Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/aa/18fe20dd395ab631b4f57a91fcdb12/659_buD-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/81/01bc5c520730167950720409030b9c/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/81/01bc5c520730167950720409030b9c/.command.run
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa.fai
==> STAGING COMPLETE (5 inputs)
Using GATK jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar
Running:
java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx60620M -XX:-UsePerfData -XX:ParallelGCThreads=2 -jar /usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar MarkDuplicates --INPUT 659_buD-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam --OUTPUT 659_buD-T1-TRNA-1_A23MVY2LT4_2.md.bam --METRICS_FILE 659_buD-T1-TRNA-1_A23MVY2LT4_2.md.bam.metrics --TMP_DIR . --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa -REMOVE_DUPLICATES false -VALIDATION_STRINGENCY LENIENT
08:38:19.542 INFO NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.4.0.0-0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Mon Jun 08 08:38:19 GMT 2026] MarkDuplicates --INPUT 659_buD-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam --OUTPUT 659_buD-T1-TRNA-1_A23MVY2LT4_2.md.bam --METRICS_FILE 659_buD-T1-TRNA-1_A23MVY2LT4_2.md.bam.metrics --REMOVE_DUPLICATES false --TMP_DIR . --VALIDATION_STRINGENCY LENIENT --CREATE_INDEX true --REFERENCE_SEQUENCE ref_genome.fa --MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP 50000 --MAX_FILE_HANDLES_FOR_READ_ENDS_MAP 8000 --SORTING_COLLECTION_SIZE_RATIO 0.25 --TAG_DUPLICATE_SET_MEMBERS false --REMOVE_SEQUENCING_DUPLICATES false --TAGGING_POLICY DontTag --CLEAR_DT true --DUPLEX_UMI false --FLOW_MODE false --FLOW_QUALITY_SUM_STRATEGY false --USE_END_IN_UNPAIRED_READS false --USE_UNPAIRED_CLIPPED_END false --UNPAIRED_END_UNCERTAINTY 0 --FLOW_SKIP_FIRST_N_FLOWS 0 --FLOW_Q_IS_KNOWN_END false --FLOW_EFFECTIVE_QUALITY_THRESHOLD 15 --ADD_PG_TAG_TO_READS true --ASSUME_SORTED false --DUPLICATE_SCORING_STRATEGY SUM_OF_BASE_QUALITIES --PROGRAM_RECORD_ID MarkDuplicates --PROGRAM_GROUP_NAME MarkDuplicates --READ_NAME_REGEX <optimized capture of last three ':' separated fields as numeric values> --OPTICAL_DUPLICATE_PIXEL_DISTANCE 100 --MAX_OPTICAL_DUPLICATE_SET_SIZE 300000 --VERBOSITY INFO --QUIET false --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Mon Jun 08 08:38:19 GMT 2026] Executing as ?@nf-8101bc5c520730167950720409030b9c-6b581-f5w5n on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.3-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.4.0.0
INFO 2026-06-08 08:38:19 MarkDuplicates Start of doWork freeMemory: 105491872; totalMemory: 134217728; maxMemory: 63585648640
INFO 2026-06-08 08:38:19 MarkDuplicates Reading input file and constructing read end information.
INFO 2026-06-08 08:38:19 MarkDuplicates Will retain up to 230382784 data points before spilling to disk.
INFO 2026-06-08 08:38:23 MarkDuplicates Read 1,000,000 records. Elapsed time: 00:00:02s. Time for last 1,000,000: 2s. Last read position: chr1:2,189,697
INFO 2026-06-08 08:38:23 MarkDuplicates Tracking 3527 as yet unmatched pairs. 268 records in RAM.
INFO 2026-06-08 08:38:26 MarkDuplicates Read 2,000,000 records. Elapsed time: 00:00:04s. Time for last 1,000,000: 2s. Last read position: chr1:9,720,852
INFO 2026-06-08 08:38:26 MarkDuplicates Tracking 6654 as yet unmatched pairs. 204 records in RAM.
INFO 2026-06-08 08:38:27 MarkDuplicates Read 3,000,000 records. Elapsed time: 00:00:06s. Time for last 1,000,000: 1s. Last read position: chr1:12,283,174
INFO 2026-06-08 08:38:27 MarkDuplicates Tracking 9886 as yet unmatched pairs. 473 records in RAM.
INFO 2026-06-08 08:38:29 MarkDuplicates Read 4,000,000 records. Elapsed time: 00:00:08s. Time for last 1,000,000: 1s. Last read position: chr1:17,084,639
INFO 2026-06-08 08:38:29 MarkDuplicates Tracking 12754 as yet unmatched pairs. 831 records in RAM.
INFO 2026-06-08 08:38:31 MarkDuplicates Read 5,000,000 records. Elapsed time: 00:00:10s. Time for last 1,000,000: 1s. Last read position: chr1:21,050,958
INFO 2026-06-08 08:38:31 MarkDuplicates Tracking 14994 as yet unmatched pairs. 199 records in RAM.
INFO 2026-06-08 08:38:33 MarkDuplicates Read 6,000,000 records. Elapsed time: 00:00:12s. Time for last 1,000,000: 1s. Last read position: chr1:22,639,256
INFO 2026-06-08 08:38:33 MarkDuplicates Tracking 20655 as yet unmatched pairs. 2595 records in RAM.
INFO 2026-06-08 08:38:35 MarkDuplicates Read 7,000,000 records. Elapsed time: 00:00:14s. Time for last 1,000,000: 2s. Last read position: chr1:25,808,702
INFO 2026-06-08 08:38:35 MarkDuplicates Tracking 21505 as yet unmatched pairs. 651 records in RAM.
