在 HealthOmics 中啟用讀取集

您可以使用 start-read-set-activation-job API 操作或透過 啟用封存的讀取集 AWS CLI，如下列範例所示。將 sequence store ID和 取代read set id為您的序列存放區 ID 和讀取集 IDs。

aws omics start-read-set-activation-job 
     --sequence-store-id sequence store ID \
     --sources readSetId=read set ID readSetId=read set id_1 read set id_2        

您會收到包含啟用任務資訊的回應，如下所示。

{
    "id": "12345678",
    "sequenceStoreId": "1234567890",
    "status": "SUBMITTED",
    "creationTime": "2022-10-22T00:50:54.670000+00:00"
}                   

啟動任務後，您可以使用 get-read-set-activation-job API 操作來監控其進度。以下是如何使用 AWS CLI 來檢查啟用任務狀態的範例。將 job ID和 分別取代sequence store ID為您的序列存放區 ID 和任務 IDs。

aws omics get-read-set-activation-job --id job ID --sequence-store-id sequence store ID                    

回應摘要說明啟用任務，如下所示。

{
    "id": 123567890,
    "sequenceStoreId": 123467890,
    "status": "SUBMITTED",
    "statusUpdateReason": "The job is submitted and will start soon.",
    "creationTime": "2022-10-22T00:50:54.670000+00:00",
    "sources": [
        {
            "readSetId": <reads set id_1>,
            "status": "NOT_STARTED",
            "statusUpdateReason": "The source is queued for the job."
        },
        {
            "readSetId": <read set id_2>,
            "status": "NOT_STARTED",
            "statusUpdateReason": "The source is queued for the job."
        }
    ]
}                    

您可以使用 get-read-set-metadata API 操作檢查啟用任務的狀態。可能的狀態為 ACTIVE、 ACTIVATING和 ARCHIVED。在下列範例中，將 取代sequence store ID為您的序列存放區 ID，並將 取代read set ID為您的讀取集 ID。

aws omics get-read-set-metadata --sequence-store-id sequence store ID --id read set ID

下列回應顯示讀取集處於作用中狀態。

{
    "id": "12345678",
    "arn": "arn:aws:omics:us-west-2:555555555555:sequenceStore/1234567890/readSet/12345678",
    "sequenceStoreId": "0123456789",
    "subjectId": "mySubject",
    "sampleId": "mySample",
    "status": "ACTIVE",
    "name": "HG00100",
    "description": "HG00100 aligned to HG38 BAM",
    "fileType": "BAM",
    "creationTime": "2022-07-13T23:25:20Z",
    "sequenceInformation": {
        "totalReadCount": 1513467,
        "totalBaseCount": 163454436,
        "generatedFrom": "Pulled from SRA",
        "alignment": "ALIGNED"
    },
    "referenceArn": "arn:aws:omics:us-west-2:555555555555:referenceStore/0123456789/reference/0000000001",
    "files": {
        "source1": {
            "totalParts": 2,
            "partSize":  10485760,
            "contentLength": 17112283,
            "s3Access": {
        "s3Uri": "s3://accountID-sequence store ID-ajdpi90jdas90a79fh9a8ja98jdfa9jf98-s3alias/592761533288/sequenceStore/2015356892/readSet/9515444019/import_source1.fastq.gz"
},
         },
        "index": {
            "totalParts": 1,
            "partSize": 53216,
            "contentLength": 10485760
            "s3Access": {
        "s3Uri": "s3://accountID-sequence store ID-ajdpi90jdas90a79fh9a8ja98jdfa9jf98-s3alias/592761533288/sequenceStore/2015356892/readSet/9515444019/import_source1.fastq.gz"
},
        }
    },
    "creationType": "IMPORT",
    "etag": {
        "algorithm": "BAM_MD5up",
        "source1": "d1d65429212d61d115bb19f510d4bd02"
    }
}                     

您可以使用 list-read-set-activation-jobs 檢視所有讀取集啟用任務，如下列範例所示。在下列範例中，將 取代sequence store ID為您的序列存放區 ID。

aws omics list-read-set-activation-jobs --sequence-store-id sequence store ID                

您會收到下列回應。

{
    "activationJobs": [
        {
            "id": 1234657890,
            "sequenceStoreId": "1234567890",
            "status": "COMPLETED",
            "creationTime": "2022-10-22T01:33:38.079000+00:00",
            "completionTime": "2022-10-22T01:34:28.941000+00:00"
        }
    ]
}