DAY-EC activated.
DAY-EC activated.
timestamp_utc 2026-06-02T13:04:59Z
repo /fsx/analysis_results/ubuntu/bcl25b_full_shard008_retry1_20260602T115314Z/daylily-omics-analysis

== workflow status file ==
{
  "command": "bin/day_run produce_bclconvert_fastqs -p -j 300 -k --config run_context_file=config/runs.tsv bootstrap_bclconvert=true bclconvert='{\"barcode_mismatches_index1\":\"0\",\"barcode_mismatches_index2\":\"0\",\"compression_threads\":\"64\",\"conversion_threads\":\"4\",\"decompression_threads\":\"32\",\"fastq_gzip_compression_level\":\"1\",\"force\":\"true\",\"merge_lane_fastqs\":\"false\",\"merge_tile_fastqs\":\"false\",\"num_unknown_barcodes_reported\":\"1000\",\"output_legacy_stats\":\"true\",\"parallel_tiles\":\"24\",\"partition\":\"i192mem\",\"sample_sheet_settings\":\"{}\",\"sample_sheet_settings_by_lane\":\"{}\",\"shared_thread_odirect_output\":\"true\",\"threads\":\"192\",\"tile_compression_threads\":\"24\",\"tile_conversion_threads\":\"2\",\"tile_decompression_threads\":\"8\",\"tile_parallel_tiles\":\"8\",\"tile_shard_lanes\":\"L001,L002,L003,L004,L005,L006,L007,L008\",\"tile_shard_level\":\"8\",\"tile_shard_mem_mb\":\"180000\",\"tile_shard_threads\":\"48\",\"tmpdir\":\"/dev/shm\"}'",
  "completed_at": null,
  "exit_code": null,
  "repo_path": "/fsx/analysis_results/ubuntu/bcl25b_full_shard008_retry1_20260602T115314Z/daylily-omics-analysis",
  "session_name": "bcl25b_full_shard008_retry1_20260602T115314Z",
  "started_at": "2026-06-02T12:27:53Z"
}

== current squeue failed/retry targets ==
210|RUNNING|11:33|i192mem-dy-all-2|run_bclconvert_tile_shard-run_bclconvert_L002_0002_tiles0099-0196
209|RUNNING|11:34|i192mem-dy-all-2|run_bclconvert_tile_shard-run_bclconvert_L008_0006_tiles0491-0588
175|RUNNING|12:07|i192mem-dy-all-5|run_bclconvert_tile_shard-run_bclconvert_L005_0008_tiles0687-0784
176|RUNNING|12:07|i192mem-dy-all-5|run_bclconvert_tile_shard-run_bclconvert_L008_0001_tiles0001-0098
177|RUNNING|12:07|i192mem-dy-all-6|run_bclconvert_tile_shard-run_bclconvert_L007_0004_tiles0295-0392
178|RUNNING|12:07|i192mem-dy-all-6|run_bclconvert_tile_shard-run_bclconvert_L001_0002_tiles0099-0196
179|RUNNING|12:07|i192mem-dy-all-6|run_bclconvert_tile_shard-run_bclconvert_L005_0003_tiles0197-0294
180|RUNNING|12:07|i192mem-dy-all-6|run_bclconvert_tile_shard-run_bclconvert_L004_0007_tiles0589-0686
181|RUNNING|12:07|i192mem-dy-all-8|run_bclconvert_tile_shard-run_bclconvert_L004_0001_tiles0001-0098
182|RUNNING|12:07|i192mem-dy-all-8|run_bclconvert_tile_shard-run_bclconvert_L008_0008_tiles0687-0784
183|RUNNING|12:07|i192mem-dy-all-8|run_bclconvert_tile_shard-run_bclconvert_L002_0006_tiles0491-0588
184|RUNNING|12:07|i192mem-dy-all-8|run_bclconvert_tile_shard-run_bclconvert_L008_0002_tiles0099-0196
185|RUNNING|12:07|i192mem-dy-all-9|run_bclconvert_tile_shard-run_bclconvert_L001_0008_tiles0687-0784
186|RUNNING|12:07|i192mem-dy-all-9|run_bclconvert_tile_shard-run_bclconvert_L007_0005_tiles0393-0490
187|RUNNING|12:07|i192mem-dy-all-9|run_bclconvert_tile_shard-run_bclconvert_L006_0007_tiles0589-0686
188|RUNNING|12:07|i192mem-dy-all-9|run_bclconvert_tile_shard-run_bclconvert_L006_0001_tiles0001-0098
189|RUNNING|12:07|i192mem-dy-all-10|run_bclconvert_tile_shard-run_bclconvert_L005_0004_tiles0295-0392
