An evaluation queue allows you to submit Synapse files or Docker images for evaluation. They are designed to support open-access data analysis and modeling challenges in Synapse. This framework provides tools for administrators to collect and analyze data models created by Synapse users for a specific goal or purpose.
Create an
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Evaluation Queue
To create a queue, you must first create a Synapse project or have edit permissions on Synapse Challenge project and have edit permissions on an existing project. To create
For instructions on setting up a Synapse Project, follow the instructions on the Quick start: Setting up a project page.Once you’ve created your project, navigate to it and add /challenge to the url (e.g. www.synapse.org/#!Synapse:syn12345/challenge). Click see /wiki/spaces/DOCS/pages/2055471258.
If you do not see the challenge tab in your project:
Navigate to the bottom of the page and click experimental mode: off to turn on experimental mode.
Click Project Tools in the right corner and select Run Challenge and follow instructions.
Once your project has the Challenge tab, navigate to it and click Challenge Tools in the right corner and select Add Evaluation Queue.
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Name: Unique name of the evaluation
Description: A short description of the evaluation
Submission instructions: Message to display to users detailing acceptable formatting for submissions.
Submission receipt message: Message to display to users upon submission
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submission—the name of your evaluation queue MUST be unique, otherwise the queue will not be created
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Setting
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Quotas on an
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Evaluation Queue
Optionally, you can restrict submissions by adding a quota to each round of your challenge.
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Duration (Round Start and Round end) - Select a date and time for the start and end of the round.
Submission Limit - The maximum number of submissions per team/participant per round. Please keep in mind that the system will prevent additional submissions by a user/team once they have hit this number of submissions.
Advanced Limits - You may set additional quotas for daily, weekly, or monthly submissions per team/participant. These limits can be combined by clicking the + sign next to the Maximum Submissions field.
Share an
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Evaluation Queue
Each evaluation has sharing settings, which limit who can interact with the evaluation.
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Important: When someone submits to an evaluation queue, a copy of the submission is made, so a person with “Administrator” or “Can Score” access will be able to download the submission even if the submitter deletes the entity. |
Close an
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Evaluation Queue
While there isn’t technically a way of “closing” an evaluation queue, there are multiple ways to discontinue submissions for users.
Users are only able to submit to a queue if they have
can submitpermissions to it. If you have the ability to modify the permissions of a queue, you will still be able to submit to the queue due to youradministratoraccess.If the quota is set so the current date exceeds the the round start + round duration, no one will be able to submit to the queue. This includes users with administrator permissions.
Deleting a queue will also discontinue the ability to submit to it. Be careful when doing this, as deleting a queue is irreversible and you will lose all submissions.
Submitting to an
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Evaluation Queue
Any Synapse entity may be submitted to an evaluation queue.
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The submission function takes two optional parameters: name and team. Name can be provided to customize the submission. The submission name is often used by participants to identify their submissions. If a name is not provided, the name of the entity being submitted will be used. As an example, if you submit a file named testfile.txt, and the name of the submission isn’t specified, it will default to testfile.txt. Team names can be provided to recognize a group of contributors.
Python
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import synapseclient
syn = synapseclient.login()
evaluation_id = "9610091"
my_submission_entity = "syn1234567"
submission = syn.submit(
evaluation = evaluation_id,
entity = my_submission_entity,
name = "My Submission", # An arbitrary name for your submission
team = "My Team Name") # Optional, can also pass a Team object or id
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R
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library(synapser)
synLogin()
evaluation_id <- "9610091"
my_submission_entity <- "syn1234567"
submission <- synSubmit(
evaluation = evaluation_id,
entity = my_submission_entity,
name = "My Submission", # An arbitrary name for your submission
team = "My Team Name") # Optional, can also pass a Team object or id
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Submissions
Every submission you make to an evaluation queue has a unique ID. This ID should not be confused with Synapse IDs which start with the prefix “syn” (for example, syn12345678). All submissions have a Submission and SubmissionStatus object.
Navigate to a file in Synapse and click on File Tools in the upper right-hand corner. Select Submit To Challenge to pick the challenge for your submission. Follow the provided steps to complete your submission.
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View
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Submissions of an
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Evaluation Queue
Submissions can be viewed and shared with users through submission views creating dynamic leaderboards. Submission annotations can be added to a SubmissionStatus object and are automatically indexed in the view.
Creating the
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Submission View
Navigate to the Tables tab and under the Table Tools menu in the upper right-hand select Add Submission View:
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Selecting Add All Annotations will automatically include all the annotations found on the submissions in the scope as columns for the view:
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Embed a
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Submission View in a
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Wiki Page
Once created, a submission view can be embedded into a wiki page using the Synapse Table/View wiki widget:
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You can input your own query statement such as SELECT * FROM syn22155139 ORDER BY score DESC. Remember, syn22155139 should be replaced with the synID of the submission view:
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Submit to an
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Evaluation Queue from a
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Wiki Page
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You may embed a Submit To Evaluation widget on a wiki page to improve visibility of your evaluation queue. The widget allows participants to submit to multiple evaluation queues within a project or a single evaluation queue.
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The project doesn’t have any evaluation queues.
The user does not have permission to view a project’s evaluation queues. Learn more about sharing settings.The evaluation queue quota is set such that a user can not submit to the queue.
See also:
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The user does not have permission to view a project’s evaluation queues.
Learn more about sharing settings /wiki/spaces/DOCS/pages/2011070739, /wiki/spaces/DOCS/pages/1985151441Include Page