fractal-server 2.17.1a0__py3-none-any.whl → 2.17.2__py3-none-any.whl

fractal_server/data_migrations/2_17_0.py

@@ -1,339 +0,0 @@
-import json
-import logging
-import sys
-from pathlib import Path
-from typing import Any
-
-from dotenv.main import DotEnv
-from pydantic import BaseModel
-from sqlalchemy.orm import Session
-from sqlalchemy.sql.operators import is_
-from sqlalchemy.sql.operators import is_not
-from sqlmodel import select
-
-from fractal_server.app.db import get_sync_db
-from fractal_server.app.models import Profile
-from fractal_server.app.models import ProjectV2
-from fractal_server.app.models import Resource
-from fractal_server.app.models import TaskGroupV2
-from fractal_server.app.models import UserOAuth
-from fractal_server.app.models import UserSettings
-from fractal_server.app.schemas.v2.profile import cast_serialize_profile
-from fractal_server.app.schemas.v2.resource import cast_serialize_resource
-from fractal_server.config import get_settings
-from fractal_server.runner.config import JobRunnerConfigLocal
-from fractal_server.runner.config import JobRunnerConfigSLURM
-from fractal_server.tasks.config import TasksPixiSettings
-from fractal_server.tasks.config import TasksPythonSettings
-from fractal_server.types import AbsolutePathStr
-from fractal_server.types import ListUniqueNonEmptyString
-from fractal_server.urls import normalize_url
-
-logging.basicConfig(level=logging.INFO)
-
-
-class UserUpdateInfo(BaseModel):
-    user_id: int
-    project_dir: AbsolutePathStr
-    slurm_accounts: ListUniqueNonEmptyString
-
-
-class ProfileUsersUpdateInfo(BaseModel):
-    data: dict[str, Any]
-    user_updates: list[UserUpdateInfo]
-
-
-def _get_user_settings(user: UserOAuth, db: Session) -> UserSettings:
-    if user.user_settings_id is None:
-        sys.exit(f"User {user.email} is active but {user.user_settings_id=}.")
-    user_settings = db.get(UserSettings, user.user_settings_id)
-    return user_settings
-
-
-def assert_user_setting_key(
-    user: UserOAuth,
-    user_settings: UserSettings,
-    keys: list[str],
-) -> None:
-    for key in keys:
-        if getattr(user_settings, key) is None:
-            sys.exit(
-                f"User {user.email} is active and verified but their "
-                f"user settings have {key}=None."
-            )
-
-
-def prepare_profile_and_user_updates() -> dict[str, ProfileUsersUpdateInfo]:
-    settings = get_settings()
-    profiles_and_users: dict[str, ProfileUsersUpdateInfo] = {}
-    with next(get_sync_db()) as db:
-        # Get active&verified users
-        res = db.execute(
-            select(UserOAuth)
-            .where(is_(UserOAuth.is_active, True))
-            .where(is_(UserOAuth.is_verified, True))
-            .order_by(UserOAuth.id)
-        )
-        for user in res.unique().scalars().all():
-            # Get user settings
-            user_settings = _get_user_settings(user=user, db=db)
-            assert_user_setting_key(user, user_settings, ["project_dir"])
-
-            # Prepare profile data and user update
-            new_profile_data = dict()
-            if settings.FRACTAL_RUNNER_BACKEND == "local":
-                username = None
-            if settings.FRACTAL_RUNNER_BACKEND == "slurm_sudo":
-                assert_user_setting_key(user, user_settings, ["slurm_user"])
-                username = user_settings.slurm_user
-            elif settings.FRACTAL_RUNNER_BACKEND == "slurm_ssh":
-                assert_user_setting_key(
-                    user,
-                    user_settings,
-                    [
-                        "ssh_username",
-                        "ssh_private_key_path",
-                        "ssh_tasks_dir",
-                        "ssh_jobs_dir",
-                    ],
-                )
-                username = user_settings.ssh_username
-                new_profile_data.update(
-                    ssh_key_path=user_settings.ssh_private_key_path,
-                    tasks_remote_dir=normalize_url(
-                        user_settings.ssh_tasks_dir
-                    ),
-                    jobs_remote_dir=normalize_url(user_settings.ssh_jobs_dir),
-                )
-
-            new_profile_data.update(
-                name=f"Profile {username}",
-                username=username,
-                resource_type=settings.FRACTAL_RUNNER_BACKEND,
-            )
-            cast_serialize_profile(new_profile_data)
-
-            user_update_info = UserUpdateInfo(
-                user_id=user.id,
-                project_dir=normalize_url(user_settings.project_dir),
-                slurm_accounts=user_settings.slurm_accounts or [],
-            )
-
-            if username in profiles_and_users.keys():
-                if profiles_and_users[username].data != new_profile_data:
-                    error_msg = (
-                        "Profile data mismatch.\n"
-                        f"{profiles_and_users[username].data=}\n"
-                        f"{new_profile_data=}"
-                    )
-                    logging.error(error_msg)
-                    sys.exit(error_msg)
-                profiles_and_users[username].user_updates.append(
-                    user_update_info
-                )
-            else:
-                profiles_and_users[username] = ProfileUsersUpdateInfo(
-                    data=new_profile_data,
-                    user_updates=[user_update_info],
-                )
-
-    return profiles_and_users
-
-
-def get_old_dotenv_variables() -> dict[str, str | None]:
-    """
-    See
-    https://github.com/fractal-analytics-platform/fractal-server/blob/2.16.x/fractal_server/config.py
-    """
-    OLD_DOTENV_FILE = ".fractal_server.env.old"
-    return dict(
-        **DotEnv(
-            dotenv_path=OLD_DOTENV_FILE,
-            override=False,
-        ).dict()
-    )
-
-
-def get_TasksPythonSettings(
-    old_config: dict[str, str | None]
-) -> dict[str, Any]:
-    versions = {}
-    for version_underscore in ["3_9", "3_10", "3_11", "3_12"]:
-        key = f"FRACTAL_TASKS_PYTHON_{version_underscore}"
-        version_dot = version_underscore.replace("_", ".")
