2022-11-05 22:58:20.640 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@Unindexed Reads --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@Unindexed Reads/Undetermined from 221104_NB502090_0144_AHCK5MBGXN --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 22:58:21.380 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 22:58:21.386 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'Undetermined from 221104_NB502090_0144_AHCK5MBGXN'. 2022-11-05 22:58:21.392 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 22:58:21.994 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 22:58:22.004 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 22:58:22.012 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 22:58:23.357 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1345ms 2022-11-05 22:58:23.364 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 22:58:23.370 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 22:58:24.373 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 1002ms 2022-11-05 22:58:24.404 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 22:58:24.411 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "Undetermined from 221104_NB502090_0144_AHCK5MBGXN", "SampleId": "Undetermined from 221104_NB502090_0144_AHCK5MBGXN", "AppSessionId": "626289665", "SampleNumber": 0, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 213372357, "NumReadsPF": 13676531, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "53201668" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "3429849" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "53259228" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "3479646" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "53339303" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "3366100" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "53572158" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "3400936" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 22:58:24.419 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371672301'. 2022-11-05 22:58:24.433 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371672301'. attempt 1 2022-11-05 22:58:26.712 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371672301'. completed after 1 attempts and 2278ms 2022-11-05 22:58:26.719 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'Undetermined from 221104_NB502090_0144_AHCK5MBGXN' (410318321) 2022-11-05 22:58:26.728 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410318321/direct-upload-info 2022-11-05 22:58:26.733 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410318321/direct-upload-info attempt 1 2022-11-05 22:58:26.831 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410318321/direct-upload-info completed after 1 attempts and 97ms 2022-11-05 22:58:26.840 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 22:58:26.861 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:26.861 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:26.871 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L001_R2_001.fastq.gz' (357.931 MB). 2022-11-05 22:58:26.875 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L001_R1_001.fastq.gz' (362.337 MB). 2022-11-05 22:58:26.884 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:58:26.890 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:58:40.142 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L001_R2_001.fastq.gz' in 13.25 seconds 2022-11-05 22:58:40.149 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:58:40.295 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L001_R1_001.fastq.gz' in 13.39 seconds 2022-11-05 22:58:40.302 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:58:40.902 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 14041ms 2022-11-05 22:58:40.911 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:40.918 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L002_R1_001.fastq.gz' (367.59 MB). 2022-11-05 22:58:40.925 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:58:40.976 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 14114ms 2022-11-05 22:58:40.982 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:40.990 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L002_R2_001.fastq.gz' (361.827 MB). 2022-11-05 22:58:40.995 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:58:44.409 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L002_R2_001.fastq.gz' in 3.41 seconds 2022-11-05 22:58:44.418 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:58:45.124 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4141ms 2022-11-05 22:58:45.131 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:45.138 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L003_R1_001.fastq.gz' (355.295 MB). 2022-11-05 22:58:45.146 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:58:48.528 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L002_R1_001.fastq.gz' in 7.60 seconds 2022-11-05 22:58:48.536 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:58:48.651 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L003_R1_001.fastq.gz' in 3.50 seconds 2022-11-05 22:58:48.656 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:58:49.182 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8271ms 2022-11-05 22:58:49.187 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:49.196 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L003_R2_001.fastq.gz' (352.671 MB). 2022-11-05 22:58:49.206 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:58:49.294 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4163ms 2022-11-05 22:58:49.302 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:49.307 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L004_R1_001.fastq.gz' (359.56 MB). 2022-11-05 22:58:49.316 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:58:52.842 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L004_R1_001.fastq.gz' in 3.52 seconds 2022-11-05 22:58:52.849 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:58:52.854 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L003_R2_001.fastq.gz' in 3.64 seconds 2022-11-05 22:58:52.860 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:58:53.496 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4308ms 2022-11-05 22:58:53.506 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4203ms 2022-11-05 22:58:53.512 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:58:53.518 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'Undetermined_S0_L004_R2_001.fastq.gz' (356.019 MB). 2022-11-05 22:58:53.523 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:01.961 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'Undetermined_S0_L004_R2_001.fastq.gz' in 8.43 seconds 2022-11-05 22:59:01.971 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:02.657 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 9144ms 2022-11-05 22:59:02.667 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'Undetermined from 221104_NB502090_0144_AHCK5MBGXN'. 2022-11-05 22:59:02.679 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410318321/direct-upload-info 2022-11-05 22:59:02.687 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410318321/direct-upload-info attempt 1 2022-11-05 22:59:02.880 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410318321/direct-upload-info completed after 1 attempts and 192ms 2022-11-05 22:59:02.889 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'Undetermined from 221104_NB502090_0144_AHCK5MBGXN' 2022-11-05 22:59:02.897 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'Undetermined from 221104_NB502090_0144_AHCK5MBGXN'. 2022-11-05 22:59:03.557 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/AB1 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 22:59:03.717 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 22:59:03.727 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'AB1'. 2022-11-05 22:59:03.736 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 22:59:03.794 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 22:59:03.806 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 22:59:03.818 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 22:59:04.667 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 849ms 2022-11-05 22:59:04.677 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 22:59:04.685 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 22:59:04.758 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 72ms 2022-11-05 22:59:04.776 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 22:59:04.783 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "AB1", "SampleId": "AB1", "AppSessionId": "626289665", "SampleNumber": 5, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 67095327, "NumReadsPF": 67095327, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "16836112" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "16836112" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "16753632" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "16753632" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "16695356" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "16695356" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "16810227" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "16810227" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 22:59:04.789 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 22:59:04.799 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 22:59:05.864 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1065ms 2022-11-05 22:59:05.872 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'AB1' (410328129) 2022-11-05 22:59:05.881 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410328129/direct-upload-info 2022-11-05 22:59:05.887 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410328129/direct-upload-info attempt 1 2022-11-05 22:59:05.979 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410328129/direct-upload-info completed after 1 attempts and 92ms 2022-11-05 22:59:05.987 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 22:59:06.005 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:06.005 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:06.016 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L001_R2_001.fastq.gz' (1.552 GB). 2022-11-05 22:59:06.023 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L001_R1_001.fastq.gz' (1.542 GB). 2022-11-05 22:59:06.032 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:06.039 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:18.096 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L001_R2_001.fastq.gz' in 12.05 seconds 2022-11-05 22:59:18.107 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:18.802 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12797ms 2022-11-05 22:59:18.812 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:18.822 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L002_R1_001.fastq.gz' (1.54 GB). 2022-11-05 22:59:18.831 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:20.285 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L001_R1_001.fastq.gz' in 14.23 seconds 2022-11-05 22:59:20.291 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:20.964 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 14959ms 2022-11-05 22:59:20.984 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:20.998 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L002_R2_001.fastq.gz' (1.547 GB). 2022-11-05 22:59:21.008 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:30.973 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L002_R1_001.fastq.gz' in 12.14 seconds 2022-11-05 22:59:30.981 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:31.708 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12895ms 2022-11-05 22:59:31.722 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:31.731 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L003_R1_001.fastq.gz' (1.531 GB). 2022-11-05 22:59:31.738 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:32.969 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L002_R2_001.fastq.gz' in 11.95 seconds 2022-11-05 22:59:32.976 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:33.637 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12652ms 2022-11-05 22:59:33.642 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:33.649 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L003_R2_001.fastq.gz' (1.54 GB). 2022-11-05 22:59:33.655 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:44.404 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L003_R1_001.fastq.gz' in 12.66 seconds 2022-11-05 22:59:44.414 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:45.357 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 13635ms 2022-11-05 22:59:45.371 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:45.378 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L004_R1_001.fastq.gz' (1.544 GB). 2022-11-05 22:59:45.391 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 22:59:46.662 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L003_R2_001.fastq.gz' in 13.00 seconds 2022-11-05 22:59:46.667 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:47.334 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 13692ms 2022-11-05 22:59:57.623 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L004_R1_001.fastq.gz' in 12.22 seconds 2022-11-05 22:59:57.634 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 22:59:58.257 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12886ms 2022-11-05 22:59:58.268 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 22:59:58.277 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB1_S5_L004_R2_001.fastq.gz' (1.553 GB). 2022-11-05 22:59:58.283 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:09.999 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB1_S5_L004_R2_001.fastq.gz' in 11.71 seconds 2022-11-05 23:00:10.008 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:10.862 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12594ms 2022-11-05 23:00:10.877 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'AB1'. 2022-11-05 23:00:10.889 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410328129/direct-upload-info 2022-11-05 23:00:10.897 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410328129/direct-upload-info attempt 1 2022-11-05 23:00:11.049 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410328129/direct-upload-info completed after 1 attempts and 151ms 2022-11-05 23:00:11.060 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'AB1' 2022-11-05 23:00:11.071 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'AB1'. 2022-11-05 23:00:11.872 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/AB2 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:00:12.038 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:00:12.049 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'AB2'. 