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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 13:51:54
Modified: 2021-04-18 13:56:20
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_13-51-54.log
Files: LincsPSP_rerun_LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_2021-04-18_13-51-54.log
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Log File


18 Apr 2021 13:51:54,841 INFO : Re-running LINCS pipeline for:  LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23
18 Apr 2021 13:51:54,844 INFO : =======================================
18 Apr 2021 13:51:54,944 INFO : Starting to run task 'org.labkey.lincs.cromwell.CromwellGctTask' at location 'webserver-high-priority'
18 Apr 2021 13:51:54,944 INFO : Starting task to create L2 GCT for LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.sky.zip
18 Apr 2021 13:51:54,946 INFO : L2 GCT for run LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.sky.zip exists. Skipping Cromwell job submission.
18 Apr 2021 13:51:54,946 INFO : Successfully completed task 'org.labkey.lincs.cromwell.CromwellGctTask'
18 Apr 2021 13:51:54,997 INFO : Starting to run task 'org.labkey.lincs.psp.LincsPspTask' at location 'webserver-high-priority'
18 Apr 2021 13:51:54,997 INFO : Running LINCS PSP pipeline for LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23
18 Apr 2021 13:51:54,997 INFO : Resubmitting job for runId: 108287, name: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23
18 Apr 2021 13:51:54,997 INFO : Old job details: 
18 Apr 2021 13:51:54,997 INFO : Id: 375
18 Apr 2021 13:51:54,997 INFO : Pipeline job Id: 107992
18 Apr 2021 13:51:54,997 INFO : Run Id: 108287
18 Apr 2021 13:51:54,998 INFO : PSP Job Id: 607c98485e18ad0011655f0e
18 Apr 2021 13:51:54,998 INFO : PSP Job name: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3
18 Apr 2021 13:51:54,998 INFO : PSP Job status: POUR : succeeded in uploading all GCTs to Panorama
18 Apr 2021 13:51:54,998 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_3_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":"2021-04-18T20:36:24.010Z","name":"LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3","id":"607c98485e18ad0011655f0e","last_modified":"2021-04-18T20:40:40.912Z","config":{"s3":{"url":"s3://proteomics.clue.io/psp/config/LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3.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_3_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_3_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 13:51:54,998 INFO : Resubmitting...
18 Apr 2021 13:51:54,999 INFO : Looking for existing job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test
18 Apr 2021 13:51:55,441 INFO : Job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_testexists.
18 Apr 2021 13:51:55,441 INFO : Looking for existing job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2
18 Apr 2021 13:51:55,576 INFO : Job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_2exists.
18 Apr 2021 13:51:55,576 INFO : Looking for existing job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3
18 Apr 2021 13:51:55,710 INFO : Job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_3exists.
18 Apr 2021 13:51:55,710 INFO : Looking for existing job with name LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_4
18 Apr 2021 13:51:55,842 INFO : PSP job name: LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_4
18 Apr 2021 13:51:55,842 INFO : Sending JSON:
18 Apr 2021 13:51:55,843 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_4",
  "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 13:51:55,843 INFO : Sending POST request to https://api.clue.io/api/psp
18 Apr 2021 13:51:56,079 INFO : Response code - 200
18 Apr 2021 13:51:56,080 INFO : Response from server: {"name":"LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23_cromwell_test_4","assay":"GCP","status":"Waiting_To_Download","id":"607c9beb198678001151171e","created":"2021-04-18T20:51:55.919Z","last_modified":"2021-04-18T20:51:55.919Z","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 13:51:56,080 INFO : Sent POST request to https://api.clue.io/api/psp
18 Apr 2021 13:51:56,083 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:51:56,217 INFO : Status: Waiting_To_Download
18 Apr 2021 13:52:16,220 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:52:16,506 INFO : Status: created LVL2 GCT
18 Apr 2021 13:52:36,509 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:52:36,806 INFO : Status: created LVL2 GCT
18 Apr 2021 13:52:56,808 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:52:57,100 INFO : Status: created LVL2 GCT
18 Apr 2021 13:53:17,102 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:53:17,474 INFO : Status: created LVL2 GCT
18 Apr 2021 13:53:37,477 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:53:37,776 INFO : Status: created LVL2 GCT
18 Apr 2021 13:53:57,778 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:53:58,071 INFO : Status: created LVL2 GCT
18 Apr 2021 13:54:18,075 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:54:18,358 INFO : Status: created LVL2 GCT
18 Apr 2021 13:54:38,360 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:54:38,728 INFO : Status: created LVL2 GCT
18 Apr 2021 13:54:58,731 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:54:59,016 INFO : Status: created LVL2 GCT
18 Apr 2021 13:55:19,018 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:55:19,302 INFO : Status: created LVL2 GCT
18 Apr 2021 13:55:39,303 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:55:39,594 INFO : Status: created LVL2 GCT
18 Apr 2021 13:55:59,597 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:55:59,887 INFO : Status: created LVL 3 GCT
18 Apr 2021 13:56:19,892 INFO : Checking status of job 607c9beb198678001151171e
18 Apr 2021 13:56:20,182 INFO : Status: POUR : succeeded in uploading all GCTs to Panorama
18 Apr 2021 13:56:20,182 INFO : PSP job completed with status: POUR : succeeded in uploading all GCTs to Panorama
18 Apr 2021 13:56:20,183 INFO : Finished running LINCS PSP pipeline.
18 Apr 2021 13:56:20,183 INFO : Successfully completed task 'org.labkey.lincs.psp.LincsPspTask'