| Version 6 (modified by , 14 years ago) (diff) |
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Workflow execution / progress data analysis
First batch
First alignment step
| # | Sample | WF | Status | Start |
| 1 | first-batch A (17 lanes) | workflow-0a2b547d | partly done | 29-04-2011 21:40 |
| 2 | first-batch G (50 lanes) | workflow-72df4adf | partly done | 29-04-2011 21:44 |
| 3 | first-batch (121 lanes) | workflow-ecccffa5 | 28 done | 05-05-2011 17:01 |
| 4 | first-batch (93 lanes + 1 from second batch) | workflow-9c7ae662 | running | 09-05-2011 09:50 |
Fastqc
| # | Sample | WF | Status | Start |
| 1 | first-batch (366 fastq files) | workflow-4888e67c | 140 done | 09-05-2011 08:57 |
| 2 | first-batch (226 fastq files) | workflow-b8a55600 | running | 11-05-2011 13:05 |
Second batch
First alignment step
| # | Sample | WF | Status | Start |
| 1 | A4a | F F F workflow-425d9ceb | done | |
| 2 | Vartest | workflow-490b15f8 | done | |
| 3 | Iteration test | workflow-bf48aff1 | failed | |
| 4 | Iteration test | workflow-923c6588 | done | |
| 5 | 60-samples-batch (15 lanes) | workflow-d80b5767 | 10 / 15 done | 11-02-2011 19:30 |
| 6 | 60-samples-batch A (55 lanes) | workflow-cbaca6e5 | 15 / 55 done | 12-02-2011 13:55 |
| 7 | 60-samples-batch A remaining 1 (17 lanes) | workflow-835250b1 | failed (grid very busy) | 07-03-2011 17:45 |
| 8 | 60-samples-batch A remaining 1 (17 lanes) | workflow-31eb952d | 1/17 done | 08-03-2011 14:15 |
| 9 | 60-samples-batch A remaining (27 lanes) | workflow-fd98c7c8 | 11/27 done | 15-03-2011 10:45 |
| 10 | 60-samples-batch G (27/54 lanes) | workflow-a781209c | 3/27 done | 15-03-2011 20:37 |
| 11 | second-batch R10-11-12 (27 lanes) | workflow-6fe1cb10 | 6/27 done | 16-03-2011 10:57 |
| 12 | second-batch R13-14-15 (27 lanes) | workflow-77b82882 | 3/27 done | 18-03-2011 19:07 |
| 13 | second-batch R16-17 (24 lanes) | workflow-18ec0160 | 7/24 done | 19-03-2011 11:00 |
| 14 | second-batch R18 (11 lanes) | workflow-7596a676 | 2/11 done | 19-03-2011 18:33 |
| 15 | second-batch R19-20-21 (31 lanes) | workflow-58ea16f1 | 4 done, scheduled downtime, rest will fail | 20-03-2011 11:50 |
| 16 | second-batch R22-8-9 (altered submission scheme: submits 1 job/5 min) | workflow-ea6b36a6 | 4 done, scheduled downtime, rest will fail | 20-03-2011 12:37 |
| 17 | second-batch R10-R17 A9-23 (206 lanes) | workflow-7d2b2b5b | 5 done, scheduled downtime, rest will fail | 21-03-2011 11:59 |
| 18 | second-batch (244 lanes) | workflow-c902ebf3 | This WF is cancelled, because we only want to run these jobs on Gina and HTC | 23-03-2011 09:48 |
| 19 | second-batch (237 lanes) | workflow-62e0f254 | 135 done | 25-03-2011 12:20 |
| 20 | second-batch (102 lanes) | workflow-b00af623 | 33 done | 31-03-2011 08:21 |
| 21 | second-batch (69 lanes) | workflow-d5709592 | 4 done | 04-04-2011 18:17 |
| 22 | second-batch (65 lanes) | workflow-7d8743c1 | 25 done | 06-04-2011 23:24 |
| 23 | second-batch (40 lanes) | workflow-d8cdf017 | 16 done | 15-04-2011 18:07 |
| 24 | second-batch (24 lanes) | workflow-177917d4 | 12 done | 18-04-2011 11:25 |
| 25 | second-batch (12 lanes) | workflow-289c831f | 5 done | 20-04-2011 21:15 |
| 26 | second-batch (7 lanes) | workflow-96f414e3 | 4 done | 22-04-2011 |
| 27 | second-batch (3 lanes) | workflow-63ecec34 | 1 done | 27-04-2011 15:22 |
| 28 | second-batch (2 lanes) | workflow-dd84f331 | 1 done | 02-05-2011 11:05 |
| 29 | second-batch (1 lane) | workflow-8a720670 | running | 05-05-2011 16:58 |
Fastqc analysis
| # | Sample | WF | Status | Start |
| 1 | second-batch (2x295 lanes = 590 fastq files) | workflow-417415cc | 396 done | 23-04-2011 02:44 |
| 2 | second-batch (194 fastq files) | workflow-6ded80d3 | 189 done | 23-04-2011 11:40 |
| 3 | second-batch (5 fastq file) | workflow-2bb76072 | 5 done | 23-04-2011 14:40 |
RESULTS: log-fastqc20110423.xls - contains information about run time and disk usage on the compute nodes and info about the number of sequences per lane
THROUGHPUT: workflow run time was 12 hrs, total CPU run time was 12 days
STATUS: done
First and second batch
Mark-duplicates analysis on all files that are aligned so far
| # | Sample | WF | Status | Start |
| 1 | 351 lanes | workflow-a5a7a078 | 212 done | 04-05-2011 12:54 |
| 2 | 139 lanes | workflow-87b3994d | 115 done | 05-05-2011 15:29 |
| 3 | 24 lanes | workflow-7e395331 | failed | 06-05-2011 08:22 |
| 4 | 24 lanes | workflow-6207c67d | 19 done | 06-05-2011 12:55 |
| 5 | 5 lanes | workflow-62e2653e | running | 07-05-2011 14:08 |
Samtools flagstat on bam files
| # | Sample | WF | Status | Start |
| 1 | 381 lanes | workflow-a7a0acbf | 181 done | 09-05-2011 16:56 |
| 2 | 200 lanes | workflow-39699118 | running | 11-05-2011 14:46 |
Notes
Monitor clusters