2022-11-05 23:00:12.058 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:00:12.158 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:00:12.170 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:00:12.188 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:00:12.998 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 810ms 2022-11-05 23:00:13.007 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:00:13.017 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:00:13.100 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 82ms 2022-11-05 23:00:13.130 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:00:13.141 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "AB2", "SampleId": "AB2", "AppSessionId": "626289665", "SampleNumber": 6, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 53089689, "NumReadsPF": 53089689, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "13315750" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "13315750" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "13253785" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "13253785" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "13216405" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "13216405" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "13303749" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "13303749" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:00:13.152 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:00:13.168 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:00:14.558 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1390ms 2022-11-05 23:00:14.569 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'AB2' (410317364) 2022-11-05 23:00:14.575 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410317364/direct-upload-info 2022-11-05 23:00:14.581 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410317364/direct-upload-info attempt 1 2022-11-05 23:00:14.737 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410317364/direct-upload-info completed after 1 attempts and 155ms 2022-11-05 23:00:14.749 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:00:14.771 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:14.772 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:14.783 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L001_R1_001.fastq.gz' (1.226 GB). 2022-11-05 23:00:14.790 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L001_R2_001.fastq.gz' (1.236 GB). 2022-11-05 23:00:14.801 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:14.808 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:24.589 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L001_R1_001.fastq.gz' in 9.77 seconds 2022-11-05 23:00:24.599 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:24.806 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L001_R2_001.fastq.gz' in 9.98 seconds 2022-11-05 23:00:24.815 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:25.231 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 10460ms 2022-11-05 23:00:25.240 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:25.249 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L002_R1_001.fastq.gz' (1.225 GB). 2022-11-05 23:00:25.257 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:25.467 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 10695ms 2022-11-05 23:00:25.478 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:25.489 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L002_R2_001.fastq.gz' (1.234 GB). 2022-11-05 23:00:25.496 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:35.096 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L002_R1_001.fastq.gz' in 9.83 seconds 2022-11-05 23:00:35.101 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:35.741 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 10501ms 2022-11-05 23:00:35.748 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:35.757 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L003_R1_001.fastq.gz' (1.218 GB). 2022-11-05 23:00:35.763 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:35.892 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L002_R2_001.fastq.gz' in 10.39 seconds 2022-11-05 23:00:35.902 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:36.600 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 11121ms 2022-11-05 23:00:36.606 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:36.616 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L003_R2_001.fastq.gz' (1.228 GB). 2022-11-05 23:00:36.624 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:45.824 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L003_R1_001.fastq.gz' in 10.06 seconds 2022-11-05 23:00:45.836 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:46.696 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 10948ms 2022-11-05 23:00:46.708 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:46.716 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L004_R1_001.fastq.gz' (1.228 GB). 2022-11-05 23:00:46.728 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:00:47.917 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L003_R2_001.fastq.gz' in 11.28 seconds 2022-11-05 23:00:47.925 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:48.710 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12104ms 2022-11-05 23:00:56.645 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L004_R1_001.fastq.gz' in 9.91 seconds 2022-11-05 23:00:56.654 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:00:57.300 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 10592ms 2022-11-05 23:00:57.311 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:00:57.321 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB2_S6_L004_R2_001.fastq.gz' (1.24 GB). 2022-11-05 23:00:57.331 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:07.300 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB2_S6_L004_R2_001.fastq.gz' in 9.96 seconds 2022-11-05 23:01:07.311 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:01:08.022 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 10710ms 2022-11-05 23:01:08.033 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'AB2'. 2022-11-05 23:01:08.165 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410317364/direct-upload-info 2022-11-05 23:01:08.176 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410317364/direct-upload-info attempt 1 2022-11-05 23:01:09.008 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410317364/direct-upload-info completed after 1 attempts and 831ms 2022-11-05 23:01:09.019 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'AB2' 2022-11-05 23:01:09.029 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'AB2'. 2022-11-05 23:01:09.847 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/AB3 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:01:10.030 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:01:10.042 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'AB3'. 2022-11-05 23:01:10.055 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:01:10.120 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:01:10.132 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:01:10.144 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:01:11.058 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 914ms 2022-11-05 23:01:11.070 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:01:11.081 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:01:11.205 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 124ms 2022-11-05 23:01:11.242 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:01:11.250 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "AB3", "SampleId": "AB3", "AppSessionId": "626289665", "SampleNumber": 7, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 67786386, "NumReadsPF": 67786386, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "17005116" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "17005116" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "16916976" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "16916976" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "16878547" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "16878547" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "16985747" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "16985747" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:01:11.262 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:01:11.280 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:01:12.507 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1226ms 2022-11-05 23:01:12.512 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'AB3' (410272815) 2022-11-05 23:01:12.524 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410272815/direct-upload-info 2022-11-05 23:01:12.533 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410272815/direct-upload-info attempt 1 2022-11-05 23:01:12.680 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410272815/direct-upload-info completed after 1 attempts and 146ms 2022-11-05 23:01:12.693 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:01:12.715 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:01:12.716 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:01:12.728 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L001_R1_001.fastq.gz' (1.561 GB). 2022-11-05 23:01:12.736 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L001_R2_001.fastq.gz' (1.568 GB). 2022-11-05 23:01:12.748 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:12.755 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:25.019 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L001_R1_001.fastq.gz' in 12.25 seconds 2022-11-05 23:01:25.025 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:01:25.332 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L001_R2_001.fastq.gz' in 12.56 seconds 2022-11-05 23:01:25.339 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:01:25.657 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12942ms 2022-11-05 23:01:25.668 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:01:25.673 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L002_R1_001.fastq.gz' (1.558 GB). 2022-11-05 23:01:25.679 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:25.960 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 13244ms 2022-11-05 23:01:25.971 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:01:25.979 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L002_R2_001.fastq.gz' (1.562 GB). 2022-11-05 23:01:25.987 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:38.036 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L002_R1_001.fastq.gz' in 12.35 seconds 2022-11-05 23:01:38.049 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:01:38.722 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 13053ms 2022-11-05 23:01:38.733 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:01:38.744 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L003_R1_001.fastq.gz' (1.551 GB). 2022-11-05 23:01:38.754 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:39.064 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L002_R2_001.fastq.gz' in 13.07 seconds 2022-11-05 23:01:39.071 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:01:39.730 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 13758ms 2022-11-05 23:01:39.736 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:01:39.748 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L003_R2_001.fastq.gz' (1.558 GB). 2022-11-05 23:01:39.754 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:51.778 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L003_R2_001.fastq.gz' in 12.02 seconds 2022-11-05 23:01:51.791 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:01:52.437 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L003_R1_001.fastq.gz' in 13.67 seconds 2022-11-05 23:01:52.449 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:01:52.471 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12734ms 2022-11-05 23:01:52.482 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:01:52.490 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L004_R1_001.fastq.gz' (1.563 GB). 2022-11-05 23:01:52.499 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:01:53.090 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 14356ms 2022-11-05 23:02:05.176 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L004_R1_001.fastq.gz' in 12.67 seconds 2022-11-05 23:02:05.187 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:05.903 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 13420ms 2022-11-05 23:02:05.908 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:05.914 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB3_S7_L004_R2_001.fastq.gz' (1.569 GB). 2022-11-05 23:02:05.921 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:18.925 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB3_S7_L004_R2_001.fastq.gz' in 13.00 seconds 2022-11-05 23:02:18.934 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:19.640 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 13732ms 2022-11-05 23:02:19.660 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'AB3'. 2022-11-05 23:02:19.673 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410272815/direct-upload-info 2022-11-05 23:02:19.684 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410272815/direct-upload-info attempt 1 2022-11-05 23:02:21.082 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410272815/direct-upload-info completed after 1 attempts and 1397ms 2022-11-05 23:02:21.094 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'AB3' 2022-11-05 23:02:21.105 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'AB3'. 2022-11-05 23:02:21.706 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/AB4 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:02:21.876 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:02:21.887 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'AB4'. 2022-11-05 23:02:21.901 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:02:21.962 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:02:21.976 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:02:21.990 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:02:22.733 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 743ms 2022-11-05 23:02:22.742 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:02:22.753 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:02:22.932 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 179ms 2022-11-05 23:02:22.966 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:02:22.978 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "AB4", "SampleId": "AB4", "AppSessionId": "626289665", "SampleNumber": 8, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 38742432, "NumReadsPF": 38742432, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "9721218" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "9721218" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "9675442" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "9675442" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "9638405" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "9638405" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "9707367" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "9707367" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:02:22.989 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:02:23.007 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:02:24.340 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1333ms 2022-11-05 23:02:24.349 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'AB4' (410299754) 2022-11-05 23:02:24.361 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410299754/direct-upload-info 2022-11-05 23:02:24.371 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410299754/direct-upload-info attempt 1 2022-11-05 23:02:24.587 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410299754/direct-upload-info completed after 1 attempts and 216ms 2022-11-05 23:02:24.601 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:02:24.626 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:24.626 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:24.635 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L001_R1_001.fastq.gz' (915.685 MB). 2022-11-05 23:02:24.644 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L001_R2_001.fastq.gz' (925.898 MB). 2022-11-05 23:02:24.655 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:24.664 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:32.570 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L001_R1_001.fastq.gz' in 7.89 seconds 2022-11-05 23:02:32.582 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:32.748 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L001_R2_001.fastq.gz' in 8.06 seconds 2022-11-05 23:02:32.756 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:33.270 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8644ms 2022-11-05 23:02:33.283 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:33.294 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L002_R1_001.fastq.gz' (914.637 MB). 