fractal-analytics-platform/fractal-server issues and pull requests

#844 - Update `output_dataset.meta` also when workflow execution fails

Issue - State: closed - Opened by tcompa about 1 year ago - 2 comments
Labels: High Priority

#843 - Better display of Unknown Error

Issue - State: closed - Opened by tcompa about 1 year ago - 3 comments
Labels: maintenance

#842 - `UNKNOWN ERROR Original error: 'image'` when rerunning a failed Cellpose task

Issue - State: closed - Opened by jluethi about 1 year ago - 16 comments
Labels: bug, High Priority, flexibility

#841 - Is `POSTGRES_PASSWORD` optional or required?

Issue - State: closed - Opened by tcompa about 1 year ago - 4 comments
Labels: bug, maintenance

#840 - Add docstrings for db-related configuration variables, in `config.py`

Issue - State: closed - Opened by tcompa about 1 year ago
Labels: documentation, maintenance

#839 - Fix `logger.error` that should be `logger.info`

Issue - State: closed - Opened by tcompa about 1 year ago - 1 comment

#838 - Move `Dataset.meta["history"]` into `Dataset.history`

Issue - State: closed - Opened by tcompa about 1 year ago
Labels: flexibility, History

#837 - Handle FileNotFoundError for local-runner configuration file

Issue - State: closed - Opened by tcompa about 1 year ago - 1 comment
Labels: bug

#836 - Source creation issues: With or without Python version

Issue - State: open - Opened by jluethi about 1 year ago - 2 comments
Labels: maintenance

#835 - Fix response of dataset/status endpoint

Pull Request - State: closed - Opened by ychiucco about 1 year ago - 2 comments

#834 - Fix status of `ApplyWorkflow.workflow_dump`

Pull Request - State: closed - Opened by tcompa about 1 year ago - 1 comment

#833 - Fix response of datasetstatus endpoint

Pull Request - State: closed - Opened by ychiucco about 1 year ago - 1 comment

#832 - Fix ValidationError for `ApplyWorkflow` GET endpoint

Issue - State: closed - Opened by tcompa about 1 year ago - 1 comment
Labels: bug

#831 - Update ApplyWorkflow new-attributes migration with default value

Pull Request - State: closed - Opened by tcompa about 1 year ago

#830 - Fix response of dataset/status endpoint

Issue - State: closed - Opened by tcompa about 1 year ago - 1 comment

#829 - Make sure that migration goes through when new required column is missing in current data

Issue - State: closed - Opened by tcompa about 1 year ago - 2 comments
Labels: db life cycle

#828 - Fix bug in test fixtures

Issue - State: closed - Opened by tcompa about 1 year ago
Labels: bug

#827 - Review/deprecate custom history handling in `/project/{project_id}/job/{job_id}` endpoint

Issue - State: closed - Opened by tcompa about 1 year ago
Labels: flexibility, History

#826 - Fully deprecate `HISTORY_LEGACY`

Issue - State: closed - Opened by tcompa about 1 year ago - 2 comments
Labels: flexibility, History

#825 - Add `make_FRACTAL_TASKS_DIR_absolute` validator in `config.py`

Pull Request - State: closed - Opened by tcompa about 1 year ago

#824 - Add `make_FRACTAL_TASKS_DIR_absolute` validator in `config.py`

Pull Request - State: closed - Opened by tcompa about 1 year ago - 2 comments

#823 - Clarify whether non-absolute `FRACTAL_TASKS_DIR` is supported

Issue - State: closed - Opened by tcompa about 1 year ago - 1 comment
Labels: bug, documentation

#822 - Improve OAuth support/docs

Pull Request - State: closed - Opened by ychiucco about 1 year ago - 4 comments

#821 - Fix docstring in `SQLModelUserDatabaseAsync`

Issue - State: closed - Opened by tcompa about 1 year ago
Labels: documentation, backlog

#820 - Broken link in https://fractal-analytics-platform.github.io/fractal-server/users/#multiple-users

Issue - State: closed - Opened by tcompa about 1 year ago
Labels: documentation, backlog, maintenance