INFO 2026-06-08 08:38:37 MarkDuplicates Read 8,000,000 records. Elapsed time: 00:00:16s. Time for last 1,000,000: 1s. Last read position: chr1:27,551,825
INFO 2026-06-08 08:38:37 MarkDuplicates Tracking 23856 as yet unmatched pairs. 283 records in RAM.
INFO 2026-06-08 08:38:39 MarkDuplicates Read 9,000,000 records. Elapsed time: 00:00:18s. Time for last 1,000,000: 1s. Last read position: chr1:31,630,554
INFO 2026-06-08 08:38:39 MarkDuplicates Tracking 26735 as yet unmatched pairs. 244 records in RAM.
INFO 2026-06-08 08:38:40 MarkDuplicates Read 10,000,000 records. Elapsed time: 00:00:19s. Time for last 1,000,000: 1s. Last read position: chr1:33,334,090
INFO 2026-06-08 08:38:40 MarkDuplicates Tracking 29817 as yet unmatched pairs. 256 records in RAM.
INFO 2026-06-08 08:38:43 MarkDuplicates Read 11,000,000 records. Elapsed time: 00:00:21s. Time for last 1,000,000: 2s. Last read position: chr1:38,991,367
INFO 2026-06-08 08:38:43 MarkDuplicates Tracking 32591 as yet unmatched pairs. 131 records in RAM.
INFO 2026-06-08 08:38:46 MarkDuplicates Read 12,000,000 records. Elapsed time: 00:00:25s. Time for last 1,000,000: 3s. Last read position: chr1:40,270,116
INFO 2026-06-08 08:38:46 MarkDuplicates Tracking 35551 as yet unmatched pairs. 357 records in RAM.
INFO 2026-06-08 08:38:48 MarkDuplicates Read 13,000,000 records. Elapsed time: 00:00:26s. Time for last 1,000,000: 1s. Last read position: chr1:43,591,217
INFO 2026-06-08 08:38:48 MarkDuplicates Tracking 39935 as yet unmatched pairs. 1712 records in RAM.
INFO 2026-06-08 08:38:49 MarkDuplicates Read 14,000,000 records. Elapsed time: 00:00:28s. Time for last 1,000,000: 1s. Last read position: chr1:45,569,141
INFO 2026-06-08 08:38:49 MarkDuplicates Tracking 41916 as yet unmatched pairs. 695 records in RAM.
INFO 2026-06-08 08:38:51 MarkDuplicates Read 15,000,000 records. Elapsed time: 00:00:30s. Time for last 1,000,000: 1s. Last read position: chr1:52,383,555
INFO 2026-06-08 08:38:51 MarkDuplicates Tracking 44131 as yet unmatched pairs. 68 records in RAM.
INFO 2026-06-08 08:38:53 MarkDuplicates Read 16,000,000 records. Elapsed time: 00:00:32s. Time for last 1,000,000: 1s. Last read position: chr1:58,782,980
INFO 2026-06-08 08:38:53 MarkDuplicates Tracking 47636 as yet unmatched pairs. 503 records in RAM.
INFO 2026-06-08 08:38:55 MarkDuplicates Read 17,000,000 records. Elapsed time: 00:00:33s. Time for last 1,000,000: 1s. Last read position: chr1:77,632,340
INFO 2026-06-08 08:38:55 MarkDuplicates Tracking 50024 as yet unmatched pairs. 272 records in RAM.
INFO 2026-06-08 08:38:56 MarkDuplicates Read 18,000,000 records. Elapsed time: 00:00:35s. Time for last 1,000,000: 1s. Last read position: chr1:92,030,061
INFO 2026-06-08 08:38:56 MarkDuplicates Tracking 52548 as yet unmatched pairs. 74 records in RAM.
INFO 2026-06-08 08:38:58 MarkDuplicates Read 19,000,000 records. Elapsed time: 00:00:37s. Time for last 1,000,000: 1s. Last read position: chr1:102,890,465
INFO 2026-06-08 08:38:58 MarkDuplicates Tracking 55142 as yet unmatched pairs. 250 records in RAM.
INFO 2026-06-08 08:39:00 MarkDuplicates Read 20,000,000 records. Elapsed time: 00:00:38s. Time for last 1,000,000: 1s. Last read position: chr1:109,250,570
INFO 2026-06-08 08:39:00 MarkDuplicates Tracking 56858 as yet unmatched pairs. 213 records in RAM.
INFO 2026-06-08 08:39:01 MarkDuplicates Read 21,000,000 records. Elapsed time: 00:00:40s. Time for last 1,000,000: 1s. Last read position: chr1:111,242,305
INFO 2026-06-08 08:39:01 MarkDuplicates Tracking 64043 as yet unmatched pairs. 4627 records in RAM.
INFO 2026-06-08 08:39:03 MarkDuplicates Read 22,000,000 records. Elapsed time: 00:00:42s. Time for last 1,000,000: 1s. Last read position: chr1:114,725,314
INFO 2026-06-08 08:39:03 MarkDuplicates Tracking 64451 as yet unmatched pairs. 2231 records in RAM.
INFO 2026-06-08 08:39:04 MarkDuplicates Read 23,000,000 records. Elapsed time: 00:00:43s. Time for last 1,000,000: 1s. Last read position: chr1:119,916,145
INFO 2026-06-08 08:39:04 MarkDuplicates Tracking 66880 as yet unmatched pairs. 1902 records in RAM.
INFO 2026-06-08 08:39:06 MarkDuplicates Read 24,000,000 records. Elapsed time: 00:00:45s. Time for last 1,000,000: 1s. Last read position: chr1:119,959,432
INFO 2026-06-08 08:39:06 MarkDuplicates Tracking 71968 as yet unmatched pairs. 4111 records in RAM.