2022-11-05 23:02:33.305 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:33.556 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8930ms 2022-11-05 23:02:33.564 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:33.574 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L002_R2_001.fastq.gz' (923.265 MB). 2022-11-05 23:02:33.585 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:41.122 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L002_R1_001.fastq.gz' in 7.81 seconds 2022-11-05 23:02:41.130 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:41.582 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L002_R2_001.fastq.gz' in 7.99 seconds 2022-11-05 23:02:41.587 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:41.911 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8628ms 2022-11-05 23:02:41.923 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:41.931 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L003_R1_001.fastq.gz' (908.729 MB). 2022-11-05 23:02:41.942 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:42.341 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8776ms 2022-11-05 23:02:42.352 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:42.357 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L003_R2_001.fastq.gz' (919.017 MB). 2022-11-05 23:02:42.364 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:49.685 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L003_R1_001.fastq.gz' in 7.73 seconds 2022-11-05 23:02:49.690 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:50.382 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8459ms 2022-11-05 23:02:50.392 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:50.401 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L004_R1_001.fastq.gz' (916.849 MB). 2022-11-05 23:02:50.412 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:02:54.111 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L003_R2_001.fastq.gz' in 11.74 seconds 2022-11-05 23:02:54.122 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:54.867 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12515ms 2022-11-05 23:02:58.088 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L004_R1_001.fastq.gz' in 7.67 seconds 2022-11-05 23:02:58.094 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:02:58.875 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8483ms 2022-11-05 23:02:58.882 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:02:58.892 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'AB4_S8_L004_R2_001.fastq.gz' (927.099 MB). 2022-11-05 23:02:58.901 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:06.538 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'AB4_S8_L004_R2_001.fastq.gz' in 7.63 seconds 2022-11-05 23:03:06.547 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:07.274 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8392ms 2022-11-05 23:03:07.286 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'AB4'. 2022-11-05 23:03:07.300 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410299754/direct-upload-info 2022-11-05 23:03:07.308 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410299754/direct-upload-info attempt 1 2022-11-05 23:03:07.513 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410299754/direct-upload-info completed after 1 attempts and 204ms 2022-11-05 23:03:07.525 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'AB4' 2022-11-05 23:03:07.536 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'AB4'. 2022-11-05 23:03:08.484 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/C1 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:03:08.650 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:03:08.661 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'C1'. 2022-11-05 23:03:08.668 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:03:08.724 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:03:08.733 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:03:08.746 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:03:09.874 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1128ms 2022-11-05 23:03:09.882 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:03:09.886 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:03:09.983 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 96ms 2022-11-05 23:03:10.021 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:03:10.028 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "C1", "SampleId": "C1", "AppSessionId": "626289665", "SampleNumber": 9, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 19939929, "NumReadsPF": 19939929, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "4998054" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "4998054" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "4998794" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "4998794" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "4943222" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "4943222" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "4999859" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "4999859" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:03:10.040 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:03:10.054 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:03:11.138 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1083ms 2022-11-05 23:03:11.150 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'C1' (410304772) 2022-11-05 23:03:11.162 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410304772/direct-upload-info 2022-11-05 23:03:11.171 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410304772/direct-upload-info attempt 1 2022-11-05 23:03:11.280 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410304772/direct-upload-info completed after 1 attempts and 109ms 2022-11-05 23:03:11.294 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:03:11.312 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:11.312 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:11.320 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L001_R1_001.fastq.gz' (467.95 MB). 2022-11-05 23:03:11.329 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L001_R2_001.fastq.gz' (485.611 MB). 2022-11-05 23:03:11.341 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:11.350 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:15.866 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L001_R2_001.fastq.gz' in 4.50 seconds 2022-11-05 23:03:15.877 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:15.983 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L001_R1_001.fastq.gz' in 4.63 seconds 2022-11-05 23:03:15.993 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:16.568 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5255ms 2022-11-05 23:03:16.580 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:16.588 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L002_R1_001.fastq.gz' (470.014 MB). 2022-11-05 23:03:16.597 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5285ms 2022-11-05 23:03:16.599 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:16.609 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:16.618 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L002_R2_001.fastq.gz' (487.32 MB). 2022-11-05 23:03:16.625 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:20.818 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L002_R1_001.fastq.gz' in 4.20 seconds 2022-11-05 23:03:20.826 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:20.843 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L002_R2_001.fastq.gz' in 4.21 seconds 2022-11-05 23:03:20.853 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:21.477 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4867ms 2022-11-05 23:03:21.487 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:21.496 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L003_R1_001.fastq.gz' (463.561 MB). 2022-11-05 23:03:21.505 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:21.545 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4965ms 2022-11-05 23:03:21.553 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:21.562 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L003_R2_001.fastq.gz' (481.199 MB). 2022-11-05 23:03:21.571 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:25.536 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L003_R1_001.fastq.gz' in 4.02 seconds 2022-11-05 23:03:25.544 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:26.124 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L003_R2_001.fastq.gz' in 4.55 seconds 2022-11-05 23:03:26.136 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:26.152 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4665ms 2022-11-05 23:03:26.158 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:26.164 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L004_R1_001.fastq.gz' (469.799 MB). 2022-11-05 23:03:26.170 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:26.712 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5158ms 2022-11-05 23:03:31.241 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L004_R1_001.fastq.gz' in 5.06 seconds 2022-11-05 23:03:31.252 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:31.926 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5767ms 2022-11-05 23:03:31.937 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:31.948 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C1_S9_L004_R2_001.fastq.gz' (488.264 MB). 2022-11-05 23:03:31.960 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:36.370 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C1_S9_L004_R2_001.fastq.gz' in 4.40 seconds 2022-11-05 23:03:36.382 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:37.021 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5084ms 2022-11-05 23:03:37.032 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'C1'. 2022-11-05 23:03:37.045 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410304772/direct-upload-info 2022-11-05 23:03:37.057 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410304772/direct-upload-info attempt 1 2022-11-05 23:03:37.224 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410304772/direct-upload-info completed after 1 attempts and 166ms 2022-11-05 23:03:37.233 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'C1' 2022-11-05 23:03:37.241 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'C1'. 2022-11-05 23:03:37.709 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/C2 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:03:37.873 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:03:37.886 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'C2'. 2022-11-05 23:03:37.893 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:03:37.979 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:03:37.992 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:03:38.003 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:03:38.940 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 936ms 2022-11-05 23:03:38.950 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:03:38.960 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:03:39.486 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 526ms 2022-11-05 23:03:39.520 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:03:39.531 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "C2", "SampleId": "C2", "AppSessionId": "626289665", "SampleNumber": 10, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 20207001, "NumReadsPF": 20207001, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "5060283" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "5060283" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "5063388" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "5063388" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "5014520" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "5014520" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "5068810" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "5068810" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:03:39.541 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:03:39.558 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:03:41.042 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1483ms 2022-11-05 23:03:41.052 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'C2' (410297808) 2022-11-05 23:03:41.059 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410297808/direct-upload-info 2022-11-05 23:03:41.070 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410297808/direct-upload-info attempt 1 2022-11-05 23:03:41.165 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410297808/direct-upload-info completed after 1 attempts and 94ms 2022-11-05 23:03:41.179 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:03:41.202 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:41.202 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:41.211 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L001_R2_001.fastq.gz' (481.412 MB). 2022-11-05 23:03:41.218 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L001_R1_001.fastq.gz' (472.635 MB). 2022-11-05 23:03:41.228 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:41.238 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:45.595 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L001_R2_001.fastq.gz' in 4.35 seconds 2022-11-05 23:03:45.601 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:45.713 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L001_R1_001.fastq.gz' in 4.46 seconds 2022-11-05 23:03:45.724 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:46.330 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5128ms 2022-11-05 23:03:46.335 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:46.344 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L002_R1_001.fastq.gz' (474.976 MB). 2022-11-05 23:03:46.353 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:46.425 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5223ms 2022-11-05 23:03:46.437 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:46.445 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L002_R2_001.fastq.gz' (482.773 MB). 2022-11-05 23:03:46.456 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:50.985 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L002_R1_001.fastq.gz' in 4.63 seconds 2022-11-05 23:03:50.995 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:51.104 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L002_R2_001.fastq.gz' in 4.64 seconds 2022-11-05 23:03:51.113 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:51.693 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5357ms 2022-11-05 23:03:51.705 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:51.711 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L003_R1_001.fastq.gz' (469.183 MB). 2022-11-05 23:03:51.712 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5275ms 2022-11-05 23:03:51.729 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:51.719 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:51.737 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L003_R2_001.fastq.gz' (477.814 MB). 2022-11-05 23:03:51.748 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:56.057 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L003_R1_001.fastq.gz' in 4.31 seconds 2022-11-05 23:03:56.066 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:56.173 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L003_R2_001.fastq.gz' in 4.42 seconds 2022-11-05 23:03:56.183 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:03:56.748 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5042ms 2022-11-05 23:03:56.753 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:03:56.760 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L004_R1_001.fastq.gz' (475.186 MB). 