190|RUNNING|12:07|i192mem-dy-all-10|run_bclconvert_tile_shard-run_bclconvert_L004_0008_tiles0687-0784
191|RUNNING|12:07|i192mem-dy-all-10|run_bclconvert_tile_shard-run_bclconvert_L004_0002_tiles0099-0196
192|RUNNING|12:07|i192mem-dy-all-10|run_bclconvert_tile_shard-run_bclconvert_L008_0003_tiles0197-0294
193|RUNNING|12:07|i192mem-dy-all-11|run_bclconvert_tile_shard-run_bclconvert_L001_0007_tiles0589-0686
194|RUNNING|12:07|i192mem-dy-all-11|run_bclconvert_tile_shard-run_bclconvert_L007_0006_tiles0491-0588
195|RUNNING|12:07|i192mem-dy-all-11|run_bclconvert_tile_shard-run_bclconvert_L004_0003_tiles0197-0294
196|RUNNING|12:07|i192mem-dy-all-11|run_bclconvert_tile_shard-run_bclconvert_L002_0007_tiles0589-0686
197|RUNNING|12:07|i192mem-dy-all-12|run_bclconvert_tile_shard-run_bclconvert_L008_0004_tiles0295-0392
198|RUNNING|12:07|i192mem-dy-all-12|run_bclconvert_tile_shard-run_bclconvert_L002_0003_tiles0197-0294
199|RUNNING|12:07|i192mem-dy-all-12|run_bclconvert_tile_shard-run_bclconvert_L001_0003_tiles0197-0294
200|RUNNING|12:07|i192mem-dy-all-12|run_bclconvert_tile_shard-run_bclconvert_L006_0003_tiles0197-0294
201|RUNNING|12:07|i192mem-dy-all-13|run_bclconvert_tile_shard-run_bclconvert_L005_0006_tiles0491-0588
202|RUNNING|12:07|i192mem-dy-all-13|run_bclconvert_tile_shard-run_bclconvert_L006_0008_tiles0687-0784
203|RUNNING|12:07|i192mem-dy-all-13|run_bclconvert_tile_shard-run_bclconvert_L004_0004_tiles0295-0392
204|RUNNING|12:07|i192mem-dy-all-13|run_bclconvert_tile_shard-run_bclconvert_L006_0002_tiles0099-0196
205|RUNNING|12:07|i192mem-dy-all-14|run_bclconvert_tile_shard-run_bclconvert_L002_0008_tiles0687-0784
206|RUNNING|12:07|i192mem-dy-all-14|run_bclconvert_tile_shard-run_bclconvert_L002_0001_tiles0001-0098
207|RUNNING|12:07|i192mem-dy-all-14|run_bclconvert_tile_shard-run_bclconvert_L005_0005_tiles0393-0490
208|RUNNING|12:07|i192mem-dy-all-14|run_bclconvert_tile_shard-run_bclconvert_L001_0004_tiles0295-0392
159|RUNNING|12:10|i192mem-dy-all-2|run_bclconvert_tile_shard-run_bclconvert_L002_0004_tiles0295-0392
160|RUNNING|12:10|i192mem-dy-all-2|run_bclconvert_tile_shard-run_bclconvert_L001_0006_tiles0491-0588
161|RUNNING|12:10|i192mem-dy-all-1|run_bclconvert_tile_shard-run_bclconvert_L007_0003_tiles0197-0294
162|RUNNING|12:10|i192mem-dy-all-1|run_bclconvert_tile_shard-run_bclconvert_L006_0006_tiles0491-0588
163|RUNNING|12:10|i192mem-dy-all-1|run_bclconvert_tile_shard-run_bclconvert_L001_0001_tiles0001-0098
164|RUNNING|12:10|i192mem-dy-all-1|run_bclconvert_tile_shard-run_bclconvert_L004_0006_tiles0491-0588
165|RUNNING|12:10|i192mem-dy-all-3|run_bclconvert_tile_shard-run_bclconvert_L004_0005_tiles0393-0490
166|RUNNING|12:10|i192mem-dy-all-3|run_bclconvert_tile_shard-run_bclconvert_L007_0008_tiles0687-0784
167|RUNNING|12:10|i192mem-dy-all-3|run_bclconvert_tile_shard-run_bclconvert_L001_0005_tiles0393-0490
168|RUNNING|12:10|i192mem-dy-all-3|run_bclconvert_tile_shard-run_bclconvert_L007_0002_tiles0099-0196
169|RUNNING|12:10|i192mem-dy-all-4|run_bclconvert_tile_shard-run_bclconvert_L006_0005_tiles0393-0490
170|RUNNING|12:10|i192mem-dy-all-4|run_bclconvert_tile_shard-run_bclconvert_L005_0007_tiles0589-0686
171|RUNNING|12:10|i192mem-dy-all-4|run_bclconvert_tile_shard-run_bclconvert_L005_0001_tiles0001-0098