INFO 2026-06-08 08:39:08 MarkDuplicates Read 25,000,000 records. Elapsed time: 00:00:47s. Time for last 1,000,000: 2s. Last read position: chr1:120,833,688
INFO 2026-06-08 08:39:08 MarkDuplicates Tracking 70979 as yet unmatched pairs. 1244 records in RAM.
INFO 2026-06-08 08:39:10 MarkDuplicates Read 26,000,000 records. Elapsed time: 00:00:49s. Time for last 1,000,000: 1s. Last read position: chr1:146,078,235
INFO 2026-06-08 08:39:10 MarkDuplicates Tracking 72051 as yet unmatched pairs. 502 records in RAM.
INFO 2026-06-08 08:39:12 MarkDuplicates Read 27,000,000 records. Elapsed time: 00:00:51s. Time for last 1,000,000: 1s. Last read position: chr1:147,624,451
INFO 2026-06-08 08:39:12 MarkDuplicates Tracking 72816 as yet unmatched pairs. 202 records in RAM.
INFO 2026-06-08 08:39:13 MarkDuplicates Read 28,000,000 records. Elapsed time: 00:00:52s. Time for last 1,000,000: 1s. Last read position: chr1:148,587,363
INFO 2026-06-08 08:39:13 MarkDuplicates Tracking 73905 as yet unmatched pairs. 689 records in RAM.
INFO 2026-06-08 08:39:15 MarkDuplicates Read 29,000,000 records. Elapsed time: 00:00:54s. Time for last 1,000,000: 1s. Last read position: chr1:149,486,127
INFO 2026-06-08 08:39:15 MarkDuplicates Tracking 74725 as yet unmatched pairs. 324 records in RAM.
INFO 2026-06-08 08:39:17 MarkDuplicates Read 30,000,000 records. Elapsed time: 00:00:55s. Time for last 1,000,000: 1s. Last read position: chr1:150,266,632
INFO 2026-06-08 08:39:17 MarkDuplicates Tracking 78736 as yet unmatched pairs. 2207 records in RAM.
INFO 2026-06-08 08:39:18 MarkDuplicates Read 31,000,000 records. Elapsed time: 00:00:57s. Time for last 1,000,000: 1s. Last read position: chr1:150,832,347
INFO 2026-06-08 08:39:18 MarkDuplicates Tracking 79739 as yet unmatched pairs. 402 records in RAM.
INFO 2026-06-08 08:39:20 MarkDuplicates Read 32,000,000 records. Elapsed time: 00:00:59s. Time for last 1,000,000: 1s. Last read position: chr1:151,404,870
INFO 2026-06-08 08:39:20 MarkDuplicates Tracking 83156 as yet unmatched pairs. 1007 records in RAM.
INFO 2026-06-08 08:39:22 MarkDuplicates Read 33,000,000 records. Elapsed time: 00:01:01s. Time for last 1,000,000: 2s. Last read position: chr1:153,630,509
INFO 2026-06-08 08:39:22 MarkDuplicates Tracking 95628 as yet unmatched pairs. 10840 records in RAM.
INFO 2026-06-08 08:39:24 MarkDuplicates Read 34,000,000 records. Elapsed time: 00:01:03s. Time for last 1,000,000: 1s. Last read position: chr1:154,157,598
INFO 2026-06-08 08:39:24 MarkDuplicates Tracking 98534 as yet unmatched pairs. 10915 records in RAM.
INFO 2026-06-08 08:39:26 MarkDuplicates Read 35,000,000 records. Elapsed time: 00:01:04s. Time for last 1,000,000: 1s. Last read position: chr1:154,275,233
INFO 2026-06-08 08:39:26 MarkDuplicates Tracking 90663 as yet unmatched pairs. 531 records in RAM.
INFO 2026-06-08 08:39:27 MarkDuplicates Read 36,000,000 records. Elapsed time: 00:01:06s. Time for last 1,000,000: 1s. Last read position: chr1:155,053,908
INFO 2026-06-08 08:39:27 MarkDuplicates Tracking 94771 as yet unmatched pairs. 1663 records in RAM.
INFO 2026-06-08 08:39:29 MarkDuplicates Read 37,000,000 records. Elapsed time: 00:01:08s. Time for last 1,000,000: 1s. Last read position: chr1:155,322,651
INFO 2026-06-08 08:39:29 MarkDuplicates Tracking 96144 as yet unmatched pairs. 175 records in RAM.
INFO 2026-06-08 08:39:32 MarkDuplicates Read 38,000,000 records. Elapsed time: 00:01:11s. Time for last 1,000,000: 2s. Last read position: chr1:155,926,672
INFO 2026-06-08 08:39:32 MarkDuplicates Tracking 98581 as yet unmatched pairs. 160 records in RAM.
INFO 2026-06-08 08:39:34 MarkDuplicates Read 39,000,000 records. Elapsed time: 00:01:12s. Time for last 1,000,000: 1s. Last read position: chr1:156,136,036
INFO 2026-06-08 08:39:34 MarkDuplicates Tracking 105876 as yet unmatched pairs. 3713 records in RAM.
INFO 2026-06-08 08:39:36 MarkDuplicates Read 40,000,000 records. Elapsed time: 00:01:15s. Time for last 1,000,000: 2s. Last read position: chr1:156,311,111
INFO 2026-06-08 08:39:36 MarkDuplicates Tracking 105792 as yet unmatched pairs. 487 records in RAM.
INFO 2026-06-08 08:39:37 MarkDuplicates Read 41,000,000 records. Elapsed time: 00:01:16s. Time for last 1,000,000: 1s. Last read position: chr1:159,016,596
INFO 2026-06-08 08:39:37 MarkDuplicates Tracking 108375 as yet unmatched pairs. 326 records in RAM.