2022-11-05 23:03:56.765 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:03:56.827 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5097ms 2022-11-05 23:04:05.389 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L004_R1_001.fastq.gz' in 8.62 seconds 2022-11-05 23:04:05.399 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:06.073 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 9319ms 2022-11-05 23:04:06.084 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:06.095 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C2_S10_L004_R2_001.fastq.gz' (483.794 MB). 2022-11-05 23:04:06.106 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:10.545 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C2_S10_L004_R2_001.fastq.gz' in 4.43 seconds 2022-11-05 23:04:10.557 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:11.250 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5166ms 2022-11-05 23:04:11.262 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'C2'. 2022-11-05 23:04:11.275 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410297808/direct-upload-info 2022-11-05 23:04:11.286 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410297808/direct-upload-info attempt 1 2022-11-05 23:04:11.771 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410297808/direct-upload-info completed after 1 attempts and 485ms 2022-11-05 23:04:11.783 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'C2' 2022-11-05 23:04:11.794 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'C2'. 2022-11-05 23:04:12.497 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/C3 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:04:12.661 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:04:12.674 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'C3'. 2022-11-05 23:04:12.687 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:04:12.745 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:04:12.755 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:04:12.768 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:04:13.778 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1009ms 2022-11-05 23:04:13.791 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:04:13.795 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:04:13.887 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 91ms 2022-11-05 23:04:13.920 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:04:13.930 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "C3", "SampleId": "C3", "AppSessionId": "626289665", "SampleNumber": 11, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 18065581, "NumReadsPF": 18065581, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "4530496" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "4530496" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "4519447" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "4519447" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "4482109" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "4482109" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "4533529" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "4533529" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:04:13.942 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:04:13.957 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:04:15.328 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1371ms 2022-11-05 23:04:15.340 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'C3' (410328134) 2022-11-05 23:04:15.346 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410328134/direct-upload-info 2022-11-05 23:04:15.357 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410328134/direct-upload-info attempt 1 2022-11-05 23:04:15.492 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410328134/direct-upload-info completed after 1 attempts and 135ms 2022-11-05 23:04:15.504 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:04:15.521 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:15.522 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:15.533 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L001_R1_001.fastq.gz' (418.04 MB). 2022-11-05 23:04:15.540 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L001_R2_001.fastq.gz' (427.788 MB). 2022-11-05 23:04:15.552 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:15.561 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:19.723 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L001_R1_001.fastq.gz' in 4.15 seconds 2022-11-05 23:04:19.730 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:19.735 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L001_R2_001.fastq.gz' in 4.15 seconds 2022-11-05 23:04:19.741 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:20.393 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4872ms 2022-11-05 23:04:20.398 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4876ms 2022-11-05 23:04:20.402 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:20.410 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:20.417 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L002_R1_001.fastq.gz' (419.061 MB). 2022-11-05 23:04:20.425 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L002_R2_001.fastq.gz' (428.168 MB). 2022-11-05 23:04:20.434 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:20.441 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:24.629 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L002_R2_001.fastq.gz' in 4.18 seconds 2022-11-05 23:04:24.638 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:24.670 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L002_R1_001.fastq.gz' in 4.22 seconds 2022-11-05 23:04:24.680 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:25.264 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4854ms 2022-11-05 23:04:25.275 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:25.286 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L003_R1_001.fastq.gz' (414.471 MB). 2022-11-05 23:04:25.297 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:25.330 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4927ms 2022-11-05 23:04:25.338 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:25.345 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L003_R2_001.fastq.gz' (424.085 MB). 2022-11-05 23:04:25.355 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:29.798 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L003_R2_001.fastq.gz' in 4.43 seconds 2022-11-05 23:04:29.804 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:30.465 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5127ms 2022-11-05 23:04:30.474 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:30.485 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L004_R1_001.fastq.gz' (420.238 MB). 2022-11-05 23:04:30.497 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:30.907 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L003_R1_001.fastq.gz' in 5.60 seconds 2022-11-05 23:04:30.918 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:31.704 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6429ms 2022-11-05 23:04:36.254 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L004_R1_001.fastq.gz' in 5.75 seconds 2022-11-05 23:04:36.264 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:37.035 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6560ms 2022-11-05 23:04:37.046 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:37.057 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'C3_S11_L004_R2_001.fastq.gz' (429.966 MB). 2022-11-05 23:04:37.067 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:41.245 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'C3_S11_L004_R2_001.fastq.gz' in 4.17 seconds 2022-11-05 23:04:41.256 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:41.940 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4894ms 2022-11-05 23:04:41.946 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'C3'. 2022-11-05 23:04:41.960 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410328134/direct-upload-info 2022-11-05 23:04:41.971 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410328134/direct-upload-info attempt 1 2022-11-05 23:04:42.258 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410328134/direct-upload-info completed after 1 attempts and 286ms 2022-11-05 23:04:42.263 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'C3' 2022-11-05 23:04:42.274 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'C3'. 2022-11-05 23:04:42.719 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/FL1 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:04:42.888 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:04:42.894 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'FL1'. 2022-11-05 23:04:42.901 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:04:42.956 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:04:42.963 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:04:42.970 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:04:43.898 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 927ms 2022-11-05 23:04:43.910 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:04:43.920 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:04:44.007 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 87ms 2022-11-05 23:04:44.042 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:04:44.047 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "FL1", "SampleId": "FL1", "AppSessionId": "626289665", "SampleNumber": 1, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 30058093, "NumReadsPF": 30058093, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "7560624" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "7560624" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "7501067" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "7501067" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "7472583" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "7472583" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "7523819" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "7523819" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:04:44.059 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:04:44.076 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:04:45.835 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1759ms 2022-11-05 23:04:45.847 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'FL1' (410325208) 2022-11-05 23:04:45.859 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410325208/direct-upload-info 2022-11-05 23:04:45.868 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410325208/direct-upload-info attempt 1 2022-11-05 23:04:45.961 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410325208/direct-upload-info completed after 1 attempts and 92ms 2022-11-05 23:04:45.975 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:04:45.996 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:45.996 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:46.009 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L001_R1_001.fastq.gz' (701.757 MB). 2022-11-05 23:04:46.016 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L001_R2_001.fastq.gz' (705.957 MB). 2022-11-05 23:04:46.029 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:46.037 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:52.045 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L001_R2_001.fastq.gz' in 5.99 seconds 2022-11-05 23:04:52.057 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:52.195 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L001_R1_001.fastq.gz' in 6.15 seconds 2022-11-05 23:04:52.205 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:52.762 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6765ms 2022-11-05 23:04:52.773 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:52.783 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L002_R1_001.fastq.gz' (698.926 MB). 2022-11-05 23:04:52.794 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:52.878 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6881ms 2022-11-05 23:04:52.887 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:52.896 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L002_R2_001.fastq.gz' (701.904 MB). 2022-11-05 23:04:52.903 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:58.515 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L002_R2_001.fastq.gz' in 5.60 seconds 2022-11-05 23:04:58.521 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:59.016 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L002_R1_001.fastq.gz' in 6.21 seconds 2022-11-05 23:04:59.026 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:04:59.145 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6257ms 2022-11-05 23:04:59.153 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:59.160 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L003_R1_001.fastq.gz' (694.623 MB). 2022-11-05 23:04:59.166 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:04:59.659 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6886ms 2022-11-05 23:04:59.670 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:04:59.676 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L003_R2_001.fastq.gz' (698.707 MB). 2022-11-05 23:04:59.684 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:05.251 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L003_R1_001.fastq.gz' in 6.08 seconds 2022-11-05 23:05:05.262 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:05.456 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L003_R2_001.fastq.gz' in 5.77 seconds 2022-11-05 23:05:05.462 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:05.957 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6803ms 2022-11-05 23:05:05.969 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:05.976 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L004_R1_001.fastq.gz' (700.634 MB). 2022-11-05 23:05:05.987 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:06.150 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6479ms 2022-11-05 23:05:11.585 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L004_R1_001.fastq.gz' in 5.59 seconds 2022-11-05 23:05:11.595 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:12.284 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6315ms 2022-11-05 23:05:12.294 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:12.303 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL1_S1_L004_R2_001.fastq.gz' (704.504 MB). 2022-11-05 23:05:12.314 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:23.123 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL1_S1_L004_R2_001.fastq.gz' in 10.80 seconds 2022-11-05 23:05:23.130 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:23.784 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 11490ms 2022-11-05 23:05:23.797 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'FL1'. 2022-11-05 23:05:23.813 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410325208/direct-upload-info 2022-11-05 23:05:23.822 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410325208/direct-upload-info attempt 1 2022-11-05 23:05:23.982 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410325208/direct-upload-info completed after 1 attempts and 160ms 2022-11-05 23:05:23.994 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'FL1' 2022-11-05 23:05:24.005 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'FL1'. 2022-11-05 23:05:24.944 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/FL2 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:05:25.108 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:05:25.120 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'FL2'. 