OrcidNormalizer 0.0.1

Tool no normalize orcids

1. OrcidNormalizer

Maintainer: [e-mail]
Status: RC1

The purpose for this module is to normalize ORCIDs and bring them into a coherent (and thefore the official) ISNI format:

http://orcid.org/0000-0000-0000-000(0/X)

What is ORCID?

2. Table of content

• 1. OrcidNormalizer
• 2. Table of content
• 3. Introduction
  • 3.1. Overview
  • 3.2. Problems
  • 3.3. Solution
• 4. Usage
  • 4.1 Install
  • 4.2 Apply
  • 4.3 API
    • Orcid.uri - Uniform Resource Identifier
    • Orcid.urn - Uniform Resource Name
    • Orcid.is_valid()
    • Orcid.RAISE_EXCEPTION_ON_UNPARSABLE_ORCID_STRING
    • Orcid.RETURN_VAL_ON_UNPARSABLE

3. Introduction

3.1. Overview

This small python project is part of our pipeline to integrate a large number of PUBMED-articles (free database for medical journal articles etc.) into a database. ORCID stands for 'Open Researcher and Contributor ID' and is used to accurately connect an author to their work. This is usefull/important in cases where two or more researchers/scients share the same the name, which leads to the problem which author wrote which paper.

3.2. Problems

When registering your article at PUBMED the ORCID-parameter is an optional textfield, which leads to multiple challenges. Due to the fact that we are dealing with user input everything is possible, from no numbers, to email addresses to abstracts etc. Therefore a tool to clean valid entries and skip invalid entries seems usefull.

3.3. Solution

For the sake of performance the tests that are performed on the entry are fairly simple and straight forward.

Remember: The officials ORCID consists of 16 digits in groups of 4 or 15 digits and an 'X' due to the checksum. If you are interested you can refer to the following documentaion: why 'X' and how to calculate the checksum

• If the input is not a string the input is invalid
• If there are more than 16 digits in the input string the input is invalid
• If there are 16 or more digits and an 'x' or 'X' anywhere in the input the input is invalid
• If there is an 'x' or 'X' somewhere in the input the 'x'/'X' will be used as the checksum test (last digit) of the input
• If there are less digits the input is padded left with 0s

Input Examples

valid:

• OrcidID("http://orcid.org/0000-0001-5000-0074") --> valid
• OrcidID("0001-5000-0074") --> valid, padded with 0s
• OrcidID("0001-5000-0074 peter123@net") --> vaild 15 digits + padding

invalid (will raise ValueError):

• OrcidID("http://orcid.org/0000-0001-5000-0074-0235") --> invalid, too many digits
• OrcidID("http://orcid.org/0000-0001-5000-0074 [e-mail]") --> invalid, too many digits
• OrcidID("http://orcid.org/0000-0001-5000-0074X") --> invalid, too many digits and 'x'/'X'
• OrcidID(1234123412341234) --> invalid, input is not a string

---

The valid inputs will then be tested via checksum test (https://support.orcid.org/hc/en-us/articles/360006897674-Structure-of-the-ORCID-Identifier) The chance of a false positive is 1 in 11

4. Usage

Requirements:

• Python3 with pip installed

4.1 Install

pip3 install OrcidNormalizer

4.2 Apply

Create an instance for every orcid id and normalize the input

from OrcidNormalizer import Orcid

id = OrcidID("0000000150000074")
id.uri()

> "https://orcid.org/0000-0001-5000-0074"

4.3 API

Orcid.uri - Uniform Resource Identifier

Return the full INSI formated OCRID

from OrcidNormalizer import Orcid

id = Orcid("0000000150000074")
id.uri()

https://orcid.org/0000-0001-5000-0074

Orcid.urn - Uniform Resource Name

Return the Uniform Resource Name part only

from OrcidNormalizer import Orcid

id = Orcid("0000000150000074")
id.uri()

0000-0001-5000-0074

Orcid.is_valid()

Does a checksum validation according to https://support.orcid.org/hc/en-us/articles/360006897674-Structure-of-the-ORCID-Identifier#checksum

from OrcidNormalizer import Orcid

id = Orcid("https://orcid.org/1-5000-0074")
id.is_valid()

True

Orcid.RAISE_EXCEPTION_ON_UNPARSABLE_ORCID_STRING

If a string is unparsable OrcidNormalizer.Orcid will raise an exception. In large batch operations it can be conveineint to override this behaviour. Set to False to return OrcidNormalizer.Orcid.RETURN_VAL_ON_UNPARSABLE instead of raising an exception.

Orcid.RETURN_VAL_ON_UNPARSABLE

See Orcid.RAISE_EXCEPTION_ON_UNPARSABLE_ORCID_STRING