René's URL Explorer Experiment

Title: Annotation - Synapse Python/Command Line Client Documentation

Description: A Python client for Sage Bionetworks' Synapse, a collaborative, open-source research platform that allows teams to share data, track analyses, and collaborate. The Python client can be used as a library for development of software that communicates with Synapse or as a command-line utility.

Generator: mkdocs-1.6.1, mkdocs-material-9.7.1

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Domain: python-docs.synapse.org

author	Bryan Fauble
readthedocs-project-slug	synapsepythonclient
readthedocs-version-slug	stable
readthedocs-resolver-filename	/tutorials/python/annotation/
readthedocs-http-status	200

Links:

Skip to content	https://python-docs.synapse.org/tutorials/python/annotation/#annotations
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synapsePythonClient	https://github.com/Sage-Bionetworks/synapsePythonClient
Home	https://python-docs.synapse.org/
Tutorials	https://python-docs.synapse.org/tutorials/home/
How-To Guides	https://python-docs.synapse.org/guides/home/
API Reference	https://python-docs.synapse.org/reference/client/
Further Reading	https://python-docs.synapse.org/explanations/home/
News	https://python-docs.synapse.org/news/
Contact Us	https://sagebionetworks.jira.com/servicedesk/customer/portal/9/group/16/create/206
	https://python-docs.synapse.org/
synapsePythonClient	https://github.com/Sage-Bionetworks/synapsePythonClient
Home	https://python-docs.synapse.org/
Installation	https://python-docs.synapse.org/tutorials/installation/
Authentication	https://python-docs.synapse.org/tutorials/authentication/
Configuration	https://python-docs.synapse.org/tutorials/configuration/
Home	https://python-docs.synapse.org/tutorials/home/
Python client	https://python-docs.synapse.org/tutorials/python_client/
Project	https://python-docs.synapse.org/tutorials/python/project/
Folder	https://python-docs.synapse.org/tutorials/python/folder/
File	https://python-docs.synapse.org/tutorials/python/file/
Evaluation	https://python-docs.synapse.org/tutorials/python/evaluation/
Submission	https://python-docs.synapse.org/tutorials/python/submission/
Annotation	https://python-docs.synapse.org/tutorials/python/annotation/
Tutorial Purpose	https://python-docs.synapse.org/tutorials/python/annotation/#tutorial-purpose
Prerequisites	https://python-docs.synapse.org/tutorials/python/annotation/#prerequisites
1. Add several annotations to stored files	https://python-docs.synapse.org/tutorials/python/annotation/#1-add-several-annotations-to-stored-files
First let's retrieve all of the Synapse IDs we are going to use	https://python-docs.synapse.org/tutorials/python/annotation/#first-lets-retrieve-all-of-the-synapse-ids-we-are-going-to-use
Next let's define the annotations I want to set	https://python-docs.synapse.org/tutorials/python/annotation/#next-lets-define-the-annotations-i-want-to-set
Finally we'll loop over all of the files and set their annotations	https://python-docs.synapse.org/tutorials/python/annotation/#finally-well-loop-over-all-of-the-files-and-set-their-annotations
2. Upload 2 new files and set the annotations at the same time	https://python-docs.synapse.org/tutorials/python/annotation/#2-upload-2-new-files-and-set-the-annotations-at-the-same-time
Results	https://python-docs.synapse.org/tutorials/python/annotation/#results
Source code for this tutorial	https://python-docs.synapse.org/tutorials/python/annotation/#source-code-for-this-tutorial
References used in this tutorial	https://python-docs.synapse.org/tutorials/python/annotation/#references-used-in-this-tutorial
Entity View	https://python-docs.synapse.org/tutorials/python/entityview/
Table	https://python-docs.synapse.org/tutorials/python/table/
VirtualTable	https://python-docs.synapse.org/tutorials/python/virtualtable/
Dataset	https://python-docs.synapse.org/tutorials/python/dataset/
Dataset Collection	https://python-docs.synapse.org/tutorials/python/dataset_collection/
Materialized View	https://python-docs.synapse.org/tutorials/python/materializedview/
