DAY-EC activated.
DAY-EC activated.
status:
{
  "command": "bin/day_run produce_bclconvert_fastqs_and_metrics -p -j 20 -k --config run_context_file=config/runs.tsv bootstrap_bclconvert=true",
  "completed_at": null,
  "exit_code": null,
  "repo_path": "/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis",
  "session_name": "ccv20260529r26_illumina_bclconvert",
  "started_at": "2026-05-30T06:33:14Z"
}

active_bcl_config:
109-    partition: "i192,i192mem"
110-
111:bclconvert:
112-    run_dir: ""
113-    sample_sheet: "SampleSheet.csv"
114-    output_root: "results/bclconvert"
115-    run_id: ""
116-    libprep: "PCR-FREE"
117-    seq_vendor: "ILMN"
118-    seq_platform_override: ""
119-    force: "true"
120-    keep_undetermined_fastqs: true
121-    sampleproject_subdirectories: false
122-    strict_mode: false
123-    first_tile_only: false
124-    extra_args: ""
125-    threads: 192
126-    mem_mb: 180000
127-    partition: "i192mem"
128-    tmpdir: "/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch"
129-    staging_mode: "mounted_dev_shm"
130-    scratch_root: "/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch"
131-    scratch_size_multiplier: 4
132-    retain_scratch: false
133-    mounted_stage_jobs: 64
134-    parallel_tiles: 8
135-    conversion_threads: 8
136-    compression_threads: 12
137-    decompression_threads: 4
138-    fastq_gzip_compression_level: 1
139-    shared_thread_odirect_output: false
140-
141-bcl2fq_by_lane:
142-    threads: 16
143-    partition: "i192,i192mem"

config_tables:
-rw-rw-r-- 1 ubuntu ubuntu  486 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/config/runs.tsv
-rw-rw-r-- 1 ubuntu ubuntu 3213 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/config/samples.tsv
config/units.tsv missing

run_log_tail:
run_bclconvert started: 2026-05-30T06:33:47+00:00
host: i192mem-dy-all-1
threads: 192
resources_mem_mb: 180000
TMPDIR: /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch
staging_mode: mounted_dev_shm
scratch_root: /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch
bcl_input_directory: /fsx/run_dir_mounts/20260514_LH01106_0009_B23TVLGLT4/
source_s3_uri: s3://lsmc-ssf-sequencing-data/basecalls/lsmc/ssf-hq/LH01106/2026/20260514_LH01106_0009_B23TVLGLT4/
output_directory: results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/fastqs
192
Filesystem               Size  Used Avail Use% Mounted on
10.0.1.96@tcp:/d4tzvb4v  8.8T  195G  8.6T   3% /fsx
10.0.1.96@tcp:/d4tzvb4v  8.8T  195G  8.6T   3% /fsx
/usr/bin/singularity
INFO:    Using cached SIF image
bcl-convert Version 00.000.000.4.0.3
Copyright (c) 2014-2018 Illumina, Inc.
scratch_dir: /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306
scratch_input_basis: mounted_metadata_plus_lane_root
scratch_root_file_bytes: 4536017
scratch_intensities_file_bytes: 52032652
scratch_lane_root_disk_bytes: 92860928
scratch_input_disk_bytes: 149429597
scratch_input_apparent_bytes: 149429597
scratch_required_bytes: 1671460212
scratch_available_bytes: 9361524129792
Staging mounted BCL run directory to scratch: 2026-05-30T06:33:54+00:00
mounted_stage_lanes: L001 L002 L003 L004 L005 L006 L007 L008
mounted_stage_jobs: 64
mounted_stage_cycle_dirs: 2576
mounted_stage_regular_files: 11424
Copying mounted BCL files with sharded cp: 2026-05-30T06:34:06+00:00

scratch_tree:
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306
drwxrwxr-x 4 ubuntu ubuntu 33280 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run
drwxrwxr-x 3 ubuntu ubuntu 33280 May 30 06:34 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/Data
drwxrwxr-x 3 ubuntu ubuntu 33280 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/Data
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/Manifest.tsv
-rwxr-xr-x 1 ubuntu ubuntu 4367440 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/Manifest.tsv
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/CopyComplete.txt
-rwxr-xr-x 1 ubuntu ubuntu 0 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/CopyComplete.txt
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RTAComplete.txt
-rwxr-xr-x 1 ubuntu ubuntu 1 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RTAComplete.txt
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RunParameters.xml
-rwxr-xr-x 1 ubuntu ubuntu 3559 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RunParameters.xml
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/OOW.done
-rwxr-xr-x 1 ubuntu ubuntu 794 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/OOW.done
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RTAExited.txt
-rwxr-xr-x 1 ubuntu ubuntu 2 May 30 06:34 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RTAExited.txt
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RunInfo.xml
-rwxr-xr-x 1 ubuntu ubuntu 157676 May 30 06:33 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RunInfo.xml
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RunCompletionStatus.xml
-rwxr-xr-x 1 ubuntu ubuntu 803 May 30 06:34 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/RunCompletionStatus.xml
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/SampleSheet.csv
-rwxr-xr-x 1 ubuntu ubuntu 5742 May 30 06:34 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/run/SampleSheet.csv
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/rsync_logs
drwxrwxr-x 2 ubuntu ubuntu 33280 May 30 06:34 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/rsync_logs
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/rsync_logs/cycle_dirs.txt
-rw-rw-r-- 1 ubuntu ubuntu 30048 May 30 06:34 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/rsync_logs/cycle_dirs.txt
/fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/rsync_logs/basecall_files.nul
-rw-rw-r-- 1 ubuntu ubuntu 253632 May 30 06:34 /fsx/analysis_results/ubuntu/ccv20260529r26_illumina_bclconvert/daylily-omics-analysis/.bclconvert_scratch/2660.35306/rsync_logs/basecall_files.nul

slurm:
             JOBID PARTITION         NAME     USER ST       TIME  NODES NODELIST(REASON)
              2660   i192mem run_bclconve   ubuntu  R       1:48      1 i192mem-dy-all-1