2022-11-05 23:05:25.132 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:05:25.191 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:05:25.201 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:05:25.213 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:05:26.230 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1016ms 2022-11-05 23:05:26.243 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:05:26.253 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:05:26.389 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 135ms 2022-11-05 23:05:26.427 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:05:26.438 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "FL2", "SampleId": "FL2", "AppSessionId": "626289665", "SampleNumber": 2, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 64857073, "NumReadsPF": 64857073, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "16274075" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "16274075" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "16192733" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "16192733" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "16154119" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "16154119" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "16236146" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "16236146" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:05:26.449 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:05:26.466 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:05:28.591 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 2124ms 2022-11-05 23:05:28.603 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'FL2' (410309515) 2022-11-05 23:05:28.614 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410309515/direct-upload-info 2022-11-05 23:05:28.626 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410309515/direct-upload-info attempt 1 2022-11-05 23:05:28.749 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410309515/direct-upload-info completed after 1 attempts and 123ms 2022-11-05 23:05:28.761 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:05:28.782 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:28.782 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:28.794 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L001_R2_001.fastq.gz' (1.503 GB). 2022-11-05 23:05:28.801 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L001_R1_001.fastq.gz' (1.492 GB). 2022-11-05 23:05:28.812 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:28.820 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:40.602 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L001_R1_001.fastq.gz' in 11.76 seconds 2022-11-05 23:05:40.612 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:41.318 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12536ms 2022-11-05 23:05:41.331 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:41.342 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L002_R1_001.fastq.gz' (1.49 GB). 2022-11-05 23:05:41.353 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:42.344 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L001_R2_001.fastq.gz' in 13.51 seconds 2022-11-05 23:05:42.350 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:43.018 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 14235ms 2022-11-05 23:05:43.030 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:43.042 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L002_R2_001.fastq.gz' (1.5 GB). 2022-11-05 23:05:43.047 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:53.450 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L002_R1_001.fastq.gz' in 12.09 seconds 2022-11-05 23:05:53.458 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:54.220 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12889ms 2022-11-05 23:05:54.231 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:54.241 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L003_R1_001.fastq.gz' (1.483 GB). 2022-11-05 23:05:54.251 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:05:54.494 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L002_R2_001.fastq.gz' in 11.44 seconds 2022-11-05 23:05:54.505 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:05:55.067 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12037ms 2022-11-05 23:05:55.075 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:05:55.081 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L003_R2_001.fastq.gz' (1.494 GB). 2022-11-05 23:05:55.085 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:06.247 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L003_R1_001.fastq.gz' in 11.99 seconds 2022-11-05 23:06:06.257 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:06.979 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12747ms 2022-11-05 23:06:06.990 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:07.000 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L004_R1_001.fastq.gz' (1.493 GB). 2022-11-05 23:06:07.007 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:07.153 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L003_R2_001.fastq.gz' in 12.04 seconds 2022-11-05 23:06:07.162 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:07.840 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12765ms 2022-11-05 23:06:18.999 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L004_R1_001.fastq.gz' in 11.98 seconds 2022-11-05 23:06:19.009 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:19.673 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12682ms 2022-11-05 23:06:19.682 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:19.691 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL2_S2_L004_R2_001.fastq.gz' (1.505 GB). 2022-11-05 23:06:19.699 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:33.816 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL2_S2_L004_R2_001.fastq.gz' in 14.11 seconds 2022-11-05 23:06:33.827 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:34.584 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 14901ms 2022-11-05 23:06:34.593 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'FL2'. 2022-11-05 23:06:34.608 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410309515/direct-upload-info 2022-11-05 23:06:34.617 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410309515/direct-upload-info attempt 1 2022-11-05 23:06:34.822 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410309515/direct-upload-info completed after 1 attempts and 204ms 2022-11-05 23:06:34.833 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'FL2' 2022-11-05 23:06:34.843 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'FL2'. 2022-11-05 23:06:35.642 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/FL3 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:06:35.808 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:06:35.814 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'FL3'. 2022-11-05 23:06:35.828 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:06:35.914 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:06:35.928 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:06:35.941 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:06:36.778 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 837ms 2022-11-05 23:06:36.790 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:06:36.801 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:06:36.918 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 116ms 2022-11-05 23:06:36.954 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:06:36.963 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "FL3", "SampleId": "FL3", "AppSessionId": "626289665", "SampleNumber": 3, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 35118112, "NumReadsPF": 35118112, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "8913522" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "8913522" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "8779596" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "8779596" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "8708578" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "8708578" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "8716416" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "8716416" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:06:36.971 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:06:36.986 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:06:37.973 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 986ms 2022-11-05 23:06:37.985 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'FL3' (410272821) 2022-11-05 23:06:37.993 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410272821/direct-upload-info 2022-11-05 23:06:38.003 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410272821/direct-upload-info attempt 1 2022-11-05 23:06:38.198 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410272821/direct-upload-info completed after 1 attempts and 195ms 2022-11-05 23:06:38.211 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:06:38.231 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:38.231 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:38.244 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L001_R2_001.fastq.gz' (858.697 MB). 2022-11-05 23:06:38.253 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L001_R1_001.fastq.gz' (856.318 MB). 2022-11-05 23:06:38.265 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:38.273 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:45.529 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L001_R2_001.fastq.gz' in 7.25 seconds 2022-11-05 23:06:45.542 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:46.054 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L001_R1_001.fastq.gz' in 7.76 seconds 2022-11-05 23:06:46.063 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:46.193 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 7962ms 2022-11-05 23:06:46.201 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:46.210 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L002_R1_001.fastq.gz' (846.334 MB). 2022-11-05 23:06:46.221 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:46.746 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8515ms 2022-11-05 23:06:46.756 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:46.764 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L002_R2_001.fastq.gz' (848.168 MB). 2022-11-05 23:06:46.771 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:53.516 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L002_R1_001.fastq.gz' in 7.29 seconds 2022-11-05 23:06:53.527 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:54.134 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L002_R2_001.fastq.gz' in 7.36 seconds 2022-11-05 23:06:54.140 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:06:54.169 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 7967ms 2022-11-05 23:06:54.180 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:54.188 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L003_R1_001.fastq.gz' (838.511 MB). 2022-11-05 23:06:54.194 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:06:54.784 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 8028ms 2022-11-05 23:06:54.792 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:06:54.800 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L003_R2_001.fastq.gz' (840.78 MB). 2022-11-05 23:06:54.807 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:00.793 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L003_R1_001.fastq.gz' in 6.59 seconds 2022-11-05 23:07:00.804 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:01.549 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 7369ms 2022-11-05 23:07:01.559 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:01.570 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L004_R1_001.fastq.gz' (840.487 MB). 2022-11-05 23:07:01.578 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:01.772 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L003_R2_001.fastq.gz' in 6.96 seconds 2022-11-05 23:07:01.781 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:02.447 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 7655ms 2022-11-05 23:07:08.600 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L004_R1_001.fastq.gz' in 7.02 seconds 2022-11-05 23:07:08.611 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:09.329 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 7769ms 2022-11-05 23:07:09.334 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:09.342 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL3_S3_L004_R2_001.fastq.gz' (843.414 MB). 2022-11-05 23:07:09.353 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:17.723 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL3_S3_L004_R2_001.fastq.gz' in 8.36 seconds 2022-11-05 23:07:17.730 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:18.464 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 9129ms 2022-11-05 23:07:18.473 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'FL3'. 2022-11-05 23:07:18.486 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410272821/direct-upload-info 2022-11-05 23:07:18.496 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410272821/direct-upload-info attempt 1 2022-11-05 23:07:18.606 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410272821/direct-upload-info completed after 1 attempts and 109ms 2022-11-05 23:07:18.615 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'FL3' 2022-11-05 23:07:18.620 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'FL3'. 2022-11-05 23:07:19.449 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/FL4 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:07:19.616 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:07:19.627 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'FL4'. 2022-11-05 23:07:19.639 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:07:19.695 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:07:19.709 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:07:19.721 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:07:20.743 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1021ms 2022-11-05 23:07:20.751 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:07:20.758 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:07:20.874 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 115ms 2022-11-05 23:07:20.898 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:07:20.906 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "FL4", "SampleId": "FL4", "AppSessionId": "626289665", "SampleNumber": 4, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 59100651, "NumReadsPF": 59100651, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "14827343" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "14827343" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "14759617" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "14759617" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "14715658" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "14715658" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "14798033" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "14798033" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:07:20.917 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:07:20.935 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:07:22.191 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1255ms 2022-11-05 23:07:22.201 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'FL4' (410332014) 2022-11-05 23:07:22.209 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410332014/direct-upload-info 2022-11-05 23:07:22.219 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410332014/direct-upload-info attempt 1 2022-11-05 23:07:22.302 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410332014/direct-upload-info completed after 1 attempts and 83ms 2022-11-05 23:07:22.314 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:07:22.335 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:22.335 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:22.347 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L001_R2_001.fastq.gz' (1.37 GB). 2022-11-05 23:07:22.352 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L001_R1_001.fastq.gz' (1.365 GB). 