CryptOne packer. CryptOne versions: 2021/08 until now (2021/12)

5 Feb 23, 2022
Color getter (including method to get random color or complementary color) made out of Python

python-color-getter Color getter (including method to get random color or complementary color) made out of Python Setup pip3 install git+https://githu

Jung Gyu Yoon 2 Sep 17, 2022
A python module to manipulate XCode projects

This module can read, modify, and write a .pbxproj file from an Xcode 4+ projects. The file is usually called project.pbxproj and can be found inside the .xcodeproj bundle. Because some task cannot b

Ignacio Calderon 1.1k Jan 02, 2023
Make some improvements in the Pizza class and pizzashop file by refactoring.

Make some improvements in the Pizza class and pizzashop file by refactoring.

James Brucker 1 Oct 18, 2021
A quick username checker to see if a username is available on a list of assorted websites.

A quick username checker to see if a username is available on a list of assorted websites.

Maddie 4 Jan 04, 2022
Python @deprecat decorator to deprecate old python classes, functions or methods.

deprecat Decorator Python @deprecat decorator to deprecate old python classes, functions or methods. Installation pip install deprecat Usage To use th

12 Dec 12, 2022
Etherium unit conversation and arithmetic library

etherunit Etherium unit conversation and arithmetic library Install pip install -u etherunit Usage from etherunit import Ether, Gwei, Wei, E Creat

Yasin Özel 1 Nov 10, 2021
These scripts look for non-printable unicode characters in all text files in a source tree

find-unicode-control These scripts look for non-printable unicode characters in all text files in a source tree. find_unicode_control.py should work w

Siddhesh Poyarekar 25 Aug 30, 2022
Find version automatically based on git tags and commit messages.

GIT-CONVENTIONAL-VERSION Find version automatically based on git tags and commit messages. The tool is very specific in its function, so it is very fl

0 Nov 07, 2021
A tool written in python to generate basic repo files from github

A tool written in python to generate basic repo files from github

Riley 7 Dec 02, 2021
Random Name and Slug Generator

Random Name and Slug Generator

Alexander Lukanin 104 Nov 30, 2022
Run functions in parallel easily, with their results typed correctly!

typesafe_parmap pip install pip install typesafe-parmap Run functions in parallel safely with typesafe parmap! GitHub: https://github.com/thejaminato

James Chua 3 Nov 06, 2021