INFO 2026-06-08 08:39:39 MarkDuplicates Read 42,000,000 records. Elapsed time: 00:01:18s. Time for last 1,000,000: 1s. Last read position: chr1:160,356,276
INFO 2026-06-08 08:39:39 MarkDuplicates Tracking 112423 as yet unmatched pairs. 1331 records in RAM.
INFO 2026-06-08 08:39:41 MarkDuplicates Read 43,000,000 records. Elapsed time: 00:01:20s. Time for last 1,000,000: 1s. Last read position: chr1:161,509,860
INFO 2026-06-08 08:39:41 MarkDuplicates Tracking 114836 as yet unmatched pairs. 1008 records in RAM.
INFO 2026-06-08 08:39:43 MarkDuplicates Read 44,000,000 records. Elapsed time: 00:01:22s. Time for last 1,000,000: 2s. Last read position: chr1:166,070,524
INFO 2026-06-08 08:39:43 MarkDuplicates Tracking 116349 as yet unmatched pairs. 60 records in RAM.
INFO 2026-06-08 08:39:45 MarkDuplicates Read 45,000,000 records. Elapsed time: 00:01:24s. Time for last 1,000,000: 1s. Last read position: chr1:171,536,141
INFO 2026-06-08 08:39:45 MarkDuplicates Tracking 119686 as yet unmatched pairs. 673 records in RAM.
INFO 2026-06-08 08:39:47 MarkDuplicates Read 46,000,000 records. Elapsed time: 00:01:25s. Time for last 1,000,000: 1s. Last read position: chr1:179,323,482
INFO 2026-06-08 08:39:47 MarkDuplicates Tracking 122480 as yet unmatched pairs. 661 records in RAM.
INFO 2026-06-08 08:39:48 MarkDuplicates Read 47,000,000 records. Elapsed time: 00:01:27s. Time for last 1,000,000: 1s. Last read position: chr1:183,127,376
INFO 2026-06-08 08:39:48 MarkDuplicates Tracking 125042 as yet unmatched pairs. 317 records in RAM.
INFO 2026-06-08 08:39:50 MarkDuplicates Read 48,000,000 records. Elapsed time: 00:01:29s. Time for last 1,000,000: 1s. Last read position: chr1:186,357,438
INFO 2026-06-08 08:39:50 MarkDuplicates Tracking 127781 as yet unmatched pairs. 532 records in RAM.
INFO 2026-06-08 08:39:52 MarkDuplicates Read 49,000,000 records. Elapsed time: 00:01:31s. Time for last 1,000,000: 1s. Last read position: chr1:201,209,391
INFO 2026-06-08 08:39:52 MarkDuplicates Tracking 129931 as yet unmatched pairs. 12 records in RAM.
INFO 2026-06-08 08:39:54 MarkDuplicates Read 50,000,000 records. Elapsed time: 00:01:32s. Time for last 1,000,000: 1s. Last read position: chr1:203,185,342
INFO 2026-06-08 08:39:54 MarkDuplicates Tracking 135684 as yet unmatched pairs. 2897 records in RAM.
INFO 2026-06-08 08:39:55 MarkDuplicates Read 51,000,000 records. Elapsed time: 00:01:34s. Time for last 1,000,000: 1s. Last read position: chr1:204,957,656
INFO 2026-06-08 08:39:55 MarkDuplicates Tracking 136258 as yet unmatched pairs. 954 records in RAM.
INFO 2026-06-08 08:39:57 MarkDuplicates Read 52,000,000 records. Elapsed time: 00:01:36s. Time for last 1,000,000: 1s. Last read position: chr1:207,767,081
INFO 2026-06-08 08:39:57 MarkDuplicates Tracking 138669 as yet unmatched pairs. 647 records in RAM.
INFO 2026-06-08 08:39:58 MarkDuplicates Read 53,000,000 records. Elapsed time: 00:01:37s. Time for last 1,000,000: 1s. Last read position: chr1:220,007,242
INFO 2026-06-08 08:39:58 MarkDuplicates Tracking 141104 as yet unmatched pairs. 311 records in RAM.
INFO 2026-06-08 08:40:00 MarkDuplicates Read 54,000,000 records. Elapsed time: 00:01:39s. Time for last 1,000,000: 1s. Last read position: chr1:226,735,653
INFO 2026-06-08 08:40:00 MarkDuplicates Tracking 143786 as yet unmatched pairs. 442 records in RAM.
INFO 2026-06-08 08:40:04 MarkDuplicates Read 55,000,000 records. Elapsed time: 00:01:43s. Time for last 1,000,000: 3s. Last read position: chr1:234,607,280
INFO 2026-06-08 08:40:04 MarkDuplicates Tracking 147519 as yet unmatched pairs. 1014 records in RAM.
INFO 2026-06-08 08:40:06 MarkDuplicates Read 56,000,000 records. Elapsed time: 00:01:45s. Time for last 1,000,000: 1s. Last read position: chr1:244,858,265
INFO 2026-06-08 08:40:06 MarkDuplicates Tracking 151433 as yet unmatched pairs. 2130 records in RAM.
INFO 2026-06-08 08:40:09 MarkDuplicates Read 57,000,000 records. Elapsed time: 00:01:48s. Time for last 1,000,000: 3s. Last read position: chr2:8,818,725
INFO 2026-06-08 08:40:09 MarkDuplicates Tracking 153273 as yet unmatched pairs. 152642 records in RAM.
INFO 2026-06-08 08:40:11 MarkDuplicates Read 58,000,000 records. Elapsed time: 00:01:50s. Time for last 1,000,000: 1s. Last read position: chr2:19,973,598
INFO 2026-06-08 08:40:11 MarkDuplicates Tracking 154880 as yet unmatched pairs. 154243 records in RAM.
