Use artifact id instead of prefix (#709)

* Use artifact id instead of prefix

* Fix apps

* Update documentation

* add postgresql tests

* passenv =

* fix sql datetime

* change port

* Support versions

* Enhance tests and support summary fields

* rename to list_fields

* use sqlmodel

* skip stopping for Ci

* Add GITHUB_ACTIONS

* update passenv

* pin websockets

* Fix apps

* Fix default version for apps

* upgrade version of hypha-rpc

* support database migration

* Fix edit

* Prevent non-persistent workspace creation

* Fix tests for persistent workspace

* use get_version_index

* Only bump version if explicitly set a new version

* Improve docs on version for artifact manager

* Fix artifacts tests

* fix version for artifacts

.github/workflows/test.yml

@@ -16,7 +16,16 @@ jobs:
     strategy:
       matrix:
         python-version: ["3.9", "3.10", "3.11", "3.12"]
-
+    services:
+      postgres:
+        image: postgres:latest
+        env:
+          POSTGRES_USER: postgres
+          POSTGRES_PASSWORD: mysecretpassword
+          POSTGRES_DB: postgres
+        ports:
+          - 5432:5432
+        options: --health-cmd "pg_isready -U postgres" --health-interval 10s --health-timeout 5s --health-retries 5
     steps:
       - uses: actions/checkout@v4
       - name: Set up Python ${{ matrix.python-version }}
@@ -36,3 +45,4 @@ jobs:
         run: tox
         env:
           SANDBOX_ZENODO_TOKEN: ${{ secrets.SANDBOX_ZENODO_TOKEN }}
+          GITHUB_ACTIONS: "true"

CHANGELOG.md

@@ -1,5 +1,11 @@
 # Hypha Change Log
 
+### 0.20.39
+
+ - Revise artifact manager to use artifact id as the primary key, remove `prefix` based keys.
+ - Support versioning and custom config (e.g. artifact specific s3 credentials) for the artifact manager.
+ - Use SQLModel and support database migration using `alembic`.
+
 ### 0.20.38
 
  - Support event logging in the workspace, use `log_event` to log events in the workspace and use `get_events` to get the events in the workspace. The events will be persists in the SQL database.

alembic.ini

@@ -0,0 +1,116 @@
+# A generic, single database configuration.
+
+[alembic]
+# path to migration scripts.
+# Use forward slashes (/) also on windows to provide an os agnostic path
+script_location = hypha/migrations
+
+# template used to generate migration file names; The default value is %%(rev)s_%%(slug)s
+# Uncomment the line below if you want the files to be prepended with date and time
+# file_template = %%(year)d_%%(month).2d_%%(day).2d_%%(hour).2d%%(minute).2d-%%(rev)s_%%(slug)s
+
+# sys.path path, will be prepended to sys.path if present.
+# defaults to the current working directory.
+prepend_sys_path = .
+
+# timezone to use when rendering the date within the migration file
+# as well as the filename.
+# If specified, requires the python>=3.9 or backports.zoneinfo library.
+# Any required deps can installed by adding `alembic[tz]` to the pip requirements
+# string value is passed to ZoneInfo()
+# leave blank for localtime
+# timezone =
+
+# max length of characters to apply to the "slug" field
+# truncate_slug_length = 40
+
+# set to 'true' to run the environment during
+# the 'revision' command, regardless of autogenerate
+# revision_environment = false
+
+# set to 'true' to allow .pyc and .pyo files without
+# a source .py file to be detected as revisions in the
+# versions/ directory
+# sourceless = false
+
+# version location specification; This defaults
+# to migrations/versions.  When using multiple version
+# directories, initial revisions must be specified with --version-path.
+# The path separator used here should be the separator specified by "version_path_separator" below.
+# version_locations = %(here)s/bar:%(here)s/bat:migrations/versions
+
+# version path separator; As mentioned above, this is the character used to split
+# version_locations. The default within new alembic.ini files is "os", which uses os.pathsep.
+# If this key is omitted entirely, it falls back to the legacy behavior of splitting on spaces and/or commas.
+# Valid values for version_path_separator are:
+#
+# version_path_separator = :
+# version_path_separator = ;
+# version_path_separator = space
+# version_path_separator = newline
+version_path_separator = os  # Use os.pathsep. Default configuration used for new projects.
+
+# set to 'true' to search source files recursively
+# in each "version_locations" directory
+# new in Alembic version 1.10
+# recursive_version_locations = false
+
+# the output encoding used when revision files
+# are written from script.py.mako
+# output_encoding = utf-8
+
+# Use memory mode for SQLite by default
+sqlalchemy.url = sqlite+aiosqlite:///:memory:
+
+
+[post_write_hooks]
+# post_write_hooks defines scripts or Python functions that are run
+# on newly generated revision scripts.  See the documentation for further
+# detail and examples
+
+# format using "black" - use the console_scripts runner, against the "black" entrypoint
+# hooks = black
+# black.type = console_scripts
+# black.entrypoint = black
+# black.options = -l 79 REVISION_SCRIPT_FILENAME
+
+# lint with attempts to fix using "ruff" - use the exec runner, execute a binary
+# hooks = ruff
+# ruff.type = exec
+# ruff.executable = %(here)s/.venv/bin/ruff
+# ruff.options = --fix REVISION_SCRIPT_FILENAME
+
+# Logging configuration
+[loggers]
+keys = root,sqlalchemy,alembic
+
+[handlers]
+keys = console
+
+[formatters]
+keys = generic
+
+[logger_root]
+level = WARNING
+handlers = console
+qualname =
+
+[logger_sqlalchemy]
+level = WARNING
+handlers =
+qualname = sqlalchemy.engine
+
+[logger_alembic]
+level = INFO
+handlers =
+qualname = alembic
+
+[handler_console]
+class = StreamHandler
+args = (sys.stderr,)
+level = NOTSET
+formatter = generic
+
+[formatter_generic]
+format = %(levelname)-5.5s [%(name)s] %(message)s
+datefmt = %H:%M:%S