Submission View	https://python-docs.synapse.org/tutorials/python/submissionview/
Sharing Settings	https://python-docs.synapse.org/tutorials/python/sharing_settings/
Wiki	https://python-docs.synapse.org/tutorials/python/wiki/
Upload data in bulk	https://python-docs.synapse.org/tutorials/python/upload_data_in_bulk/
Download data in bulk	https://python-docs.synapse.org/tutorials/python/download_data_in_bulk/
Creating JSON Schema	https://python-docs.synapse.org/tutorials/python/schema_operations/
Working with JSON Schema	https://python-docs.synapse.org/tutorials/python/json_schema/
Working with the Command Line Client	https://python-docs.synapse.org/tutorials/command_line_client/
Synapseclient with R through reticulate	https://python-docs.synapse.org/tutorials/reticulate/
Home	https://python-docs.synapse.org/guides/home/
Data Storage	https://python-docs.synapse.org/guides/data_storage/
Access the REST API	https://python-docs.synapse.org/guides/accessing_the_rest_api/
Curator	https://python-docs.synapse.org/guides/extensions/curator/metadata_curation/
Client	https://python-docs.synapse.org/reference/client/
Synapse Utils	https://python-docs.synapse.org/reference/synapse_utils/
Entity	https://python-docs.synapse.org/reference/entity/
Project	https://python-docs.synapse.org/reference/project/
Folder	https://python-docs.synapse.org/reference/folder/
File	https://python-docs.synapse.org/reference/file/
Annotations	https://python-docs.synapse.org/reference/annotations/
Tables	https://python-docs.synapse.org/reference/tables/
Table Schema	https://python-docs.synapse.org/reference/table_schema/
Entity View Schema	https://python-docs.synapse.org/reference/view_schema/
Activity/Provenance	https://python-docs.synapse.org/reference/activity/
Teams	https://python-docs.synapse.org/reference/teams/
Wiki	https://python-docs.synapse.org/reference/wiki/
Evaluation	https://python-docs.synapse.org/reference/evaluation/
Link	https://python-docs.synapse.org/reference/link/
DockerRepository	https://python-docs.synapse.org/reference/docker_repository/
JSON Schema	https://python-docs.synapse.org/reference/json_schema/
Exceptions	https://python-docs.synapse.org/reference/exceptions/
Permissions	https://python-docs.synapse.org/reference/permissions/
Core	https://python-docs.synapse.org/reference/core/
REST Apis	https://python-docs.synapse.org/reference/rest_apis/
Factory Operations	https://python-docs.synapse.org/reference/experimental/sync/factory_operations/
Agent	https://python-docs.synapse.org/reference/experimental/sync/agent/
Project	https://python-docs.synapse.org/reference/experimental/sync/project/
Folder	https://python-docs.synapse.org/reference/experimental/sync/folder/
File	https://python-docs.synapse.org/reference/experimental/sync/file/
Evaluation	https://python-docs.synapse.org/reference/experimental/sync/evaluation/
Submission	https://python-docs.synapse.org/reference/experimental/sync/submission/
SubmissionStatus	https://python-docs.synapse.org/reference/experimental/sync/submission_status/
SubmissionBundle	https://python-docs.synapse.org/reference/experimental/sync/submission_bundle/
Table	https://python-docs.synapse.org/reference/experimental/sync/table/
VirtualTable	https://python-docs.synapse.org/reference/experimental/sync/virtualtable/
Dataset	https://python-docs.synapse.org/reference/experimental/sync/dataset/
Dataset Collection	https://python-docs.synapse.org/reference/experimental/sync/dataset_collection/
EntityView	https://python-docs.synapse.org/reference/experimental/sync/entityview/
MaterializedView	https://python-docs.synapse.org/reference/experimental/sync/materializedview/
SubmissionView	https://python-docs.synapse.org/reference/experimental/sync/submissionview/
Activity	https://python-docs.synapse.org/reference/experimental/sync/activity/
Team	https://python-docs.synapse.org/reference/experimental/sync/team/
UserProfile	https://python-docs.synapse.org/reference/experimental/sync/user_profile/
Curator	https://python-docs.synapse.org/reference/experimental/sync/curator/
Link	https://python-docs.synapse.org/reference/experimental/sync/link_entity/