INFO 2026-06-08 08:40:13 MarkDuplicates Read 59,000,000 records. Elapsed time: 00:01:51s. Time for last 1,000,000: 1s. Last read position: chr2:24,707,672
INFO 2026-06-08 08:40:13 MarkDuplicates Tracking 158314 as yet unmatched pairs. 157654 records in RAM.
INFO 2026-06-08 08:40:14 MarkDuplicates Read 60,000,000 records. Elapsed time: 00:01:53s. Time for last 1,000,000: 1s. Last read position: chr2:27,225,139
INFO 2026-06-08 08:40:14 MarkDuplicates Tracking 160703 as yet unmatched pairs. 160035 records in RAM.
INFO 2026-06-08 08:40:16 MarkDuplicates Read 61,000,000 records. Elapsed time: 00:01:55s. Time for last 1,000,000: 1s. Last read position: chr2:28,793,910
INFO 2026-06-08 08:40:16 MarkDuplicates Tracking 173326 as yet unmatched pairs. 172634 records in RAM.
INFO 2026-06-08 08:40:18 MarkDuplicates Read 62,000,000 records. Elapsed time: 00:01:57s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,254
INFO 2026-06-08 08:40:18 MarkDuplicates Tracking 213325 as yet unmatched pairs. 160845 records in RAM.
INFO 2026-06-08 08:40:20 MarkDuplicates Read 63,000,000 records. Elapsed time: 00:01:59s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,264
INFO 2026-06-08 08:40:20 MarkDuplicates Tracking 482715 as yet unmatched pairs. 137487 records in RAM.
INFO 2026-06-08 08:40:22 MarkDuplicates Read 64,000,000 records. Elapsed time: 00:02:01s. Time for last 1,000,000: 2s. Last read position: chr2:32,916,379
INFO 2026-06-08 08:40:22 MarkDuplicates Tracking 1050874 as yet unmatched pairs. 87784 records in RAM.
INFO 2026-06-08 08:40:23 MarkDuplicates Read 65,000,000 records. Elapsed time: 00:02:02s. Time for last 1,000,000: 1s. Last read position: chr2:32,916,406
INFO 2026-06-08 08:40:23 MarkDuplicates Tracking 1087968 as yet unmatched pairs. 84433 records in RAM.
INFO 2026-06-08 08:40:24 MarkDuplicates Read 66,000,000 records. Elapsed time: 00:02:03s. Time for last 1,000,000: 1s. Last read position: chr2:37,056,462
INFO 2026-06-08 08:40:24 MarkDuplicates Tracking 1145827 as yet unmatched pairs. 78550 records in RAM.
INFO 2026-06-08 08:40:26 MarkDuplicates Read 67,000,000 records. Elapsed time: 00:02:05s. Time for last 1,000,000: 1s. Last read position: chr2:43,397,985
INFO 2026-06-08 08:40:26 MarkDuplicates Tracking 1143454 as yet unmatched pairs. 76140 records in RAM.
INFO 2026-06-08 08:40:28 MarkDuplicates Read 68,000,000 records. Elapsed time: 00:02:07s. Time for last 1,000,000: 1s. Last read position: chr2:47,832,609
INFO 2026-06-08 08:40:28 MarkDuplicates Tracking 1140402 as yet unmatched pairs. 73075 records in RAM.
INFO 2026-06-08 08:40:30 MarkDuplicates Read 69,000,000 records. Elapsed time: 00:02:09s. Time for last 1,000,000: 1s. Last read position: chr2:55,362,434
INFO 2026-06-08 08:40:30 MarkDuplicates Tracking 1138532 as yet unmatched pairs. 71199 records in RAM.
INFO 2026-06-08 08:40:31 MarkDuplicates Read 70,000,000 records. Elapsed time: 00:02:10s. Time for last 1,000,000: 1s. Last read position: chr2:64,553,179
INFO 2026-06-08 08:40:31 MarkDuplicates Tracking 1134968 as yet unmatched pairs. 67617 records in RAM.
INFO 2026-06-08 08:40:34 MarkDuplicates Read 71,000,000 records. Elapsed time: 00:02:13s. Time for last 1,000,000: 2s. Last read position: chr2:71,568,202
INFO 2026-06-08 08:40:34 MarkDuplicates Tracking 1132110 as yet unmatched pairs. 64736 records in RAM.
INFO 2026-06-08 08:40:36 MarkDuplicates Read 72,000,000 records. Elapsed time: 00:02:15s. Time for last 1,000,000: 1s. Last read position: chr2:84,906,020
INFO 2026-06-08 08:40:36 MarkDuplicates Tracking 1129961 as yet unmatched pairs. 62583 records in RAM.
INFO 2026-06-08 08:40:38 MarkDuplicates Read 73,000,000 records. Elapsed time: 00:02:17s. Time for last 1,000,000: 2s. Last read position: chr2:88,585,969
INFO 2026-06-08 08:40:38 MarkDuplicates Tracking 1126817 as yet unmatched pairs. 59424 records in RAM.
INFO 2026-06-08 08:40:40 MarkDuplicates Read 74,000,000 records. Elapsed time: 00:02:19s. Time for last 1,000,000: 2s. Last read position: chr2:97,156,279
INFO 2026-06-08 08:40:40 MarkDuplicates Tracking 1124900 as yet unmatched pairs. 57482 records in RAM.
INFO 2026-06-08 08:40:42 MarkDuplicates Read 75,000,000 records. Elapsed time: 00:02:21s. Time for last 1,000,000: 1s. Last read position: chr2:102,396,704
INFO 2026-06-08 08:40:42 MarkDuplicates Tracking 1121674 as yet unmatched pairs. 54245 records in RAM.