2022-11-05 23:07:22.360 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:22.369 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:33.677 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L001_R1_001.fastq.gz' in 11.29 seconds 2022-11-05 23:07:33.682 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:34.007 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L001_R2_001.fastq.gz' in 11.63 seconds 2022-11-05 23:07:34.013 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:34.408 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12072ms 2022-11-05 23:07:34.417 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:34.424 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L002_R1_001.fastq.gz' (1.364 GB). 2022-11-05 23:07:34.431 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:34.680 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12344ms 2022-11-05 23:07:34.691 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:34.699 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L002_R2_001.fastq.gz' (1.366 GB). 2022-11-05 23:07:34.710 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:45.352 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L002_R1_001.fastq.gz' in 10.91 seconds 2022-11-05 23:07:45.357 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:45.975 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 11557ms 2022-11-05 23:07:45.981 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:45.991 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L003_R1_001.fastq.gz' (1.356 GB). 2022-11-05 23:07:46.002 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:46.021 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L002_R2_001.fastq.gz' in 11.30 seconds 2022-11-05 23:07:46.031 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:46.793 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12102ms 2022-11-05 23:07:46.804 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:46.811 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L003_R2_001.fastq.gz' (1.361 GB). 2022-11-05 23:07:46.824 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:57.336 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L003_R1_001.fastq.gz' in 11.32 seconds 2022-11-05 23:07:57.348 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:57.832 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L003_R2_001.fastq.gz' in 11.00 seconds 2022-11-05 23:07:57.839 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:07:57.930 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 11949ms 2022-11-05 23:07:57.939 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:07:57.945 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L004_R1_001.fastq.gz' (1.366 GB). 2022-11-05 23:07:57.955 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:07:58.473 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 11669ms 2022-11-05 23:08:09.513 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L004_R1_001.fastq.gz' in 11.55 seconds 2022-11-05 23:08:09.524 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:10.280 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 12341ms 2022-11-05 23:08:10.292 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:10.302 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'FL4_S4_L004_R2_001.fastq.gz' (1.371 GB). 2022-11-05 23:08:10.312 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:21.405 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'FL4_S4_L004_R2_001.fastq.gz' in 11.08 seconds 2022-11-05 23:08:21.415 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:22.123 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 11831ms 2022-11-05 23:08:22.133 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'FL4'. 2022-11-05 23:08:22.150 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410332014/direct-upload-info 2022-11-05 23:08:22.159 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410332014/direct-upload-info attempt 1 2022-11-05 23:08:22.376 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410332014/direct-upload-info completed after 1 attempts and 216ms 2022-11-05 23:08:22.386 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'FL4' 2022-11-05 23:08:22.394 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'FL4'. 2022-11-05 23:08:23.236 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/PR1 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:08:23.397 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:08:23.407 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'PR1'. 2022-11-05 23:08:23.414 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:08:23.473 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:08:23.480 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:08:23.492 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:08:24.405 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 912ms 2022-11-05 23:08:24.413 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:08:24.419 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:08:24.543 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 123ms 2022-11-05 23:08:24.579 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:08:24.585 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "PR1", "SampleId": "PR1", "AppSessionId": "626289665", "SampleNumber": 15, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 20103287, "NumReadsPF": 20103287, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "5034582" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "5034582" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "5038476" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "5038476" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "4984753" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "4984753" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "5045476" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "5045476" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:08:24.596 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:08:24.613 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:08:26.042 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1428ms 2022-11-05 23:08:26.052 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'PR1' (410333950) 2022-11-05 23:08:26.066 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410333950/direct-upload-info 2022-11-05 23:08:26.078 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410333950/direct-upload-info attempt 1 2022-11-05 23:08:26.323 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410333950/direct-upload-info completed after 1 attempts and 245ms 2022-11-05 23:08:26.336 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:08:26.359 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:26.359 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:26.372 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L001_R1_001.fastq.gz' (474.101 MB). 2022-11-05 23:08:26.377 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L001_R2_001.fastq.gz' (481.402 MB). 2022-11-05 23:08:26.387 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:26.395 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:30.815 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L001_R2_001.fastq.gz' in 4.40 seconds 2022-11-05 23:08:30.825 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:31.096 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L001_R1_001.fastq.gz' in 4.69 seconds 2022-11-05 23:08:31.106 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:31.496 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5137ms 2022-11-05 23:08:31.502 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:31.513 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L002_R1_001.fastq.gz' (476.385 MB). 2022-11-05 23:08:31.522 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:31.727 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5368ms 2022-11-05 23:08:31.734 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:31.745 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L002_R2_001.fastq.gz' (482.758 MB). 2022-11-05 23:08:31.752 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:35.930 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L002_R1_001.fastq.gz' in 4.40 seconds 2022-11-05 23:08:35.941 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:35.999 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L002_R2_001.fastq.gz' in 4.24 seconds 2022-11-05 23:08:36.007 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:36.604 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5102ms 2022-11-05 23:08:36.614 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:36.622 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L003_R1_001.fastq.gz' (470.073 MB). 2022-11-05 23:08:36.631 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:36.652 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4917ms 2022-11-05 23:08:36.667 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:36.676 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L003_R2_001.fastq.gz' (477.348 MB). 2022-11-05 23:08:36.685 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:41.125 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L003_R1_001.fastq.gz' in 4.48 seconds 2022-11-05 23:08:41.135 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:41.129 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L003_R2_001.fastq.gz' in 4.43 seconds 2022-11-05 23:08:41.147 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:41.734 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5120ms 2022-11-05 23:08:41.741 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:41.750 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L004_R1_001.fastq.gz' (476.737 MB). 2022-11-05 23:08:41.757 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:41.771 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5103ms 2022-11-05 23:08:45.831 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L004_R1_001.fastq.gz' in 4.07 seconds 2022-11-05 23:08:45.839 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:46.515 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4773ms 2022-11-05 23:08:46.526 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:46.537 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR1_S15_L004_R2_001.fastq.gz' (483.962 MB). 2022-11-05 23:08:46.542 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:51.161 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR1_S15_L004_R2_001.fastq.gz' in 4.61 seconds 2022-11-05 23:08:51.171 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:51.889 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5362ms 2022-11-05 23:08:51.901 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'PR1'. 2022-11-05 23:08:51.916 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410333950/direct-upload-info 2022-11-05 23:08:51.927 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410333950/direct-upload-info attempt 1 2022-11-05 23:08:52.093 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410333950/direct-upload-info completed after 1 attempts and 165ms 2022-11-05 23:08:52.104 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'PR1' 2022-11-05 23:08:52.113 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'PR1'. 2022-11-05 23:08:52.973 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/PR2 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:08:53.134 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:08:53.145 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'PR2'. 2022-11-05 23:08:53.157 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:08:53.218 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:08:53.228 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:08:53.241 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:08:54.131 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 890ms 2022-11-05 23:08:54.143 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:08:54.147 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:08:54.240 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 92ms 2022-11-05 23:08:54.275 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:08:54.284 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "PR2", "SampleId": "PR2", "AppSessionId": "626289665", "SampleNumber": 16, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 14987267, "NumReadsPF": 14987267, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "3751221" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "3751221" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "3759800" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "3759800" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "3715301" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "3715301" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "3760945" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "3760945" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:08:54.293 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:08:54.306 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:08:55.816 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1509ms 2022-11-05 23:08:55.825 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'PR2' (410296774) 2022-11-05 23:08:55.832 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410296774/direct-upload-info 2022-11-05 23:08:55.838 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410296774/direct-upload-info attempt 1 2022-11-05 23:08:55.948 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410296774/direct-upload-info completed after 1 attempts and 110ms 2022-11-05 23:08:55.960 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:08:55.979 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:55.979 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:08:55.988 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L001_R1_001.fastq.gz' (355.237 MB). 2022-11-05 23:08:55.995 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L001_R2_001.fastq.gz' (361.033 MB). 2022-11-05 23:08:56.003 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:56.013 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:08:59.345 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L001_R1_001.fastq.gz' in 3.32 seconds 2022-11-05 23:08:59.358 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:08:59.727 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L001_R2_001.fastq.gz' in 3.70 seconds 2022-11-05 23:08:59.738 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:00.048 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4069ms 2022-11-05 23:09:00.057 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:00.065 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L002_R1_001.fastq.gz' (357.398 MB). 2022-11-05 23:09:00.071 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:00.427 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4447ms 2022-11-05 23:09:00.436 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:00.441 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L002_R2_001.fastq.gz' (362.782 MB). 2022-11-05 23:09:00.450 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:03.402 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L002_R1_001.fastq.gz' in 3.32 seconds 2022-11-05 23:09:03.417 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:04.031 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L002_R2_001.fastq.gz' in 3.57 seconds 2022-11-05 23:09:04.036 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:04.100 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4042ms 2022-11-05 23:09:04.111 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:04.121 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L003_R1_001.fastq.gz' (352.354 MB). 2022-11-05 23:09:04.126 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:04.703 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4267ms 2022-11-05 23:09:04.711 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:04.722 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L003_R2_001.fastq.gz' (358.055 MB). 2022-11-05 23:09:04.730 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:07.655 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L003_R1_001.fastq.gz' in 3.52 seconds 2022-11-05 23:09:07.667 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:08.270 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L003_R2_001.fastq.gz' in 3.53 seconds 2022-11-05 23:09:08.277 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:08.310 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4199ms 2022-11-05 23:09:08.321 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:08.331 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L004_R1_001.fastq.gz' (357.285 MB). 