-        value = old_config.get(key, None)
-        if value is not None:
-            versions[version_dot] = value
-    obj = TasksPythonSettings(
-        default_version=old_config["FRACTAL_TASKS_PYTHON_DEFAULT_VERSION"],
-        versions=versions,
-        pip_cache_dir=old_config.get("FRACTAL_PIP_CACHE_DIR", None),
-    )
-    return obj.model_dump()
-
-
-def get_TasksPixiSettings(old_config: dict[str, str | None]) -> dict[str, Any]:
-    pixi_file = old_config.get("FRACTAL_PIXI_CONFIG_FILE", None)
-    if pixi_file is None:
-        return {}
-    with open(pixi_file) as f:
-        old_pixi_config = json.load(f)
-    TasksPixiSettings(**old_pixi_config)
-    return old_pixi_config
-
-
-def get_JobRunnerConfigSLURM(
-    old_config: dict[str, str | None]
-) -> dict[str, Any]:
-    slurm_file = old_config["FRACTAL_SLURM_CONFIG_FILE"]
-    with open(slurm_file) as f:
-        old_slurm_config = json.load(f)
-    JobRunnerConfigSLURM(**old_slurm_config)
-    return old_slurm_config
-
-
-def get_JobRunnerConfigLocal(
-    old_config: dict[str, str | None]
-) -> dict[str, Any]:
-    local_file = old_config.get("FRACTAL_LOCAL_CONFIG_FILE", None)
-    if local_file is None or not Path(local_file).exists():
-        return JobRunnerConfigLocal().model_dump()
-    else:
-        with open(local_file) as f:
-            old_local_config = json.load(f)
-        JobRunnerConfigLocal(**old_local_config)
-        return old_local_config
-
-
-def get_ssh_host() -> str:
-    with next(get_sync_db()) as db:
-        res = db.execute(
-            select(UserSettings.ssh_host).where(
-                is_not(UserSettings.ssh_host, None)
-            )
-        )
-        hosts = res.scalars().all()
-    if len(set(hosts)) > 1:
-        host = max(set(hosts), key=hosts.count)
-        print(f"MOST FREQUENT HOST: {host}")
-    else:
-        host = hosts[0]
-    return host
-
-
-def prepare_resource_data(old_config: dict[str, str | None]) -> dict[str, Any]:
-    settings = get_settings()
-
-    resource_data = dict(
-        type=settings.FRACTAL_RUNNER_BACKEND,
-        name="Resource Name",
-        tasks_python_config=get_TasksPythonSettings(old_config),
-        tasks_pixi_config=get_TasksPixiSettings(old_config),
-        tasks_local_dir=old_config["FRACTAL_TASKS_DIR"],
-        jobs_local_dir=old_config["FRACTAL_RUNNER_WORKING_BASE_DIR"],
-        jobs_poll_interval=int(
-            old_config.get("FRACTAL_SLURM_POLL_INTERVAL", 15)
-        ),
-    )
-    if settings.FRACTAL_RUNNER_BACKEND == "local":
-        resource_data["jobs_runner_config"] = get_JobRunnerConfigLocal(
-            old_config
-        )
-    elif settings.FRACTAL_RUNNER_BACKEND == "slurm_sudo":
-        resource_data["jobs_slurm_python_worker"] = old_config[
-            "FRACTAL_SLURM_WORKER_PYTHON"
-        ]
-        resource_data["jobs_runner_config"] = get_JobRunnerConfigSLURM(
-            old_config
-        )
-    else:
-        resource_data["jobs_slurm_python_worker"] = old_config[
-            "FRACTAL_SLURM_WORKER_PYTHON"
-        ]
-        resource_data["jobs_runner_config"] = get_JobRunnerConfigSLURM(
-            old_config
-        )
-        resource_data["host"] = get_ssh_host()
-
-    resource_data = cast_serialize_resource(resource_data)
-
-    return resource_data
-
-
-def fix_db():
-    logging.info("START preliminary checks.")
