Merge pull request aws#9560 from devlinbd2/omicsUpdates

kdaily · web-flow · commit b13c9d5a4488 · 2025-07-02T10:10:36.000-07:00
Omics updates
diff --git a/awscli/examples/omics/cancel-run.rst b/awscli/examples/omics/cancel-run.rst
@@ -5,4 +5,4 @@ The following ``cancel-run`` example cancels a run with ID ``1234567``. ::
     aws omics cancel-run \
         --id 1234567
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Run lifecycle in a workflow <https://docs.aws.amazon.com/omics/latest/dev/monitoring-runs.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/create-run-group.rst b/awscli/examples/omics/create-run-group.rst
@@ -5,7 +5,9 @@ The following ``create-run-group`` example creates a run group named ``cram-conv
     aws omics create-run-group \
         --name cram-converter \
         --max-cpus 20 \
-        --max-duration 600
+        --max-gpus 10 \
+        --max-duration 600 \
+        --max-runs 5 
 
 Output::
 
@@ -15,4 +17,4 @@ Output::
         "tags": {}
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Creating run groups <https://docs.aws.amazon.com/omics/latest/dev/creating-run-groups.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/create-workflow.rst b/awscli/examples/omics/create-workflow.rst
@@ -42,4 +42,4 @@ Output::
         "tags": {}
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Creating private workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows-setup.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/delete-run-group.rst b/awscli/examples/omics/delete-run-group.rst
@@ -5,4 +5,4 @@ The following ``delete-run-group`` example deletes a run group with ID ``1234567
     aws omics delete-run-group \
         --id 1234567
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Deleting runs and run groups <https://docs.aws.amazon.com/omics/latest/dev/deleting-workflows-and-runs.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/delete-run.rst b/awscli/examples/omics/delete-run.rst
@@ -5,4 +5,4 @@ The following ``delete-run`` example deletes a run with ID ``1234567``. ::
     aws omics delete-run \
         --id 1234567
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Deleting runs and run groups <https://docs.aws.amazon.com/omics/latest/dev/deleting-workflows-and-runs.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/delete-workflow.rst b/awscli/examples/omics/delete-workflow.rst
@@ -5,4 +5,4 @@ The following ``delete-workflow`` example deletes a workflow with ID ``1234567``
     aws omics delete-workflow \
         --id 1234567
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Delete a private workflow <https://docs.aws.amazon.com/omics/latest/dev/delete-private-workflow.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/get-run-group.rst b/awscli/examples/omics/get-run-group.rst
@@ -17,4 +17,4 @@ Output::
         "tags": {}
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Creating run groups <https://docs.aws.amazon.com/omics/latest/dev/creating-run-groups.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/get-run-task.rst b/awscli/examples/omics/get-run-task.rst
@@ -20,4 +20,4 @@ Output::
         "taskId": "1234567"
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Task lifecycle in a HealthOmics run <https://docs.aws.amazon.com/omics/latest/dev/workflow-run-tasks.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/get-run.rst b/awscli/examples/omics/get-run.rst
@@ -35,4 +35,4 @@ Output::
         "workflowType": "PRIVATE"
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Run lifecycle in a workflow <https://docs.aws.amazon.com/omics/latest/dev/monitoring-runs.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/get-workflow.rst b/awscli/examples/omics/get-workflow.rst
@@ -38,4 +38,4 @@ Output::
         "type": "PRIVATE"
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Creating private workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows-setup.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/list-run-groups.rst b/awscli/examples/omics/list-run-groups.rst
@@ -19,4 +19,4 @@ Output::
         ]
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Creating run groups <https://docs.aws.amazon.com/omics/latest/dev/creating-run-groups.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/list-run-tasks.rst b/awscli/examples/omics/list-run-tasks.rst
@@ -32,4 +32,4 @@ Output::
         ]
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Task lifecycle in a HealthOmics run <https://docs.aws.amazon.com/omics/latest/dev/workflow-run-tasks.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/list-runs.rst b/awscli/examples/omics/list-runs.rst
@@ -43,4 +43,4 @@ Output::
         ]
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Run lifecycle in a workflow <https://docs.aws.amazon.com/omics/latest/dev/monitoring-runs.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/list-workflows.rst b/awscli/examples/omics/list-workflows.rst
@@ -29,4 +29,4 @@ Output::
         ]
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Creating private workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows-setup.html>`__ in the *AWS HealthOmics User Guide*.
diff --git a/awscli/examples/omics/start-run.rst b/awscli/examples/omics/start-run.rst
@@ -32,7 +32,7 @@ Output::
         "tags": {}
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Starting a run <https://docs.aws.amazon.com/omics/latest/dev/starting-a-run.html>`__ in the *AWS HealthOmics User Guide*.
 