2022-11-05 23:09:08.341 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:08.932 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4220ms 2022-11-05 23:09:11.874 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L004_R1_001.fastq.gz' in 3.52 seconds 2022-11-05 23:09:11.883 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:12.524 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4203ms 2022-11-05 23:09:12.536 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:12.546 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR2_S16_L004_R2_001.fastq.gz' (363.356 MB). 2022-11-05 23:09:12.551 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:16.031 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR2_S16_L004_R2_001.fastq.gz' in 3.47 seconds 2022-11-05 23:09:16.037 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:16.683 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4147ms 2022-11-05 23:09:16.689 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'PR2'. 2022-11-05 23:09:16.703 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410296774/direct-upload-info 2022-11-05 23:09:16.712 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410296774/direct-upload-info attempt 1 2022-11-05 23:09:16.893 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410296774/direct-upload-info completed after 1 attempts and 180ms 2022-11-05 23:09:16.900 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'PR2' 2022-11-05 23:09:16.905 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'PR2'. 2022-11-05 23:09:17.721 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/PR3 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:09:17.887 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:09:17.900 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'PR3'. 2022-11-05 23:09:17.912 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:09:17.970 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:09:17.981 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:09:17.992 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:09:18.724 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 731ms 2022-11-05 23:09:18.735 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:09:18.744 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:09:18.834 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 90ms 2022-11-05 23:09:18.856 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:09:18.867 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "PR3", "SampleId": "PR3", "AppSessionId": "626289665", "SampleNumber": 17, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 17364806, "NumReadsPF": 17364806, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "4344963" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "4344963" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "4356114" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "4356114" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "4306093" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "4306093" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "4357636" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "4357636" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:09:18.878 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:09:18.892 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:09:20.106 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1214ms 2022-11-05 23:09:20.116 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'PR3' (410330131) 2022-11-05 23:09:20.127 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410330131/direct-upload-info 2022-11-05 23:09:20.136 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410330131/direct-upload-info attempt 1 2022-11-05 23:09:20.224 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410330131/direct-upload-info completed after 1 attempts and 88ms 2022-11-05 23:09:20.233 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:09:20.254 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:20.254 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:20.267 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L001_R2_001.fastq.gz' (416.407 MB). 2022-11-05 23:09:20.275 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L001_R1_001.fastq.gz' (410.018 MB). 2022-11-05 23:09:20.285 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:20.292 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:24.267 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L001_R1_001.fastq.gz' in 3.96 seconds 2022-11-05 23:09:24.275 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:24.285 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L001_R2_001.fastq.gz' in 3.99 seconds 2022-11-05 23:09:24.297 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:24.932 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4677ms 2022-11-05 23:09:24.939 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:24.949 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L002_R1_001.fastq.gz' (412.71 MB). 2022-11-05 23:09:24.958 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:24.965 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4711ms 2022-11-05 23:09:24.972 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:24.977 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L002_R2_001.fastq.gz' (418.406 MB). 2022-11-05 23:09:24.985 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:29.094 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L002_R1_001.fastq.gz' in 4.13 seconds 2022-11-05 23:09:29.103 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:29.120 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L002_R2_001.fastq.gz' in 4.13 seconds 2022-11-05 23:09:29.128 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:29.720 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4780ms 2022-11-05 23:09:29.727 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:29.735 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L003_R1_001.fastq.gz' (406.966 MB). 2022-11-05 23:09:29.746 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:29.783 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4810ms 2022-11-05 23:09:29.794 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:29.798 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L003_R2_001.fastq.gz' (413.314 MB). 2022-11-05 23:09:29.809 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:33.457 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L003_R1_001.fastq.gz' in 3.70 seconds 2022-11-05 23:09:33.468 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:34.026 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L003_R2_001.fastq.gz' in 4.21 seconds 2022-11-05 23:09:34.037 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:34.151 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4423ms 2022-11-05 23:09:34.161 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:34.170 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L004_R1_001.fastq.gz' (412.533 MB). 2022-11-05 23:09:34.182 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:34.650 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4856ms 2022-11-05 23:09:38.841 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L004_R1_001.fastq.gz' in 4.65 seconds 2022-11-05 23:09:38.852 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:39.542 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5381ms 2022-11-05 23:09:39.553 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:39.565 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'PR3_S17_L004_R2_001.fastq.gz' (419.016 MB). 2022-11-05 23:09:39.575 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:43.797 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'PR3_S17_L004_R2_001.fastq.gz' in 4.21 seconds 2022-11-05 23:09:43.806 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:44.464 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4910ms 2022-11-05 23:09:44.476 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'PR3'. 2022-11-05 23:09:44.492 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410330131/direct-upload-info 2022-11-05 23:09:44.499 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410330131/direct-upload-info attempt 1 2022-11-05 23:09:44.645 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410330131/direct-upload-info completed after 1 attempts and 145ms 2022-11-05 23:09:44.657 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'PR3' 2022-11-05 23:09:44.667 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'PR3'. 2022-11-05 23:09:45.463 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/STARV1 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:09:45.625 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:09:45.636 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'STARV1'. 2022-11-05 23:09:45.647 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:09:45.707 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:09:45.717 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:09:45.728 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:09:46.757 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1029ms 2022-11-05 23:09:46.766 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:09:46.772 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:09:46.860 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 88ms 2022-11-05 23:09:46.887 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:09:46.896 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "STARV1", "SampleId": "STARV1", "AppSessionId": "626289665", "SampleNumber": 12, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 18545652, "NumReadsPF": 18545652, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "4662251" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "4662251" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "4638998" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "4638998" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "4603690" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "4603690" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "4640713" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "4640713" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:09:46.908 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:09:46.926 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:09:48.021 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1094ms 2022-11-05 23:09:48.032 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'STARV1' (410330132) 2022-11-05 23:09:48.042 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410330132/direct-upload-info 2022-11-05 23:09:48.052 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410330132/direct-upload-info attempt 1 2022-11-05 23:09:48.176 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410330132/direct-upload-info completed after 1 attempts and 123ms 2022-11-05 23:09:48.187 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:09:48.204 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:48.205 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:48.214 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L001_R1_001.fastq.gz' (437.27 MB). 2022-11-05 23:09:48.221 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L001_R2_001.fastq.gz' (443.274 MB). 2022-11-05 23:09:48.231 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:48.239 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:52.481 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L001_R1_001.fastq.gz' in 4.24 seconds 2022-11-05 23:09:52.481 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L001_R2_001.fastq.gz' in 4.23 seconds 2022-11-05 23:09:52.501 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:52.492 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:53.081 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4877ms 2022-11-05 23:09:53.090 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:53.100 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L002_R1_001.fastq.gz' (437.072 MB). 2022-11-05 23:09:53.109 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:53.133 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4928ms 2022-11-05 23:09:53.138 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:53.144 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L002_R2_001.fastq.gz' (442.145 MB). 2022-11-05 23:09:53.152 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:56.900 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L002_R1_001.fastq.gz' in 3.79 seconds 2022-11-05 23:09:56.910 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:57.298 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L002_R2_001.fastq.gz' in 4.14 seconds 2022-11-05 23:09:57.309 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:09:57.614 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4524ms 2022-11-05 23:09:57.625 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:57.635 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L003_R1_001.fastq.gz' (432.613 MB). 2022-11-05 23:09:57.645 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:09:57.967 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4828ms 2022-11-05 23:09:57.974 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:09:57.980 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L003_R2_001.fastq.gz' (438.453 MB). 2022-11-05 23:09:57.986 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:01.808 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L003_R1_001.fastq.gz' in 4.16 seconds 2022-11-05 23:10:01.819 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:02.521 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4896ms 2022-11-05 23:10:02.532 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:02.541 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L004_R1_001.fastq.gz' (437.042 MB). 2022-11-05 23:10:02.549 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:02.793 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L003_R2_001.fastq.gz' in 4.80 seconds 2022-11-05 23:10:02.801 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:03.442 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5468ms 2022-11-05 23:10:06.646 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L004_R1_001.fastq.gz' in 4.09 seconds 2022-11-05 23:10:06.656 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:07.307 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4775ms 2022-11-05 23:10:07.314 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:07.321 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV1_S12_L004_R2_001.fastq.gz' (442.887 MB). 2022-11-05 23:10:07.332 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:12.880 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV1_S12_L004_R2_001.fastq.gz' in 5.54 seconds 2022-11-05 23:10:12.890 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:13.644 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 6330ms 2022-11-05 23:10:13.652 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'STARV1'. 2022-11-05 23:10:13.664 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410330132/direct-upload-info 2022-11-05 23:10:13.673 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410330132/direct-upload-info attempt 1 2022-11-05 23:10:13.832 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410330132/direct-upload-info completed after 1 attempts and 159ms 2022-11-05 23:10:13.843 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'STARV1' 2022-11-05 23:10:13.853 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'STARV1'. 2022-11-05 23:10:14.679 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/STARV2 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:10:14.843 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:10:14.852 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'STARV2'. 