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Re-running LINCS pipeline for: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23

CromwellTest

Job Status

Created: 2021-04-18 13:35:22
Modified: 2021-04-18 13:40:48
Email: vsharma@uw.edu
Status: COMPLETE
Info:
Description: Re-running LINCS pipeline for: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23
File Path: /data/labkey/files/00Developer/vsharma/LINCS module test/GCP/CromwellTest/@files/LincsPSP_rerun_LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_2021-04-18_13-35-22.log
Files: LincsPSP_rerun_LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_2021-04-18_13-35-22.log
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Log File


18 Apr 2021 13:35:22,907 INFO : Re-running LINCS pipeline for:  LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23
18 Apr 2021 13:35:22,908 INFO : =======================================
18 Apr 2021 13:35:23,032 INFO : Starting to run task 'org.labkey.lincs.cromwell.CromwellGctTask' at location 'webserver-high-priority'
18 Apr 2021 13:35:23,032 INFO : Starting task to create L2 GCT for LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.sky.zip
18 Apr 2021 13:35:23,040 INFO : Submitting job to http://m002.grid.gs.washington.edu:8000/api/workflows/v1
18 Apr 2021 13:35:23,087 INFO : Checking status of job at http://m002.grid.gs.washington.edu:8000/api/workflows/v1/9ce4b610-549a-49f8-a977-305df34e0e74/status
18 Apr 2021 13:35:43,111 INFO : Cromwell job status: Running
18 Apr 2021 13:36:23,171 INFO : Cromwell job status: Succeeded
18 Apr 2021 13:36:23,171 INFO : Cromwell job completed successfully
18 Apr 2021 13:36:23,172 INFO : Successfully completed task 'org.labkey.lincs.cromwell.CromwellGctTask'
18 Apr 2021 13:36:23,242 INFO : Starting to run task 'org.labkey.lincs.psp.LincsPspTask' at location 'webserver-high-priority'
18 Apr 2021 13:36:23,242 INFO : Running LINCS PSP pipeline for LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23
18 Apr 2021 13:36:23,243 INFO : Resubmitting job for runId: 108287, name: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23
18 Apr 2021 13:36:23,243 INFO : Old job details: 
18 Apr 2021 13:36:23,244 INFO : Id: 374
18 Apr 2021 13:36:23,244 INFO : Pipeline job Id: 107989
18 Apr 2021 13:36:23,249 INFO : Run Id: 108287
18 Apr 2021 13:36:23,249 INFO : PSP Job Id: 607c78915e18ad0011655eed
18 Apr 2021 13:36:23,249 INFO : PSP Job name: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2
18 Apr 2021 13:36:23,250 INFO : PSP Job status: POUR : succeeded in uploading all GCTs to Panorama
18 Apr 2021 13:36:23,250 INFO : JSON: {"level 4":{"s3":{"url":"s3://proteomics.clue.io/psp/level4/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2_LVL4.gct"},"panorama":{"method":"PUT","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_LVL4.gct"}},"assay":"GCP","created":"2021-04-18T18:21:05.179Z","name":"LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2","id":"607c78915e18ad0011655eed","last_modified":"2021-04-18T18:24:57.359Z","config":{"s3":{"url":"s3://proteomics.clue.io/psp/config/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2.cfg"},"panorama":{"method":"PUT","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.cfg"}},"level 2":{"s3":{"url":"s3://proteomics.clue.io/psp/level2/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2_LVL2.gct"},"panorama":{"method":"GET","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.gct"}},"status":"POUR : succeeded in uploading all GCTs to Panorama","level 3":{"s3":{"url":"s3://proteomics.clue.io/psp/level3/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2_LVL3.gct"},"panorama":{"method":"PUT","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_LVL3.gct"}}}
18 Apr 2021 13:36:23,250 INFO : Resubmitting...
18 Apr 2021 13:36:23,252 INFO : Looking for existing job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test
18 Apr 2021 13:36:23,664 INFO : Job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_testexists.
18 Apr 2021 13:36:23,664 INFO : Looking for existing job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2