INFO 2026-06-08 08:40:44 MarkDuplicates Read 76,000,000 records. Elapsed time: 00:02:23s. Time for last 1,000,000: 1s. Last read position: chr2:108,782,808
INFO 2026-06-08 08:40:44 MarkDuplicates Tracking 1120547 as yet unmatched pairs. 53102 records in RAM.
INFO 2026-06-08 08:40:45 MarkDuplicates Read 77,000,000 records. Elapsed time: 00:02:24s. Time for last 1,000,000: 1s. Last read position: chr2:112,389,105
INFO 2026-06-08 08:40:45 MarkDuplicates Tracking 1118704 as yet unmatched pairs. 51251 records in RAM.
INFO 2026-06-08 08:40:47 MarkDuplicates Read 78,000,000 records. Elapsed time: 00:02:26s. Time for last 1,000,000: 1s. Last read position: chr2:126,656,172
INFO 2026-06-08 08:40:47 MarkDuplicates Tracking 1116344 as yet unmatched pairs. 48858 records in RAM.
INFO 2026-06-08 08:40:49 MarkDuplicates Read 79,000,000 records. Elapsed time: 00:02:28s. Time for last 1,000,000: 1s. Last read position: chr2:136,115,580
INFO 2026-06-08 08:40:49 MarkDuplicates Tracking 1117663 as yet unmatched pairs. 50152 records in RAM.
INFO 2026-06-08 08:40:51 MarkDuplicates Read 80,000,000 records. Elapsed time: 00:02:30s. Time for last 1,000,000: 2s. Last read position: chr2:159,446,966
INFO 2026-06-08 08:40:51 MarkDuplicates Tracking 1111621 as yet unmatched pairs. 44093 records in RAM.
INFO 2026-06-08 08:40:53 MarkDuplicates Read 81,000,000 records. Elapsed time: 00:02:32s. Time for last 1,000,000: 1s. Last read position: chr2:171,690,168
INFO 2026-06-08 08:40:53 MarkDuplicates Tracking 1108515 as yet unmatched pairs. 40976 records in RAM.
INFO 2026-06-08 08:40:55 MarkDuplicates Read 82,000,000 records. Elapsed time: 00:02:33s. Time for last 1,000,000: 1s. Last read position: chr2:178,592,487
INFO 2026-06-08 08:40:55 MarkDuplicates Tracking 1105869 as yet unmatched pairs. 38321 records in RAM.
INFO 2026-06-08 08:40:56 MarkDuplicates Read 83,000,000 records. Elapsed time: 00:02:35s. Time for last 1,000,000: 1s. Last read position: chr2:186,676,809
INFO 2026-06-08 08:40:56 MarkDuplicates Tracking 1103490 as yet unmatched pairs. 35915 records in RAM.
INFO 2026-06-08 08:40:58 MarkDuplicates Read 84,000,000 records. Elapsed time: 00:02:37s. Time for last 1,000,000: 1s. Last read position: chr2:189,008,127
INFO 2026-06-08 08:40:58 MarkDuplicates Tracking 1102762 as yet unmatched pairs. 35180 records in RAM.
INFO 2026-06-08 08:41:01 MarkDuplicates Read 85,000,000 records. Elapsed time: 00:02:39s. Time for last 1,000,000: 2s. Last read position: chr2:190,986,923
INFO 2026-06-08 08:41:01 MarkDuplicates Tracking 1097397 as yet unmatched pairs. 29808 records in RAM.
INFO 2026-06-08 08:41:02 MarkDuplicates Read 86,000,000 records. Elapsed time: 00:02:41s. Time for last 1,000,000: 1s. Last read position: chr2:201,761,153
INFO 2026-06-08 08:41:02 MarkDuplicates Tracking 1094351 as yet unmatched pairs. 26750 records in RAM.
INFO 2026-06-08 08:41:04 MarkDuplicates Read 87,000,000 records. Elapsed time: 00:02:43s. Time for last 1,000,000: 1s. Last read position: chr2:210,031,522
INFO 2026-06-08 08:41:04 MarkDuplicates Tracking 1091521 as yet unmatched pairs. 23903 records in RAM.
INFO 2026-06-08 08:41:06 MarkDuplicates Read 88,000,000 records. Elapsed time: 00:02:45s. Time for last 1,000,000: 1s. Last read position: chr2:215,375,222
INFO 2026-06-08 08:41:06 MarkDuplicates Tracking 1095152 as yet unmatched pairs. 27533 records in RAM.
INFO 2026-06-08 08:41:07 MarkDuplicates Read 89,000,000 records. Elapsed time: 00:02:46s. Time for last 1,000,000: 1s. Last read position: chr2:215,393,172
INFO 2026-06-08 08:41:07 MarkDuplicates Tracking 1090990 as yet unmatched pairs. 23368 records in RAM.
INFO 2026-06-08 08:41:09 MarkDuplicates Read 90,000,000 records. Elapsed time: 00:02:48s. Time for last 1,000,000: 1s. Last read position: chr2:215,422,107
INFO 2026-06-08 08:41:09 MarkDuplicates Tracking 1086552 as yet unmatched pairs. 18930 records in RAM.
INFO 2026-06-08 08:41:11 MarkDuplicates Read 91,000,000 records. Elapsed time: 00:02:50s. Time for last 1,000,000: 1s. Last read position: chr2:217,813,224
INFO 2026-06-08 08:41:11 MarkDuplicates Tracking 1081323 as yet unmatched pairs. 13693 records in RAM.