Functional Interfaces	https://python-docs.synapse.org/reference/experimental/functional_interfaces/
SchemaOrganization	https://python-docs.synapse.org/reference/experimental/sync/schema_organization/
JSONSchema	https://python-docs.synapse.org/reference/experimental/sync/json_schema/
Wiki	https://python-docs.synapse.org/reference/experimental/sync/wiki/
FormGroup and Form	https://python-docs.synapse.org/reference/experimental/sync/form/
Curator	https://python-docs.synapse.org/reference/extensions/curator/
Factory Operations	https://python-docs.synapse.org/reference/experimental/async/factory_operations/
Agent	https://python-docs.synapse.org/reference/experimental/async/agent/
Project	https://python-docs.synapse.org/reference/experimental/async/project/
Folder	https://python-docs.synapse.org/reference/experimental/async/folder/
File	https://python-docs.synapse.org/reference/experimental/async/file/
Evaluation	https://python-docs.synapse.org/reference/experimental/async/evaluation/
Submission	https://python-docs.synapse.org/reference/experimental/async/submission/
SubmissionStatus	https://python-docs.synapse.org/reference/experimental/async/submission_status/
SubmissionBundle	https://python-docs.synapse.org/reference/experimental/async/submission_bundle/
Table	https://python-docs.synapse.org/reference/experimental/async/table/
VirtualTable	https://python-docs.synapse.org/reference/experimental/async/virtualtable/
Dataset	https://python-docs.synapse.org/reference/experimental/async/dataset/
Dataset Collection	https://python-docs.synapse.org/reference/experimental/async/dataset_collection/
EntityView	https://python-docs.synapse.org/reference/experimental/async/entityview/
MaterializedView	https://python-docs.synapse.org/reference/experimental/async/materializedview/
SubmissionView	https://python-docs.synapse.org/reference/experimental/async/submissionview/
Activity	https://python-docs.synapse.org/reference/experimental/async/activity/
Team	https://python-docs.synapse.org/reference/experimental/async/team/
UserProfile	https://python-docs.synapse.org/reference/experimental/async/user_profile/
Curator	https://python-docs.synapse.org/reference/experimental/async/curator/
Link	https://python-docs.synapse.org/reference/experimental/async/link_entity/
SchemaOrganization	https://python-docs.synapse.org/reference/experimental/async/schema_organization/
JSONSchema	https://python-docs.synapse.org/reference/experimental/async/json_schema/
Wiki	https://python-docs.synapse.org/reference/experimental/async/wiki/
FormGroup and Form	https://python-docs.synapse.org/reference/experimental/async/form/
AccessControllable	https://python-docs.synapse.org/reference/experimental/mixins/access_controllable/
StorableContainer	https://python-docs.synapse.org/reference/experimental/mixins/storable_container/
AsynchronousCommunicator	https://python-docs.synapse.org/reference/experimental/mixins/asynchronous_communicator/
FailureStrategy	https://python-docs.synapse.org/reference/experimental/mixins/failure_strategy/
BaseJSONSchema	https://python-docs.synapse.org/reference/experimental/mixins/base_json_schema/
ContainerEntityJSONSchema	https://python-docs.synapse.org/reference/experimental/mixins/container_json_schema/
FormData	https://python-docs.synapse.org/reference/experimental/mixins/form_data/
FormGroup	https://python-docs.synapse.org/reference/experimental/mixins/form_group/
Home	https://python-docs.synapse.org/explanations/home/
Domain Models of Synapse	https://python-docs.synapse.org/explanations/domain_models_of_synapse/
Access Control	https://python-docs.synapse.org/explanations/access_control/
Properties vs Annotations	https://python-docs.synapse.org/explanations/properties_vs_annotations/
Manifest TSV	https://python-docs.synapse.org/explanations/manifest_tsv/
Benchmarking	https://python-docs.synapse.org/explanations/benchmarking/
Structuring Your Project	https://python-docs.synapse.org/explanations/structuring_your_project/
Asyncio Changes in Python 3.14	https://python-docs.synapse.org/explanations/asyncio_in_python_3_14/
Curator Data model	https://python-docs.synapse.org/explanations/curator_data_model/