#819 - Improve auth docs

Issue - State: closed - Opened by tcompa about 1 year ago - 1 comment
Labels: documentation

#818 - Accept `TaskUpdate.version=none`

Pull Request - State: closed - Opened by ychiucco about 1 year ago - 1 comment

#817 - Update common (accept `TaskUpdate.version=None`)

Issue - State: closed - Opened by tcompa about 1 year ago

#816 - Fix pyyaml and docker-compose dependencies

Pull Request - State: closed - Opened by tcompa about 1 year ago - 4 comments

#815 - Bump cryptography from 41.0.2 to 41.0.3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#814 - add docs_info and docs_link

Pull Request - State: closed - Opened by mfranzon over 1 year ago - 2 comments

#813 - Unpin pyyaml version

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: maintenance

#812 - Fix CI error

Pull Request - State: closed - Opened by tcompa over 1 year ago - 2 comments

#811 - Clean up docs

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 3 comments

#810 - Document postgres requirements, setup and backups

Issue - State: closed - Opened by tcompa over 1 year ago - 4 comments
Labels: documentation

#809 - Clean up docs

Issue - State: closed - Opened by tcompa over 1 year ago - 2 comments
Labels: documentation, maintenance, july2023

#808 - 806 move test common into fractal common

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#807 - [Repo Organization] Identify a possible recipe to merge the three main repositories (fractal, fractal-server, fractal-common)

Issue - State: open - Opened by mfranzon over 1 year ago - 4 comments

#806 - Move test_common into fractal-common

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: maintenance, july2023

#805 - Placeholder: do we need constraints on workflow execution?

Issue - State: open - Opened by tcompa over 1 year ago - 2 comments
Labels: flexibility

#804 - add workflow_dump + test

Pull Request - State: closed - Opened by mfranzon over 1 year ago - 2 comments

#803 - New dataset history

Pull Request - State: closed - Opened by tcompa over 1 year ago - 7 comments

#802 - Aggregate metadata from parallel task

Issue - State: closed - Opened by tcompa over 1 year ago - 2 comments
Labels: flexibility

#801 - 791 prevent having two running jobs with the same output dataset

Pull Request - State: closed - Opened by mfranzon over 1 year ago - 1 comment

#800 - Improve handling of task-execution errors

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#799 - Make `get_slurm_config` work even if `wftask.meta=None`

Issue - State: closed - Opened by tcompa over 1 year ago - 2 comments
Labels: bug, slurm

#798 - Clarify role of `SlurmConfig` in docstring and docs [skip ci]

Pull Request - State: closed - Opened by tcompa over 1 year ago

#797 - Remove obsolete folders from `tests/data`

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: maintenance, july2023

#796 - Exclude `fractal_server/common/tests` from build

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: maintenance, july2023

#795 - General clean up (dependencies, build files, tests/data files)

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#794 - In `ApplyWorkflow`, store a copy of the `Workflow` at the time of submission

Issue - State: closed - Opened by tcompa over 1 year ago - 2 comments
Labels: july2023

#793 - Store (rich and machine-readable) history data as a Dataset attribute

Issue - State: closed - Opened by tcompa over 1 year ago - 5 comments
Labels: Priority, july2023

#792 - Replace `parallelization_level` with more structured options of what to run

Issue - State: closed - Opened by tcompa over 1 year ago - 4 comments
Labels: Priority, flexibility

#791 - Prevent having two running jobs with the same output dataset

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: july2023

#789 - Review oauth2 status

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 4 comments

#788 - Support "resume workflow execution"

Issue - State: closed - Opened by tcompa over 1 year ago - 3 comments
Labels: flexibility

#787 - Decorate failures in preliminary checks

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#786 - Review OAuth2 status

Issue - State: closed - Opened by tcompa over 1 year ago - 3 comments

#785 - Review I/O of tasks

Issue - State: closed - Opened by tcompa over 1 year ago - 4 comments
Labels: High Priority, flexibility

#784 - Support execution of workflow subset

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#783 - Support execution of a workflow subset

Issue - State: closed - Opened by tcompa over 1 year ago - 2 comments
Labels: High Priority, july2023