172|RUNNING|12:10|i192mem-dy-all-4|run_bclconvert_tile_shard-run_bclconvert_L008_0005_tiles0393-0490
173|RUNNING|12:10|i192mem-dy-all-5|run_bclconvert_tile_shard-run_bclconvert_L007_0007_tiles0589-0686
174|RUNNING|12:10|i192mem-dy-all-5|run_bclconvert_tile_shard-run_bclconvert_L007_0001_tiles0001-0098
158|RUNNING|12:12|i192mem-dy-all-7|run_bclconvert_tile_shard-run_bclconvert_L006_0004_tiles0295-0392

== recent controller error lines ==
1552:Error in rule run_bclconvert_tile_shard:
1559:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1560:    cluster_jobid: 111
1746:Error in rule run_bclconvert_tile_shard:
1753:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1754:    cluster_jobid: 112
1759:Error in rule run_bclconvert_tile_shard:
1766:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1767:    cluster_jobid: 117
1771:Error in rule run_bclconvert_tile_shard:
1778:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1779:    cluster_jobid: 118
1783:Error in rule run_bclconvert_tile_shard:
1790:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1791:    cluster_jobid: 119
1807:Error in rule run_bclconvert_tile_shard:
1814:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1815:    cluster_jobid: 120
1821:Error in rule run_bclconvert_tile_shard:
1828:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1829:    cluster_jobid: 121
1833:Error in rule run_bclconvert_tile_shard:
1840:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1841:    cluster_jobid: 122
1845:Error in rule run_bclconvert_tile_shard:
1852:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1853:    cluster_jobid: 124
1858:Error in rule run_bclconvert_tile_shard:
1865:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1866:    cluster_jobid: 125
1870:Error in rule run_bclconvert_tile_shard:
1877:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1878:    cluster_jobid: 126
1882:Error in rule run_bclconvert_tile_shard:
1889:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1890:    cluster_jobid: 127
1908:Error in rule run_bclconvert_tile_shard:
1915:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1916:    cluster_jobid: 128
1920:Error in rule run_bclconvert_tile_shard:
1927:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1928:    cluster_jobid: 129
1932:Error in rule run_bclconvert_tile_shard:
1939:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1940:    cluster_jobid: 130
1944:Error in rule run_bclconvert_tile_shard:
1951:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1952:    cluster_jobid: 131
1957:Error in rule run_bclconvert_tile_shard:
1964:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1965:    cluster_jobid: 132
1969:Error in rule run_bclconvert_tile_shard:
1976:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1977:    cluster_jobid: 133
1981:Error in rule run_bclconvert_tile_shard:
1988:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
1989:    cluster_jobid: 135
1993:Error in rule run_bclconvert_tile_shard:
2000:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2001:    cluster_jobid: 136
2019:Error in rule run_bclconvert_tile_shard:
2026:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2027:    cluster_jobid: 137