INFO 2026-06-08 08:41:13 MarkDuplicates Read 92,000,000 records. Elapsed time: 00:02:51s. Time for last 1,000,000: 1s. Last read position: chr2:219,464,443
INFO 2026-06-08 08:41:13 MarkDuplicates Tracking 1078222 as yet unmatched pairs. 10589 records in RAM.
INFO 2026-06-08 08:41:14 MarkDuplicates Read 93,000,000 records. Elapsed time: 00:02:53s. Time for last 1,000,000: 1s. Last read position: chr2:229,880,030
INFO 2026-06-08 08:41:14 MarkDuplicates Tracking 1075037 as yet unmatched pairs. 7384 records in RAM.
INFO 2026-06-08 08:41:16 MarkDuplicates Read 94,000,000 records. Elapsed time: 00:02:55s. Time for last 1,000,000: 1s. Last read position: chr2:237,340,544
INFO 2026-06-08 08:41:16 MarkDuplicates Tracking 1073065 as yet unmatched pairs. 5403 records in RAM.
INFO 2026-06-08 08:41:18 MarkDuplicates Read 95,000,000 records. Elapsed time: 00:02:57s. Time for last 1,000,000: 2s. Last read position: chr2:241,034,708
INFO 2026-06-08 08:41:18 MarkDuplicates Tracking 1069171 as yet unmatched pairs. 1502 records in RAM.
INFO 2026-06-08 08:41:21 MarkDuplicates Read 96,000,000 records. Elapsed time: 00:03:00s. Time for last 1,000,000: 3s. Last read position: chr3:9,475,734
INFO 2026-06-08 08:41:21 MarkDuplicates Tracking 1067086 as yet unmatched pairs. 66476 records in RAM.
INFO 2026-06-08 08:41:23 MarkDuplicates Read 97,000,000 records. Elapsed time: 00:03:02s. Time for last 1,000,000: 1s. Last read position: chr3:12,606,207
INFO 2026-06-08 08:41:23 MarkDuplicates Tracking 1065841 as yet unmatched pairs. 65214 records in RAM.
INFO 2026-06-08 08:41:25 MarkDuplicates Read 98,000,000 records. Elapsed time: 00:03:04s. Time for last 1,000,000: 1s. Last read position: chr3:16,885,274
INFO 2026-06-08 08:41:25 MarkDuplicates Tracking 1060695 as yet unmatched pairs. 60057 records in RAM.
INFO 2026-06-08 08:41:26 MarkDuplicates Read 99,000,000 records. Elapsed time: 00:03:05s. Time for last 1,000,000: 1s. Last read position: chr3:33,396,248
INFO 2026-06-08 08:41:26 MarkDuplicates Tracking 1058308 as yet unmatched pairs. 57653 records in RAM.
INFO 2026-06-08 08:41:28 MarkDuplicates Read 100,000,000 records. Elapsed time: 00:03:07s. Time for last 1,000,000: 1s. Last read position: chr3:39,408,711
INFO 2026-06-08 08:41:28 MarkDuplicates Tracking 1058578 as yet unmatched pairs. 57908 records in RAM.
INFO 2026-06-08 08:41:30 MarkDuplicates Read 101,000,000 records. Elapsed time: 00:03:09s. Time for last 1,000,000: 1s. Last read position: chr3:43,079,825
INFO 2026-06-08 08:41:30 MarkDuplicates Tracking 1052467 as yet unmatched pairs. 51789 records in RAM.
INFO 2026-06-08 08:41:31 MarkDuplicates Read 102,000,000 records. Elapsed time: 00:03:10s. Time for last 1,000,000: 1s. Last read position: chr3:47,847,813
INFO 2026-06-08 08:41:31 MarkDuplicates Tracking 1049572 as yet unmatched pairs. 48886 records in RAM.
INFO 2026-06-08 08:41:33 MarkDuplicates Read 103,000,000 records. Elapsed time: 00:03:12s. Time for last 1,000,000: 1s. Last read position: chr3:49,129,058
INFO 2026-06-08 08:41:33 MarkDuplicates Tracking 1047036 as yet unmatched pairs. 46344 records in RAM.
INFO 2026-06-08 08:41:36 MarkDuplicates Read 104,000,000 records. Elapsed time: 00:03:15s. Time for last 1,000,000: 3s. Last read position: chr3:51,420,316
INFO 2026-06-08 08:41:36 MarkDuplicates Tracking 1043681 as yet unmatched pairs. 42978 records in RAM.
INFO 2026-06-08 08:41:38 MarkDuplicates Read 105,000,000 records. Elapsed time: 00:03:17s. Time for last 1,000,000: 1s. Last read position: chr3:53,226,851
INFO 2026-06-08 08:41:38 MarkDuplicates Tracking 1041017 as yet unmatched pairs. 40309 records in RAM.
INFO 2026-06-08 08:41:40 MarkDuplicates Read 106,000,000 records. Elapsed time: 00:03:19s. Time for last 1,000,000: 1s. Last read position: chr3:68,636,274
INFO 2026-06-08 08:41:40 MarkDuplicates Tracking 1037793 as yet unmatched pairs. 37068 records in RAM.
INFO 2026-06-08 08:41:42 MarkDuplicates Read 107,000,000 records. Elapsed time: 00:03:21s. Time for last 1,000,000: 1s. Last read position: chr3:100,736,627
INFO 2026-06-08 08:41:42 MarkDuplicates Tracking 1036034 as yet unmatched pairs. 35291 records in RAM.
INFO 2026-06-08 08:41:43 MarkDuplicates Read 108,000,000 records. Elapsed time: 00:03:22s. Time for last 1,000,000: 1s. Last read position: chr3:113,270,807
INFO 2026-06-08 08:41:43 MarkDuplicates Tracking 1033045 as yet unmatched pairs. 32292 records in RAM.
