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Changelog

This project adheres to Semantic Versioning and Keep a Changelog format.

[0.7.3] -- 2023-02-05

  • Fixed POP update
  • Improved error handling in views API
  • Added stats method to Namespace module
  • Updated docs
  • Added coverage

[0.7.2] -- 2023-02-02

  • Fixed Unique Constraint in the Views
  • Fixed update project pop method
  • Fixed bug in duplicating samples

[0.7.1] -- 2023-01-22

  • Fixed bug in Stars annotation
  • SQL efficiency improvements
  • Added sort by date in stared projects

[0.7.0] -- 2023-01-17

  • Added pop to project table and annotation model #107
  • Added forked_from feature #73
  • Switched to pydantic2 #105
  • Updated requirements (psycopg2 -> psycopg3) #102
  • Added sample module that contains functionality for updating, adding, and deleting samples in the project separately #111
  • Added user and favorite tables with functionality #104
  • Updated the sample update method when updating the whole project. Following this change, samples are updated without changing the ID in the database

[0.6.0] -- 2023-08-24

  • Added date filter to project annotation

[0.5.5] -- 2023-07-19

  • Updated requirements

[0.5.4] -- 2023-07-14

  • Added namespaces info method that returns list of namespaces with

[0.5.3] -- 2023-07-13

  • Fixed bugs in updating dates and descriptions

[0.5.2] -- 2023-07-13

  • Fixed error in updating date in overwriting function

[0.5.1] -- 2023-07-10

  • Fixed errors in updating projects, that caused Unique Constraint violation error

[0.5.0] -- 2023-07-07

  • Introduced a new database schema (3 tables: projects, samples, subsamples)
  • Added new tests
  • Fixed the issue of sqlalchemy session already being closed

[0.4.3] -- 2023-06-30

  • Changed the orientation of the raw project dictionary to "records" and updated peppy version to 0.35.6.
  • Added description column
  • Added sql description search
  • Deleted unused files

[0.4.2] -- 2023-06-27

  • Added validation of question mark in name and tag
  • Fixed description and name in config file
  • Fixed preserving order of columns in database

[0.4.1] -- 2023-06-09

  • Fixed project.update function

[0.4.0] -- 2023-06-09

  • Transitioned to SQLAlchemy ORM.
  • Added a pep_schema column to the database.
  • Implemented a new testing approach.
  • Integrated sorting functionality into the annotations module.
  • Temporarily disabled description-based searches to mitigate long processing times and reduce database load.
  • Included timezone support in the database.
  • Standardized namespace and names to lowercase for case-insensitivity.
  • Streamlined the database schema creation process, with tables now created dynamically as needed.

[0.3.1] -- 2023-03-23

  • Fixed bug with peppy const dependencies

[0.3.0] -- 2023-01-19

  • Restructured pepdbagent:
  • Renamed Agent class to PEPDatabaseAgent
  • created subclasses (project, annotation, namespace).
  • Merged methods that have similar use case.
  • Removed unused methods.
  • Simplified pepdbagent API
  • Restructured database (added columns: private, number_of_samples, submission_date, last_update_date)
  • Improved logging
  • Added new tests
  • Improved documentation

[0.2.3] -- 2022-11-21

  • Added more logging information in uploading project methods
  • Added update_only argument upload_project method

[0.2.2] -- 2022-11-09

  • Fixed error in pepannotation (privacy error)

[0.2.1] -- 2022-11-09

  • Fixed error with namespace user if user is unknown

[0.2.0] -- 2022-11-08

  • Added limits and offset to function: get_projects_in_namespace()
  • Annotation changed to BaseModel from pydantic
  • Added privacy information in annotations
  • Added update feature to upload_project method with overwrite argument
  • Added mock tests
  • Deleted unused functions:
  • get_projects_in_list
  • get_projects_annotation_by_namespace
  • project_status
  • project_status_by_registry

  • get_registry_paths_by_digest

  • Changed method names:

  • get_project_by_registry --> get_project_by_registry_path
  • get_project_annotation_by_registry --> get_project_annotation_by_registry_path

[0.1.0] -- 2022-08-18

  • 🎉 first release!