2217:Error in rule run_bclconvert_tile_shard:
2224:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2225:    cluster_jobid: 138
2230:Error in rule run_bclconvert_tile_shard:
2237:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2238:    cluster_jobid: 139
2242:Error in rule run_bclconvert_tile_shard:
2249:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2250:    cluster_jobid: 140
2254:Error in rule run_bclconvert_tile_shard:
2261:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2262:    cluster_jobid: 141
2280:Error in rule run_bclconvert_tile_shard:
2287:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2288:    cluster_jobid: 143
2292:Error in rule run_bclconvert_tile_shard:
2299:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2300:    cluster_jobid: 144
2304:Error in rule run_bclconvert_tile_shard:
2311:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2312:    cluster_jobid: 145
2317:Error in rule run_bclconvert_tile_shard:
2324:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2325:    cluster_jobid: 146
2329:Error in rule run_bclconvert_tile_shard:
2336:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2337:    cluster_jobid: 147
2341:Error in rule run_bclconvert_tile_shard:
2348:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2349:    cluster_jobid: 148
2367:Error in rule run_bclconvert_tile_shard:
2374:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2375:    cluster_jobid: 149
2379:Error in rule run_bclconvert_tile_shard:
2386:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2387:    cluster_jobid: 150
2391:Error in rule run_bclconvert_tile_shard:
2398:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2399:    cluster_jobid: 151
2403:Error in rule run_bclconvert_tile_shard:
2410:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2411:    cluster_jobid: 152
2776:Error in rule run_bclconvert_tile_shard:
2783:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2784:    cluster_jobid: 95
2788:Error in rule run_bclconvert_tile_shard:
2795:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2796:    cluster_jobid: 96
2834:Error in rule run_bclconvert_tile_shard:
2841:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2842:    cluster_jobid: 155
2846:Error in rule run_bclconvert_tile_shard:
2853:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2854:    cluster_jobid: 153
2858:Error in rule run_bclconvert_tile_shard:
2865:        (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
2866:    cluster_jobid: 156

== relevant BCL Convert log tails ==
-- results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/logs/run_bclconvert.L008.0006_tiles0491-0588.log --
prepared_lane_samplesheet lane=8 settings={"BarcodeMismatchesIndex1": "0", "BarcodeMismatchesIndex2": "0"} out=results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_reports/L008/0006_tiles0491-0588/SampleSheet.csv
run_bclconvert_lane L008 started: 2026-06-02T12:53:31+00:00
host: i192mem-dy-all-2
threads: 48
TMPDIR: /dev/shm
bcl_input_directory: /fsx/analysis_results/ubuntu/bcl25b_full_shard008_retry1_20260602T115314Z/daylily-omics-analysis/config/run_dir_links/20260514_LH01106_0009_B23TVLGLT4