#782 - Fix internal server error in case of invalid task ID

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#781 - Fix 500 error in `create_workflowtask` endpoint for invalid `task_id`

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: bug

#780 - Simplify workflow-execution internal function

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#779 - Pin Pydantic to v1 (close #778)

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#778 - Pin Pydantic to v1

Issue - State: closed - Opened by tcompa over 1 year ago - 1 comment

#777 - Simplify the function that executes a WorkflowTask list

Issue - State: closed - Opened by tcompa over 1 year ago - 1 comment
Labels: maintenance

#776 - Log `task_pkg` in `_background_collect_pip`

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 4 comments

#775 - Add admin Dashboard

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#774 - Review update from 1.3.1 to 1.3.2a1 (when using postgresql)

Issue - State: closed - Opened by tcompa over 1 year ago - 2 comments
Labels: db life cycle

#773 - Review how to back-up postgres DB

Issue - State: closed - Opened by tcompa over 1 year ago - 5 comments
Labels: db life cycle

#772 - Fix bug in task insertion when `task.meta=None`

Pull Request - State: closed - Opened by tcompa over 1 year ago - 2 comments

#771 - Experiment with `sqladmin`

Issue - State: closed - Opened by tcompa over 1 year ago - 2 comments
Labels: maintenance

#770 - Fix bug in `insert_task`

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: bug, High Priority

#769 - Fix CI

Pull Request - State: closed - Opened by tcompa over 1 year ago - 3 comments

#768 - Set default for `shutdown_file`

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#767 - In `_background_collect_pip`, immediately log the full content of `task_pkg`

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: maintenance

#766 - Workflow shutdown not triggering actual shutdown

Issue - State: closed - Opened by jluethi over 1 year ago - 9 comments
Labels: bug, High Priority, slurm

#765 - DO NOT MERGE! Naming convention and migration tests

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#764 - Change return value of stop-job endpoint (close #763)

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#763 - Fix return value of stop-job endpoint

Issue - State: closed - Opened by tcompa over 1 year ago

#762 - Expose GET WorkflowTask and split API files

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#761 - Split api/v1/task.py into task and task_collection

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: maintenance

#760 - Expose GET endpoint for WorkflowTask

Issue - State: closed - Opened by tcompa over 1 year ago - 1 comment

#759 - Fully replace WorkflowTask.args, in patch endpoint (close #758)

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#758 - Fully replace WorkflowTask.args, in patch-WorkflowTask endpoint

Issue - State: closed - Opened by tcompa over 1 year ago - 13 comments
Labels: High Priority

#757 - Add render as batch to online method and add naming convention

Pull Request - State: closed - Opened by mfranzon over 1 year ago - 3 comments

#756 - Include timestamp in workflow dir, to make it unique

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#755 - Further actions upon project delete

Issue - State: open - Opened by tcompa over 1 year ago - 1 comment

#754 - Check SQL errors in the CI log

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#753 - Modify `WORKFLOW_DIR` if folder already exists

Issue - State: closed - Opened by tcompa over 1 year ago - 1 comment

#752 - Remove `WorkflowTask.overridden_meta`

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#751 - Add `FRACTAL_DEFAULT_ADMIN_USERNAME` variable (close #750)

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#750 - Add username to default admin user

Issue - State: closed - Opened by tcompa over 1 year ago
Labels: High Priority

#749 - Expose `args_schema` and `args_schema_version` in task POST/PATCH

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 1 comment

#748 - Add greenlet as a direct dependency (close #747)

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

#747 - `greenlet` dependency not installed automatically on Apple Silicon Macs

Issue - State: closed - Opened by jluethi over 1 year ago - 8 comments

#745 - Delete Task endpoint

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 5 comments

#744 - Expose `pinned_package_versions` for task collection

Pull Request - State: closed - Opened by ychiucco over 1 year ago - 3 comments

#743 - Test that task collection works also for packages with a `tasks` subpackage (close #735)

Pull Request - State: closed - Opened by tcompa over 1 year ago - 1 comment

GitHub / fractal-analytics-platform/fractal-server issues and pull requests