-
-    # Read old env file
-    old_config = get_old_dotenv_variables()
-
-    # Prepare resource data
-    logging.info("START prepare_resource_data")
-    resource_data = prepare_resource_data(old_config)
-    logging.info("END prepare_resource_data")
-
-    # Prepare profile/users data
-    logging.info("START prepare_profile_and_user_updates")
-    profile_and_user_updates = prepare_profile_and_user_updates()
-    logging.info("END prepare_profile_and_user_updates")
-
-    logging.info("END preliminary checks.")
-    print()
-
-    with next(get_sync_db()) as db:
-        # Create new resource
-        resource = Resource(**resource_data)
-        db.add(resource)
-        db.commit()
-        db.refresh(resource)
-        db.expunge(resource)
-        resource_id = resource.id
-        logging.info(f"Created resource with {resource_id=}.")
-
-        # Update task groups
-        res = db.execute(select(TaskGroupV2).order_by(TaskGroupV2.id))
-        for taskgroup in res.scalars().all():
-            taskgroup.resource_id = resource_id
-            db.add(taskgroup)
-        db.commit()
-        logging.info(f"Set {resource_id=} foreign key for all task groups.")
-
-        # Update projects
-        res = db.execute(select(ProjectV2).order_by(ProjectV2.id))
-        for project in res.scalars().all():
-            project.resource_id = resource_id
-            db.add(project)
-        db.commit()
-        logging.info(f"Set {resource_id=} foreign key for all projects.")
-        print()
-
-        db.expunge_all()
-
-        for _, info in profile_and_user_updates.items():
-            # Create profile
-            profile_data = info.data
-            profile_data["resource_id"] = resource_id
-            profile = Profile(**profile_data)
-            db.add(profile)
-            db.commit()
-            db.refresh(profile)
-            db.expunge(profile)
-            profile_id = profile.id
-            logging.info(
-                f"Created profile '{profile.name}', with {profile.id=}."
-            )
-
-            # Update users
-            for user_update in info.user_updates:
-                user = db.get(UserOAuth, user_update.user_id)
-                user.profile_id = profile_id
-                user.project_dir = user_update.project_dir
-                user.slurm_accounts = user_update.slurm_accounts
-                db.add(user)
-                logging.info(f"Updated {user.email} with {user.project_dir=}.")
-                logging.info(
-                    f"Associated {user.email} to profile {profile.name}."
-                )
-            print()
-            db.commit()
-
-    logging.info("END - all ok.")

fractal_server-2.17.1a0.dist-info/RECORD

@@ -1,262 +0,0 @@
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-fractal_server/__main__.py,sha256=qLbUicU1Ulaob_Eo5pspi-IH2xAkLfifJTH9gYEhZss,11427
-fractal_server/alembic.ini,sha256=MWwi7GzjzawI9cCAK1LW7NxIBQDUqD12-ptJoq5JpP0,3153
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-fractal_server/app/db/__init__.py,sha256=sttX0mHVV0ESI1SJ1kcxUKiuEwqeP-BWsst0o_9Yo44,2810
-fractal_server/app/models/__init__.py,sha256=xJWiGAwpXmCpnFMC4c_HTqoUCzMOXrakoGLUH_uMvdA,415
-fractal_server/app/models/linkusergroup.py,sha256=3KkkE4QIUAlTrBAZs_tVy0pGvAxUAq6yOEjflct_z2M,678
-fractal_server/app/models/linkuserproject.py,sha256=hvaxh3Lkiy2uUCwB8gvn8RorCpvxSSdzWdCS_U1GL7g,315
-fractal_server/app/models/security.py,sha256=VThWDEmzUP4SgLsAvd5WjJ1p2WVxBuc6D5TMQJaOyd8,3873
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-fractal_server/app/routes/api/v2/images.py,sha256=_R-F1qrsFv3PPukrwXSa-5swNS4kNghY0DTrxjLC_7E,7897
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-fractal_server/app/routes/api/v2/pre_submission_checks.py,sha256=DEnlFj6PMNMy9DrnH6_pMW9evdKl6iTlAb0zlzBR1Qs,4953
-fractal_server/app/routes/api/v2/project.py,sha256=PkRR1lQayBvY8uEOMherXpvv_YwIMwxWzVMjC5nFfm4,4857
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-fractal_server/app/routes/api/v2/submit.py,sha256=o0r58Dc6A1BHOUPp2OK7PKEHc4dIqnp3-kXBWnX8KsY,9373
-fractal_server/app/routes/api/v2/task.py,sha256=HIQRA7lAW41P89eveCGmUI2HERMakxOw5is-F-j-fco,7519
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-fractal_server/app/routes/api/v2/workflow_import.py,sha256=cEs1bt5urKIbaC8PjnUwYAaPK3kGqupXpUdgwEXM0Ss,9445
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-fractal_server/app/routes/auth/__init__.py,sha256=Y-RQMwY5V25ZVgyYYoFIXvEDQgm6PGTDgxH755oa_NM,2358
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