DAY-EC activated.
DAY-EC activated.
## status
{
  "command": "bin/day_run produce_sent_align produce_dmd_dedup_cram produce_sentd_snv_vcf produce_alignstats produce_snv_concordances produce_relatedness produce_vep produce_multiqc_all --config 'multiqc_qc={\"enable_tools\":[\"vep\"]}' -p -j 100 -k",
  "completed_at": null,
  "exit_code": null,
  "repo_path": "/fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/daylily-omics-analysis",
  "session_name": "ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc",
  "started_at": "2026-05-30T07:37:28Z"
}
## run dir
1780128941.6183481760 697443 /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/tmux.log
1780128941.6173481760 1705 /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/export/fsx_export.yaml
1780126648.9384888250 557 /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/status.json
1780126646.7614888950 0 /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/tmux-bootstrap.log
1780126646.7604888950 21738 /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/launch.sh
## tmux tail
Config file config/global.yaml is extended by additional config specified via the command line.
loading global: /fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/daylily-omics-analysis/config/global_AWSPC.yaml
Config file config/global_AWSPC.yaml is extended by additional config specified via the command line.
loading profile rule_config: /fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/daylily-omics-analysis/config/day_profiles/slurm/rule_config.yaml
Config file config/day_profiles/slurm/rule_config.yaml is extended by additional config specified via the command line.
INFO::: The genome build hg38_broad is supported.  The genome build prefix is 'chr''.
[1m[48;5;166m[38;5;79m...WARNING: No aligners set in the config.[0m
[1m[48;5;166m[38;5;79m...INFO: Auto-detected aligners from env: ['sent'][0m
[1m[38;5;79maligners (final): [sent][0m
[1m[48;5;166m[38;5;79m...INFO: No dedupers set in config. Defaulting to na (no dedup).[0m
[1m[48;5;166m[38;5;79m...INFO: Auto-detected dedupers. DDUP updated to: ['dmd'][0m
[1m[38;5;79mdeduper (final): [dmd][0m
[1m[48;5;166m[38;5;79m...WARNING: No snv_callers set in the config.[0m
[1m[48;5;166m[38;5;79m...INFO: Auto-detected SNV callers from env: ['sentd'][0m
[1m[38;5;79mSNV Callers (final): [sentd][0m
[1m[38;5;79mSomatic SNV Callers:[senttn][0m
[1m[48;5;166m[38;5;79m... WARNING: No sv_callers set in the config.[0m
[1m[38;5;79mSV Callers (final): [][0m
A    N   A   L  Y S I S    SAMPLE TABLE DETECTED ::: /fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/daylily-omics-analysis/config/samples.tsv
A    N   A   L  Y S I S    UNIT TABLE DETECTED ::: /fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/daylily-omics-analysis/config/units.tsv
Building DAG of jobs...
Using shell: /home/ubuntu/miniconda3/envs/DAY-EC/bin/bash
Provided cores: 8
Rules claiming more threads will be scaled down.
Provided resources: mem_mb=3000, mem_mib=2862, disk_mb=1000, disk_mib=954, threads=1, time=5440, vcpu=1
Select jobs to execute...
[Sat May 30 08:10:55 2026]
Finished job 127.
132 of 133 steps (99%) done
Select jobs to execute...

[Sat May 30 08:10:55 2026]
localrule produce_multiqc_all:
    input: results/day/hg38_broad/reports/DAY_final_multiqc.html, results/day/hg38_broad/reports/dayoa_evidence_manifest.json
    jobid: 6
    reason: Input files updated by another job: results/day/hg38_broad/reports/dayoa_evidence_manifest.json, results/day/hg38_broad/reports/DAY_final_multiqc.html
    resources: mem_mb=3000, mem_mib=2862, disk_mb=1000, disk_mib=954, tmpdir=/dev/shm, threads=1, time=5440, partition=i192,i128,i192mem, vcpu=1, distribution=block, exclusive=, constraint=, exclude=, include=

[Sat May 30 08:10:55 2026]
Finished job 6.
133 of 133 steps (100%) done
Complete log: .snakemake/log/2026-05-30T073755.203696.snakemake.log


	WARNING!!!! ALL Directories Are Remaining Unlocked. To have directories lock automatically upon successful completion, set --lock-analysis-dirs when calling day-run.


[1m[48;5;205m[30m
]]]]--------WORKFLOW SUCCESS====================]]]]]--[0m
[5m[48;5;118m[30mRETURN CODE: 0[0m
⚠ Active conda environment is 'DAYOA', not DAY-EC. Continuing anyway; the
supported path is `source ./activate`.

── EXPORT ──
  › Preparing direct FSx export DRA
2026-05-30 08:11:04,212 INFO Found credentials from IAM Role: dyec-test-RoleHeadNode-eJMKI1vZVQBE
  · Attached export DRA dra-05e6b65e37761518b at
/fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_
vep_multiqc/
2026-05-30 08:13:55,211 INFO Task task-0c84802ef290dd3e7 status: PENDING
2026-05-30 08:14:25,440 INFO Task task-0c84802ef290dd3e7 status: EXECUTING
2026-05-30 08:14:55,639 INFO Task task-0c84802ef290dd3e7 status: EXECUTING
2026-05-30 08:15:25,815 INFO Task task-0c84802ef290dd3e7 status: SUCCEEDED
2026-05-30 08:15:41,618 INFO Wrote export status to /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/export/fsx_export.yaml

╭────────────────────────────── Export complete ───────────────────────────────╮
│                                                                              │
│  Cluster: dyec-test                                                          │
│  FSx: fs-0df313e1751219cac                                                   │
│  Source:                                                                     │
│  /analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatednes  │
│  s_vep_multiqc/                                                              │
│  S3:                                                                         │
│  s3://lsmc-ssf-sequencing-data/derived/validation/dyec-test/ubuntu/ccv20260  │
│  529r30_illumina_snv_alignstats_relatedness_vep_multiqc/                     │
│  Status file:                                                                │
│  /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedne  │
│  ss_vep_multiqc/export/fsx_export.yaml                                       │
│                                                                              │
╰──────────────────────────────────────────────────────────────────────────────╯
## process tree
 902092   81703 Ss+        40:31  0.0  0.0 bash -lc source /home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/launch.sh >>/home/ubuntu/daylily-runs/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc/tmux.log 2>&1
 990837  902092 I+         02:16  0.1  0.0 rm -rf -- /fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc
## analysis dir
ABSENT /fsx/analysis_results/ubuntu/ccv20260529r30_illumina_snv_alignstats_relatedness_vep_multiqc
