Changelogs

Summary of developments of dabeplech library.

v0.5

v0.5.0

• Update docs and docstring format (pydocstyle and black)

• Reformat and changes import path models and scrappers

v0.4

v0.4.0

• Add an endpoint to query Ontology Lookup Service https://www.ebi.ac.uk/ols/index (https://github.com/motleystate/dabeplech/pull/30)

  • a first get_term method to query by ontology term ID

v0.3

v0.3.0

• Add an endpoint to query the HAL (https://hal.archives-ouvertes.org) endpoint to retrieve information in the JSON format. (https://github.com/motleystate/dabeplech/pull/29)

v0.2

v0.2.0

• Add an endpoint to query the DOI (https://dx.doi.org) endpoint to retrieve information in the JSON format. (https://github.com/motleystate/dabeplech/pull/28)

v0.1

v0.1.1

• Fix bug and deal with variant of NCBI taxonomy item page (e.g. tax_id=12345)

v0.1.0

• Add scrapper for NCBI taxonomy (https://github.com/motleystate/dabeplech/pull/24)

• Add NCBITaxonomyScrapAPI that mimics API behaviour to retrieve hierarchy information for a given tax_id (https://github.com/motleystate/dabeplech/pull/24)

• add first PDBe REST endpoints (https://github.com/motleystate/dabeplech/pull/21)

v0.0

v0.0.6

• LIST of entries described in KEGG models only contains the necessary fields (https://github.com/motleystate/dabeplech/pull/20)

• deal with empty responses (200) from FIND operation on KEGG API (https://github.com/motleystate/dabeplech/pull/19)

v0.0.5

• FIND works and gives a json output for pathway and ko. It can be used using .find(database, query) (https://github.com/motleystate/dabeplech/pull/16)

• LINK has been splitted in two methods (there are using the same endpoint, but having two different methods make more sense). (https://github.com/motleystate/dabeplech/pull/16)

  • link_db(target_db, source_db): allows retrieval of database to database cross-references

  • link_entries(target_db, dbentries): allows retrieval for a selected number of entries

• replace get_all() by list() for LIST operation on KEGG API

• Add model description and API for KEGG module (https://github.com/motleystate/dabeplech/pull/17)

• change name to dabeplech

v0.0.4

• Replace models for pathway and ko list by simpler model

v0.0.3

• Add parser and api for KEGG pathway list (https://github.com/khillion/dabeplech/pull/10)

• Add parser and api for KEGG ko list (https://github.com/khillion/dabeplech/pull/10)

• Change name attribute to names for KEGG

• Handle reference with no pubmed ID (https://github.com/khillion/dabeplech/pull/7)

v0.0.2

• Add parser for KEGG pathway response

v0.0.1

This is the first release of dabeplech:

• Parser for KEGG orthology response

• Base structure for KEGG API

  • Return structured dict if parser available

  • If no parser available, return raw response from KEGG API

• Base structure for TogoWS API