output_directory: results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_fastqs/L008/0006_tiles0491-0588
sample_sheet: results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_reports/L008/0006_tiles0491-0588/SampleSheet.csv
bcl_only_lane: 8
tile_regex: s_8_2201+s_8_2202+s_8_2203+s_8_2204+s_8_2205+s_8_2206+s_8_2207+s_8_2208+s_8_2209+s_8_2210+s_8_2211+s_8_2212+s_8_2213+s_8_2214+s_8_2215+s_8_2216+s_8_2217+s_8_2218+s_8_2219+s_8_2220+s_8_2221+s_8_2222+s_8_2223+s_8_2224+s_8_2225+s_8_2226+s_8_2227+s_8_2228+s_8_2229+s_8_2230+s_8_2231+s_8_2232+s_8_2233+s_8_2234+s_8_2235+s_8_2236+s_8_2237+s_8_2238+s_8_2239+s_8_2240+s_8_2241+s_8_2242+s_8_2243+s_8_2244+s_8_2245+s_8_2246+s_8_2247+s_8_2248+s_8_2249+s_8_2250+s_8_2251+s_8_2252+s_8_2253+s_8_2254+s_8_2255+s_8_2256+s_8_2257+s_8_2258+s_8_2259+s_8_2260+s_8_2261+s_8_2262+s_8_2263+s_8_2264+s_8_2265+s_8_2266+s_8_2267+s_8_2268+s_8_2269+s_8_2270+s_8_2271+s_8_2272+s_8_2273+s_8_2274+s_8_2275+s_8_2276+s_8_2277+s_8_2278+s_8_2279+s_8_2280+s_8_2281+s_8_2282+s_8_2283+s_8_2284+s_8_2285+s_8_2286+s_8_2287+s_8_2288+s_8_2289+s_8_2290+s_8_2291+s_8_2292+s_8_2293+s_8_2294+s_8_2295+s_8_2296+s_8_2297+s_8_2298
sample_sheet_settings_json: {"BarcodeMismatchesIndex1": "0", "BarcodeMismatchesIndex2": "0"}
sample_sheet_settings_by_lane_json: {}
output_legacy_stats: true
num_unknown_barcodes_reported: 1000
48
Filesystem                Size  Used Avail Use% Mounted on
tmpfs                     605G     0  605G   0% /dev/shm
10.0.1.248@tcp:/3vbzxb4v  6.6T  1.5T  5.1T  23% /fsx
10.0.1.248@tcp:/3vbzxb4v  6.6T  1.5T  5.1T  23% /fsx
/usr/bin/singularity
singularity_bind_args: --bind /fsx:/fsx
INFO:    Using cached SIF image
bcl-convert Version 00.000.000.4.0.3
Copyright (c) 2014-2018 Illumina, Inc. 
bcl_num_parallel_tiles: 8
bcl_num_conversion_threads: 2
bcl_num_compression_threads: 24
bcl_num_decompression_threads: 8
bcl_cpu_heavy_threads: 48
bcl-convert command: singularity exec --bind /fsx:/fsx docker://nfcore/bclconvert:4.0.3 bcl-convert --bcl-input-directory /fsx/analysis_results/ubuntu/bcl25b_full_shard008_retry1_20260602T115314Z/daylily-omics-analysis/config/run_dir_links/20260514_LH01106_0009_B23TVLGLT4 --output-directory results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_fastqs/L008/0006_tiles0491-0588 --sample-sheet results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_reports/L008/0006_tiles0491-0588/SampleSheet.csv --strict-mode false --first-tile-only false --bcl-sampleproject-subdirectories false --fastq-gzip-compression-level 1 --bcl-num-parallel-tiles 8 --bcl-num-conversion-threads 2 --bcl-num-compression-threads 24 --bcl-num-decompression-threads 8 --shared-thread-odirect-output true --output-legacy-stats true --num-unknown-barcodes-reported 1000 --tiles s_8_2201+s_8_2202+s_8_2203+s_8_2204+s_8_2205+s_8_2206+s_8_2207+s_8_2208+s_8_2209+s_8_2210+s_8_2211+s_8_2212+s_8_2213+s_8_2214+s_8_2215+s_8_2216+s_8_2217+s_8_2218+s_8_2219+s_8_2220+s_8_2221+s_8_2222+s_8_2223+s_8_2224+s_8_2225+s_8_2226+s_8_2227+s_8_2228+s_8_2229+s_8_2230+s_8_2231+s_8_2232+s_8_2233+s_8_2234+s_8_2235+s_8_2236+s_8_2237+s_8_2238+s_8_2239+s_8_2240+s_8_2241+s_8_2242+s_8_2243+s_8_2244+s_8_2245+s_8_2246+s_8_2247+s_8_2248+s_8_2249+s_8_2250+s_8_2251+s_8_2252+s_8_2253+s_8_2254+s_8_2255+s_8_2256+s_8_2257+s_8_2258+s_8_2259+s_8_2260+s_8_2261+s_8_2262+s_8_2263+s_8_2264+s_8_2265+s_8_2266+s_8_2267+s_8_2268+s_8_2269+s_8_2270+s_8_2271+s_8_2272+s_8_2273+s_8_2274+s_8_2275+s_8_2276+s_8_2277+s_8_2278+s_8_2279+s_8_2280+s_8_2281+s_8_2282+s_8_2283+s_8_2284+s_8_2285+s_8_2286+s_8_2287+s_8_2288+s_8_2289+s_8_2290+s_8_2291+s_8_2292+s_8_2293+s_8_2294+s_8_2295+s_8_2296+s_8_2297+s_8_2298 -f