2022-11-05 23:10:14.858 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:10:14.914 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:10:14.926 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:10:14.938 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:10:16.106 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1168ms 2022-11-05 23:10:16.115 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:10:16.124 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:10:16.243 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 119ms 2022-11-05 23:10:16.279 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:10:16.291 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "STARV2", "SampleId": "STARV2", "AppSessionId": "626289665", "SampleNumber": 13, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 18915393, "NumReadsPF": 18915393, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "4741959" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "4741959" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "4736110" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "4736110" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "4693448" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "4693448" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "4743876" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "4743876" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:10:16.299 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:10:16.317 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:10:17.703 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1386ms 2022-11-05 23:10:17.713 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'STARV2' (410311638) 2022-11-05 23:10:17.724 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410311638/direct-upload-info 2022-11-05 23:10:17.733 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410311638/direct-upload-info attempt 1 2022-11-05 23:10:17.896 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410311638/direct-upload-info completed after 1 attempts and 162ms 2022-11-05 23:10:17.907 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:10:17.927 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:17.928 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:17.937 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L001_R1_001.fastq.gz' (442.724 MB). 2022-11-05 23:10:17.942 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L001_R2_001.fastq.gz' (452.056 MB). 2022-11-05 23:10:17.950 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:17.956 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:21.975 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L001_R1_001.fastq.gz' in 4.01 seconds 2022-11-05 23:10:21.986 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:22.369 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L001_R2_001.fastq.gz' in 4.40 seconds 2022-11-05 23:10:22.376 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:22.679 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4751ms 2022-11-05 23:10:22.687 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:22.697 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L002_R1_001.fastq.gz' (443.944 MB). 2022-11-05 23:10:22.706 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:23.019 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5091ms 2022-11-05 23:10:23.025 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:23.034 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L002_R2_001.fastq.gz' (452.794 MB). 2022-11-05 23:10:23.044 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:26.959 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L002_R1_001.fastq.gz' in 4.25 seconds 2022-11-05 23:10:26.969 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:27.485 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L002_R2_001.fastq.gz' in 4.44 seconds 2022-11-05 23:10:27.496 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:27.700 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5012ms 2022-11-05 23:10:27.710 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:27.721 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L003_R1_001.fastq.gz' (438.823 MB). 2022-11-05 23:10:27.729 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:28.158 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5132ms 2022-11-05 23:10:28.168 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:28.180 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L003_R2_001.fastq.gz' (448.089 MB). 2022-11-05 23:10:28.186 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:31.962 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L003_R1_001.fastq.gz' in 4.22 seconds 2022-11-05 23:10:31.967 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:32.426 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L003_R2_001.fastq.gz' in 4.23 seconds 2022-11-05 23:10:32.438 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:32.676 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4966ms 2022-11-05 23:10:32.687 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:32.696 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L004_R1_001.fastq.gz' (444.421 MB). 2022-11-05 23:10:32.702 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:33.121 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4952ms 2022-11-05 23:10:36.875 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L004_R1_001.fastq.gz' in 4.17 seconds 2022-11-05 23:10:36.882 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:37.616 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4929ms 2022-11-05 23:10:37.626 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:37.637 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV2_S13_L004_R2_001.fastq.gz' (454.023 MB). 2022-11-05 23:10:37.646 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:41.976 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV2_S13_L004_R2_001.fastq.gz' in 4.32 seconds 2022-11-05 23:10:41.985 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:42.689 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5062ms 2022-11-05 23:10:42.700 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'STARV2'. 2022-11-05 23:10:42.714 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410311638/direct-upload-info 2022-11-05 23:10:42.723 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410311638/direct-upload-info attempt 1 2022-11-05 23:10:42.923 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410311638/direct-upload-info completed after 1 attempts and 200ms 2022-11-05 23:10:42.935 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'STARV2' 2022-11-05 23:10:42.945 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'STARV2'. 2022-11-05 23:10:43.400 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Command line arguments:--a=2 --p=@WellenLab11.4.22 --s=626289665 --t=8b924c719d1141c3aac19eff4162248b --d= --u=https://api.basespace.illumina.com --g=us-east-1 --f=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/data/output/samples/@WellenLab11.4.22/STARV3 --l=/media/ebs/agentdata/use1-prod_626289665_8e34275f2824482fa805ffe899fdee02/logs 2022-11-05 23:10:43.566 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory app results to ''. 2022-11-05 23:10:43.578 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.Host.Program Preparing to upload directory samples to 'STARV3'. 2022-11-05 23:10:43.591 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Creating BaseSpace client: https://api.basespace.illumina.com 2022-11-05 23:10:43.649 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.Host.Program Getting AppSession '626289665' from BaseSpace. 2022-11-05 23:10:43.662 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 2022-11-05 23:10:43.671 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/appsessions/626289665 attempt 1 2022-11-05 23:10:44.886 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/appsessions/626289665 completed after 1 attempts and 1214ms 2022-11-05 23:10:44.896 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects 2022-11-05 23:10:44.906 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/projects attempt 1 2022-11-05 23:10:44.984 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/projects completed after 1 attempts and 78ms 2022-11-05 23:10:45.017 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Reading entity file at '_metadata.json'. 2022-11-05 23:10:45.028 [THREAD 1] [DEBUG] Illumina.SpaceDock.Uploader.SampleCreator Content entity: { "Name": "STARV3", "SampleId": "STARV3", "AppSessionId": "626289665", "SampleNumber": 14, "IsPairedEnd": true, "Read1": 151, "Read2": 151, "NumReadsRaw": 20020409, "NumReadsPF": 20020409, "ExperimentName": "WellenLab11.4.22", "HrefRun": "v1pre3/runs/247036814", "Properties": [ { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersRaw", "Description": "PerLaneAttributes.L1_TotalClustersRaw", "Content": "5021532" }, { "Type": "string", "Name": "PerLaneAttributes.L1_TotalClustersPF", "Description": "PerLaneAttributes.L1_TotalClustersPF", "Content": "5021532" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersRaw", "Description": "PerLaneAttributes.L2_TotalClustersRaw", "Content": "5013832" }, { "Type": "string", "Name": "PerLaneAttributes.L2_TotalClustersPF", "Description": "PerLaneAttributes.L2_TotalClustersPF", "Content": "5013832" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersRaw", "Description": "PerLaneAttributes.L3_TotalClustersRaw", "Content": "4963820" }, { "Type": "string", "Name": "PerLaneAttributes.L3_TotalClustersPF", "Description": "PerLaneAttributes.L3_TotalClustersPF", "Content": "4963820" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersRaw", "Description": "PerLaneAttributes.L4_TotalClustersRaw", "Content": "5021225" }, { "Type": "string", "Name": "PerLaneAttributes.L4_TotalClustersPF", "Description": "PerLaneAttributes.L4_TotalClustersPF", "Content": "5021225" }, { "Type": "string[]", "Name": "PerLaneAttributes.LaneNumbers", "Description": "PerLaneAttributes.LaneNumbers", "Items": [ "1", "2", "3", "4" ] } ] } 2022-11-05 23:10:45.039 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.SampleCreator Creating Sample in project '371529375'. 2022-11-05 23:10:45.054 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: Creating Sample in Project '371529375'. attempt 1 2022-11-05 23:10:46.365 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Creating Sample in Project '371529375'. completed after 1 attempts and 1310ms 2022-11-05 23:10:46.371 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Getting direct upload info for Sample 'STARV3' (410306701) 2022-11-05 23:10:46.378 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410306701/direct-upload-info 2022-11-05 23:10:46.389 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: GET:v1pre3/samples/410306701/direct-upload-info attempt 1 2022-11-05 23:10:46.539 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient GET:v1pre3/samples/410306701/direct-upload-info completed after 1 attempts and 149ms 2022-11-05 23:10:46.549 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Attempting to upload directory, attempt '1' 2022-11-05 23:10:46.570 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:46.570 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:46.581 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L001_R1_001.fastq.gz' (463.122 MB). 2022-11-05 23:10:46.587 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L001_R2_001.fastq.gz' (474.108 MB). 2022-11-05 23:10:46.597 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:46.602 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:51.075 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L001_R2_001.fastq.gz' in 4.46 seconds 2022-11-05 23:10:51.081 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L001_R1_001.fastq.gz' in 4.47 seconds 2022-11-05 23:10:51.097 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:51.087 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:51.722 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5151ms 2022-11-05 23:10:51.729 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:51.738 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L002_R1_001.fastq.gz' (464.559 MB). 2022-11-05 23:10:51.747 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:51.779 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5209ms 2022-11-05 23:10:51.788 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:51.798 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L002_R2_001.fastq.gz' (474.976 MB). 2022-11-05 23:10:51.806 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:56.062 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L002_R1_001.fastq.gz' in 4.31 seconds 2022-11-05 23:10:56.069 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:56.403 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L002_R2_001.fastq.gz' in 4.59 seconds 2022-11-05 23:10:56.413 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:10:56.734 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5005ms 2022-11-05 23:10:56.744 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:56.753 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L003_R1_001.fastq.gz' (458.685 MB). 2022-11-05 23:10:56.762 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:10:57.061 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5272ms 2022-11-05 23:10:57.067 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:10:57.073 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L003_R2_001.fastq.gz' (469.418 MB). 2022-11-05 23:10:57.078 [THREAD 1] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:11:01.037 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L003_R1_001.fastq.gz' in 4.27 seconds 2022-11-05 23:11:01.045 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:11:01.743 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L003_R2_001.fastq.gz' in 4.66 seconds 2022-11-05 23:11:01.750 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:11:01.790 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5046ms 2022-11-05 23:11:01.798 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:11:01.803 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L004_R1_001.fastq.gz' (465.001 MB). 2022-11-05 23:11:01.810 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:11:02.405 [THREAD 1] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5337ms 2022-11-05 23:11:06.197 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L004_R1_001.fastq.gz' in 4.38 seconds 2022-11-05 23:11:06.204 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:11:06.882 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 5084ms 2022-11-05 23:11:06.892 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod operation starting: uploading file attempt 1 2022-11-05 23:11:06.903 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Uploading 'STARV3_S14_L004_R2_001.fastq.gz' (476.136 MB). 2022-11-05 23:11:06.914 [THREAD Threadpool worker] [INFO ] Illumina.SpaceDock.Uploader.S3.S3Client Upload to region: us-east-1 2022-11-05 23:11:10.981 [THREAD Threadpool worker] [INFO ] System.Reflection.MonoCMethod Finished uploading 'STARV3_S14_L004_R2_001.fastq.gz' in 4.06 seconds 2022-11-05 23:11:10.992 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod Retrieving object etag 2022-11-05 23:11:11.660 [THREAD Threadpool worker] [DEBUG] System.Reflection.MonoCMethod uploading file completed after 1 attempts and 4767ms 2022-11-05 23:11:11.670 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Posting files for Sample 'STARV3'. 2022-11-05 23:11:11.685 [THREAD 1] [DEBUG] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410306701/direct-upload-info 2022-11-05 23:11:11.692 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient operation starting: POST:v1pre3/samples/410306701/direct-upload-info attempt 1 2022-11-05 23:11:11.863 [THREAD 1] [INFO ] Illumina.BaseSpace.SDK.PrivateBaseSpaceClient POST:v1pre3/samples/410306701/direct-upload-info completed after 1 attempts and 170ms 2022-11-05 23:11:11.876 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished posting files for Sample 'STARV3' 2022-11-05 23:11:11.888 [THREAD 1] [INFO ] System.Reflection.MonoCMethod Finished uploading directory 'STARV3'.