18 Apr 2021 13:36:23,800 INFO : Job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2exists.
18 Apr 2021 13:36:23,801 INFO : Looking for existing job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3
18 Apr 2021 13:36:23,931 INFO : PSP job name: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3
18 Apr 2021 13:36:23,931 INFO : Sending JSON:
18 Apr 2021 13:36:23,932 INFO : {
  "level 4": {"panorama": {
    "method": "PUT",
    "url": "https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_LVL4.gct"
  }},
  "assay": "GCP",
  "name": "LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3",
  "config": {"panorama": {
    "method": "PUT",
    "url": "https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.cfg"
  }},
  "level 2": {"panorama": {
    "method": "GET",
    "url": "https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.gct"
  }},
  "level 3": {"panorama": {
    "method": "PUT",
    "url": "https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_LVL3.gct"
  }}
}
18 Apr 2021 13:36:23,932 INFO : Sending POST request to https://api.clue.io/api/psp
18 Apr 2021 13:36:24,144 INFO : Response code - 200
18 Apr 2021 13:36:24,144 INFO : Response from server: {"name":"LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3","assay":"GCP","status":"Waiting_To_Download","id":"607c98485e18ad0011655f0e","created":"2021-04-18T20:36:24.010Z","last_modified":"2021-04-18T20:36:24.010Z","level 2":{"panorama":{"method":"GET","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.gct"}},"level 3":{"panorama":{"method":"PUT","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_LVL3.gct"}},"level 4":{"panorama":{"method":"PUT","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_LVL4.gct"}},"config":{"panorama":{"method":"PUT","url":"https://panoramaweb.org/_webdav/00Developer/vsharma/LINCS%20module%20test/GCP/CromwellTest/%40files/GCT/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.cfg"}}}
18 Apr 2021 13:36:24,145 INFO : Sent POST request to https://api.clue.io/api/psp
18 Apr 2021 13:36:24,147 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:36:24,283 INFO : Status: Waiting_To_Download
18 Apr 2021 13:36:44,289 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:36:44,576 INFO : Status: created LVL2 GCT
18 Apr 2021 13:37:04,578 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:37:04,869 INFO : Status: created LVL2 GCT
18 Apr 2021 13:37:24,871 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:37:25,171 INFO : Status: created LVL2 GCT
18 Apr 2021 13:37:45,174 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:37:45,547 INFO : Status: created LVL2 GCT
18 Apr 2021 13:38:05,550 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:38:05,836 INFO : Status: created LVL2 GCT
18 Apr 2021 13:38:25,838 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:38:26,132 INFO : Status: created LVL2 GCT
18 Apr 2021 13:38:46,137 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:38:46,429 INFO : Status: created LVL2 GCT
18 Apr 2021 13:39:06,441 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:39:06,821 INFO : Status: created LVL2 GCT
18 Apr 2021 13:39:26,824 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:39:27,114 INFO : Status: created LVL2 GCT
18 Apr 2021 13:39:47,117 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:39:47,412 INFO : Status: created LVL2 GCT
18 Apr 2021 13:40:07,414 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:40:07,704 INFO : Status: created LVL2 GCT
18 Apr 2021 13:40:27,707 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:40:28,083 INFO : Status: created LVL 3 GCT
18 Apr 2021 13:40:48,086 INFO : Checking status of job 607c98485e18ad0011655f0e
18 Apr 2021 13:40:48,374 INFO : Status: POUR : succeeded in uploading all GCTs to Panorama
18 Apr 2021 13:40:48,375 INFO : PSP job completed with status: POUR : succeeded in uploading all GCTs to Panorama
18 Apr 2021 13:40:48,375 INFO : Finished running LINCS PSP pipeline.
18 Apr 2021 13:40:48,375 INFO : Successfully completed task 'org.labkey.lincs.psp.LincsPspTask'