Release Notes	https://python-docs.synapse.org/news/
Contact Us	https://sagebionetworks.jira.com/servicedesk/customer/portal/9/group/16/create/206
Tutorial Purpose	https://python-docs.synapse.org/tutorials/python/annotation/#tutorial-purpose
Prerequisites	https://python-docs.synapse.org/tutorials/python/annotation/#prerequisites
1. Add several annotations to stored files	https://python-docs.synapse.org/tutorials/python/annotation/#1-add-several-annotations-to-stored-files
First let's retrieve all of the Synapse IDs we are going to use	https://python-docs.synapse.org/tutorials/python/annotation/#first-lets-retrieve-all-of-the-synapse-ids-we-are-going-to-use
Next let's define the annotations I want to set	https://python-docs.synapse.org/tutorials/python/annotation/#next-lets-define-the-annotations-i-want-to-set
Finally we'll loop over all of the files and set their annotations	https://python-docs.synapse.org/tutorials/python/annotation/#finally-well-loop-over-all-of-the-files-and-set-their-annotations
2. Upload 2 new files and set the annotations at the same time	https://python-docs.synapse.org/tutorials/python/annotation/#2-upload-2-new-files-and-set-the-annotations-at-the-same-time
Results	https://python-docs.synapse.org/tutorials/python/annotation/#results
Source code for this tutorial	https://python-docs.synapse.org/tutorials/python/annotation/#source-code-for-this-tutorial
References used in this tutorial	https://python-docs.synapse.org/tutorials/python/annotation/#references-used-in-this-tutorial
¶	https://python-docs.synapse.org/tutorials/python/annotation/#annotations
Uploading data in bulk	https://python-docs.synapse.org/tutorials/python/upload_data_in_bulk/
¶	https://python-docs.synapse.org/tutorials/python/annotation/#tutorial-purpose
¶	https://python-docs.synapse.org/tutorials/python/annotation/#prerequisites
File	https://python-docs.synapse.org/tutorials/python/file/
¶	https://python-docs.synapse.org/tutorials/python/annotation/#1-add-several-annotations-to-stored-files
¶	https://python-docs.synapse.org/tutorials/python/annotation/#first-lets-retrieve-all-of-the-synapse-ids-we-are-going-to-use
¶	https://python-docs.synapse.org/tutorials/python/annotation/#next-lets-define-the-annotations-i-want-to-set
¶	https://python-docs.synapse.org/tutorials/python/annotation/#finally-well-loop-over-all-of-the-files-and-set-their-annotations
¶	https://python-docs.synapse.org/tutorials/python/annotation/#2-upload-2-new-files-and-set-the-annotations-at-the-same-time
File tutorial	https://python-docs.synapse.org/tutorials/python/file/
¶	https://python-docs.synapse.org/tutorials/python/annotation/#results
¶	https://python-docs.synapse.org/tutorials/python/annotation/#source-code-for-this-tutorial
¶	https://python-docs.synapse.org/tutorials/python/annotation/#references-used-in-this-tutorial
Annotations	https://python-docs.synapse.org/reference/annotations/#synapseclient.annotations.Annotations
File	https://python-docs.synapse.org/reference/experimental/sync/file/#file
syn.login	https://python-docs.synapse.org/reference/client/#synapseclient.Synapse.login
syn.findEntityId	https://python-docs.synapse.org/reference/client/#synapseclient.Synapse.findEntityId
syn.getChildren	https://python-docs.synapse.org/reference/client/#synapseclient.Synapse.getChildren
syn.get_annotations	https://python-docs.synapse.org/reference/client/#synapseclient.Synapse.get_annotations
syn.set_annotations	https://python-docs.synapse.org/reference/client/#synapseclient.Synapse.set_annotations
syn.store	https://python-docs.synapse.org/reference/client/#synapseclient.Synapse.store
Previous Submission	https://python-docs.synapse.org/tutorials/python/submission/
Next Entity View	https://python-docs.synapse.org/tutorials/python/entityview/
Material for MkDocs	https://squidfunk.github.io/mkdocs-material/
	https://github.com/Sage-Bionetworks/synapsePythonClient
	https://github.com/Sage-Bionetworks/synapsePythonClient/pkgs/container/synapsepythonclient
	https://pypi.org/project/synapseclient/

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