INFO:    Using cached SIF image
WARNING: skipping lane 1 because RunInfo.xml file lists no tiles for it
WARNING: skipping lane 2 because RunInfo.xml file lists no tiles for it
WARNING: skipping lane 3 because RunInfo.xml file lists no tiles for it
WARNING: skipping lane 4 because RunInfo.xml file lists no tiles for it
WARNING: skipping lane 5 because RunInfo.xml file lists no tiles for it
WARNING: skipping lane 6 because RunInfo.xml file lists no tiles for it
WARNING: skipping lane 7 because RunInfo.xml file lists no tiles for it
-- results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/logs/run_bclconvert.L002.0002_tiles0099-0196.log --
prepared_lane_samplesheet lane=2 settings={"BarcodeMismatchesIndex1": "0", "BarcodeMismatchesIndex2": "0"} out=results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_reports/L002/0002_tiles0099-0196/SampleSheet.csv
run_bclconvert_lane L002 started: 2026-06-02T12:53:31+00:00
host: i192mem-dy-all-2
threads: 48
TMPDIR: /dev/shm
bcl_input_directory: /fsx/analysis_results/ubuntu/bcl25b_full_shard008_retry1_20260602T115314Z/daylily-omics-analysis/config/run_dir_links/20260514_LH01106_0009_B23TVLGLT4
output_directory: results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_fastqs/L002/0002_tiles0099-0196
sample_sheet: results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_reports/L002/0002_tiles0099-0196/SampleSheet.csv
bcl_only_lane: 2
tile_regex: s_2_1201+s_2_1202+s_2_1203+s_2_1204+s_2_1205+s_2_1206+s_2_1207+s_2_1208+s_2_1209+s_2_1210+s_2_1211+s_2_1212+s_2_1213+s_2_1214+s_2_1215+s_2_1216+s_2_1217+s_2_1218+s_2_1219+s_2_1220+s_2_1221+s_2_1222+s_2_1223+s_2_1224+s_2_1225+s_2_1226+s_2_1227+s_2_1228+s_2_1229+s_2_1230+s_2_1231+s_2_1232+s_2_1233+s_2_1234+s_2_1235+s_2_1236+s_2_1237+s_2_1238+s_2_1239+s_2_1240+s_2_1241+s_2_1242+s_2_1243+s_2_1244+s_2_1245+s_2_1246+s_2_1247+s_2_1248+s_2_1249+s_2_1250+s_2_1251+s_2_1252+s_2_1253+s_2_1254+s_2_1255+s_2_1256+s_2_1257+s_2_1258+s_2_1259+s_2_1260+s_2_1261+s_2_1262+s_2_1263+s_2_1264+s_2_1265+s_2_1266+s_2_1267+s_2_1268+s_2_1269+s_2_1270+s_2_1271+s_2_1272+s_2_1273+s_2_1274+s_2_1275+s_2_1276+s_2_1277+s_2_1278+s_2_1279+s_2_1280+s_2_1281+s_2_1282+s_2_1283+s_2_1284+s_2_1285+s_2_1286+s_2_1287+s_2_1288+s_2_1289+s_2_1290+s_2_1291+s_2_1292+s_2_1293+s_2_1294+s_2_1295+s_2_1296+s_2_1297+s_2_1298
sample_sheet_settings_json: {"BarcodeMismatchesIndex1": "0", "BarcodeMismatchesIndex2": "0"}
sample_sheet_settings_by_lane_json: {}
output_legacy_stats: true
num_unknown_barcodes_reported: 1000
48
Filesystem                Size  Used Avail Use% Mounted on
tmpfs                     605G     0  605G   0% /dev/shm
10.0.1.248@tcp:/3vbzxb4v  6.6T  1.5T  5.1T  23% /fsx
10.0.1.248@tcp:/3vbzxb4v  6.6T  1.5T  5.1T  23% /fsx
/usr/bin/singularity
singularity_bind_args: --bind /fsx:/fsx
INFO:    Using cached SIF image
bcl-convert Version 00.000.000.4.0.3
Copyright (c) 2014-2018 Illumina, Inc. 