 **To load source files from Amazon Omics**
 
@@ -46,4 +46,3 @@ You can also load source files from Amazon Omics storage, by using service-speci
         "ref_fasta_index": "omics://123456789012.storage.us-west-2.amazonaws.com/1234567890/reference/1234567890/index"
     }
 
-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
diff --git a/awscli/examples/omics/update-workflow.rst b/awscli/examples/omics/update-workflow.rst
@@ -6,4 +6,4 @@ The following ``update-workflow`` example updates the description of a workflow
         --id 1234567 \
         --description "copy workflow"
 
-For more information, see `Omics Storage <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the *Amazon Omics Developer Guide*.
+For more information, see `Creating or updating a workflow <https://docs.aws.amazon.com/omics/latest/dev/creating-private-workflows.html>`__ in the *AWS HealthOmics User Guide*.

Original file line number	Diff line number	Diff line change
`@@ -42,4 +42,4 @@ Output::`
`42`	`42`	`"tags": {}`
`43`	`43`	`}`
`44`	`44`
`45`		-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the Amazon Omics Developer Guide.
	`45`	+For more information, see `Creating private workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows-setup.html>`__ in the AWS HealthOmics User Guide.
Original file line number	Diff line number	Diff line change
`@@ -17,4 +17,4 @@ Output::`
`17`	`17`	`"tags": {}`
`18`	`18`	`}`
`19`	`19`
`20`		-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the Amazon Omics Developer Guide.
	`20`	+For more information, see `Creating run groups <https://docs.aws.amazon.com/omics/latest/dev/creating-run-groups.html>`__ in the AWS HealthOmics User Guide.
Original file line number	Diff line number	Diff line change
`@@ -20,4 +20,4 @@ Output::`
`20`	`20`	`"taskId": "1234567"`
`21`	`21`	`}`
`22`	`22`
`23`		-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the Amazon Omics Developer Guide.
	`23`	+For more information, see `Task lifecycle in a HealthOmics run <https://docs.aws.amazon.com/omics/latest/dev/workflow-run-tasks.html>`__ in the AWS HealthOmics User Guide.
Original file line number	Diff line number	Diff line change
`@@ -35,4 +35,4 @@ Output::`
`35`	`35`	`"workflowType": "PRIVATE"`
`36`	`36`	`}`
`37`	`37`
`38`		-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the Amazon Omics Developer Guide.
	`38`	+For more information, see `Run lifecycle in a workflow <https://docs.aws.amazon.com/omics/latest/dev/monitoring-runs.html>`__ in the AWS HealthOmics User Guide.
Original file line number	Diff line number	Diff line change
`@@ -38,4 +38,4 @@ Output::`
`38`	`38`	`"type": "PRIVATE"`
`39`	`39`	`}`
`40`	`40`
`41`		-For more information, see `Omics Workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows.html>`__ in the Amazon Omics Developer Guide.
	`41`	+For more information, see `Creating private workflows <https://docs.aws.amazon.com/omics/latest/dev/workflows-setup.html>`__ in the AWS HealthOmics User Guide.