bcl_num_parallel_tiles: 8
bcl_num_conversion_threads: 2
bcl_num_compression_threads: 24
bcl_num_decompression_threads: 8
bcl_cpu_heavy_threads: 48
bcl-convert command: singularity exec --bind /fsx:/fsx docker://nfcore/bclconvert:4.0.3 bcl-convert --bcl-input-directory /fsx/analysis_results/ubuntu/bcl25b_full_shard008_retry1_20260602T115314Z/daylily-omics-analysis/config/run_dir_links/20260514_LH01106_0009_B23TVLGLT4 --output-directory results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_fastqs/L002/0002_tiles0099-0196 --sample-sheet results/runs/20260514_LH01106_0009_B23TVLGLT4/bclconvert/tile_reports/L002/0002_tiles0099-0196/SampleSheet.csv --strict-mode false --first-tile-only false --bcl-sampleproject-subdirectories false --fastq-gzip-compression-level 1 --bcl-num-parallel-tiles 8 --bcl-num-conversion-threads 2 --bcl-num-compression-threads 24 --bcl-num-decompression-threads 8 --shared-thread-odirect-output true --output-legacy-stats true --num-unknown-barcodes-reported 1000 --tiles s_2_1201+s_2_1202+s_2_1203+s_2_1204+s_2_1205+s_2_1206+s_2_1207+s_2_1208+s_2_1209+s_2_1210+s_2_1211+s_2_1212+s_2_1213+s_2_1214+s_2_1215+s_2_1216+s_2_1217+s_2_1218+s_2_1219+s_2_1220+s_2_1221+s_2_1222+s_2_1223+s_2_1224+s_2_1225+s_2_1226+s_2_1227+s_2_1228+s_2_1229+s_2_1230+s_2_1231+s_2_1232+s_2_1233+s_2_1234+s_2_1235+s_2_1236+s_2_1237+s_2_1238+s_2_1239+s_2_1240+s_2_1241+s_2_1242+s_2_1243+s_2_1244+s_2_1245+s_2_1246+s_2_1247+s_2_1248+s_2_1249+s_2_1250+s_2_1251+s_2_1252+s_2_1253+s_2_1254+s_2_1255+s_2_1256+s_2_1257+s_2_1258+s_2_1259+s_2_1260+s_2_1261+s_2_1262+s_2_1263+s_2_1264+s_2_1265+s_2_1266+s_2_1267+s_2_1268+s_2_1269+s_2_1270+s_2_1271+s_2_1272+s_2_1273+s_2_1274+s_2_1275+s_2_1276+s_2_1277+s_2_1278+s_2_1279+s_2_1280+s_2_1281+s_2_1282+s_2_1283+s_2_1284+s_2_1285+s_2_1286+s_2_1287+s_2_1288+s_2_1289+s_2_1290+s_2_1291+s_2_1292+s_2_1293+s_2_1294+s_2_1295+s_2_1296+s_2_1297+s_2_1298 -f
INFO:    Using cached SIF image
WARNING: skipping lane 1 because RunInfo.xml file lists no tiles for it

== matching slurm/snakemake logs ==
./logs/slurm/run_bclconvert_tile_shard/run_bclconvert_tile_shard.run_bclconvert_L002_0002_tiles0099-0196.14.err
./logs/slurm/run_bclconvert_tile_shard/run_bclconvert_tile_shard.run_bclconvert_L002_0002_tiles0099-0196.14.out
./logs/slurm/run_bclconvert_tile_shard/run_bclconvert_tile_shard.run_bclconvert_L008_0006_tiles0491-0588.72.err
./logs/slurm/run_bclconvert_tile_shard/run_bclconvert_tile_shard.run_bclconvert_L008_0006_tiles0491-0588.72.out

== slurm error/out--output truncated--