INFO 2026-06-08 08:41:45 MarkDuplicates Read 109,000,000 records. Elapsed time: 00:03:24s. Time for last 1,000,000: 1s. Last read position: chr3:122,404,328
INFO 2026-06-08 08:41:45 MarkDuplicates Tracking 1030467 as yet unmatched pairs. 29701 records in RAM.
INFO 2026-06-08 08:41:47 MarkDuplicates Read 110,000,000 records. Elapsed time: 00:03:26s. Time for last 1,000,000: 1s. Last read position: chr3:128,055,553
INFO 2026-06-08 08:41:47 MarkDuplicates Tracking 1028672 as yet unmatched pairs. 27895 records in RAM.
INFO 2026-06-08 08:41:49 MarkDuplicates Read 111,000,000 records. Elapsed time: 00:03:27s. Time for last 1,000,000: 1s. Last read position: chr3:132,696,764
INFO 2026-06-08 08:41:49 MarkDuplicates Tracking 1024295 as yet unmatched pairs. 23512 records in RAM.
INFO 2026-06-08 08:41:50 MarkDuplicates Read 112,000,000 records. Elapsed time: 00:03:29s. Time for last 1,000,000: 1s. Last read position: chr3:141,487,113
INFO 2026-06-08 08:41:50 MarkDuplicates Tracking 1021547 as yet unmatched pairs. 20747 records in RAM.
INFO 2026-06-08 08:41:52 MarkDuplicates Read 113,000,000 records. Elapsed time: 00:03:31s. Time for last 1,000,000: 1s. Last read position: chr3:149,657,109
INFO 2026-06-08 08:41:52 MarkDuplicates Tracking 1020370 as yet unmatched pairs. 19566 records in RAM.
INFO 2026-06-08 08:41:54 MarkDuplicates Read 114,000,000 records. Elapsed time: 00:03:33s. Time for last 1,000,000: 1s. Last read position: chr3:158,802,270
INFO 2026-06-08 08:41:54 MarkDuplicates Tracking 1017632 as yet unmatched pairs. 16808 records in RAM.
INFO 2026-06-08 08:41:55 MarkDuplicates Read 115,000,000 records. Elapsed time: 00:03:34s. Time for last 1,000,000: 1s. Last read position: chr3:177,046,151
INFO 2026-06-08 08:41:55 MarkDuplicates Tracking 1014472 as yet unmatched pairs. 13638 records in RAM.
INFO 2026-06-08 08:41:59 MarkDuplicates Read 116,000,000 records. Elapsed time: 00:03:38s. Time for last 1,000,000: 3s. Last read position: chr3:184,137,756
INFO 2026-06-08 08:41:59 MarkDuplicates Tracking 1010961 as yet unmatched pairs. 10117 records in RAM.
INFO 2026-06-08 08:42:01 MarkDuplicates Read 117,000,000 records. Elapsed time: 00:03:40s. Time for last 1,000,000: 1s. Last read position: chr3:184,711,426
INFO 2026-06-08 08:42:01 MarkDuplicates Tracking 1007963 as yet unmatched pairs. 7113 records in RAM.
INFO 2026-06-08 08:42:03 MarkDuplicates Read 118,000,000 records. Elapsed time: 00:03:42s. Time for last 1,000,000: 1s. Last read position: chr3:190,308,323
INFO 2026-06-08 08:42:03 MarkDuplicates Tracking 1005782 as yet unmatched pairs. 4915 records in RAM.
INFO 2026-06-08 08:42:04 MarkDuplicates Read 119,000,000 records. Elapsed time: 00:03:43s. Time for last 1,000,000: 1s. Last read position: chr3:195,882,172
INFO 2026-06-08 08:42:04 MarkDuplicates Tracking 1003269 as yet unmatched pairs. 2378 records in RAM.
INFO 2026-06-08 08:42:06 MarkDuplicates Read 120,000,000 records. Elapsed time: 00:03:45s. Time for last 1,000,000: 1s. Last read position: chr4:991,379
INFO 2026-06-08 08:42:06 MarkDuplicates Tracking 1000122 as yet unmatched pairs. 35812 records in RAM.
INFO 2026-06-08 08:42:08 MarkDuplicates Read 121,000,000 records. Elapsed time: 00:03:47s. Time for last 1,000,000: 1s. Last read position: chr4:5,741,803
INFO 2026-06-08 08:42:08 MarkDuplicates Tracking 996956 as yet unmatched pairs. 32637 records in RAM.
INFO 2026-06-08 08:42:10 MarkDuplicates Read 122,000,000 records. Elapsed time: 00:03:49s. Time for last 1,000,000: 1s. Last read position: chr4:22,727,784
INFO 2026-06-08 08:42:10 MarkDuplicates Tracking 994262 as yet unmatched pairs. 29928 records in RAM.
INFO 2026-06-08 08:42:11 MarkDuplicates Read 123,000,000 records. Elapsed time: 00:03:50s. Time for last 1,000,000: 1s. Last read position: chr4:42,075,772
INFO 2026-06-08 08:42:11 MarkDuplicates Tracking 991575 as yet unmatched pairs. 27235 records in RAM.
INFO 2026-06-08 08:42:13 MarkDuplicates Read 124,000,000 records. Elapsed time: 00:03:52s. Time for last 1,000,000: 1s. Last read position: chr4:56,931,715
INFO 2026-06-08 08:42:13 MarkDuplicates Tracking 989107 as yet unmatched pairs. 24760 records in RAM.
INFO 2026-06-08 08:42:16 MarkDuplicates Read 125,000,000 records. Elapsed time: 00:03:54s. Time for last 1,000,000: 2s. Last read position: chr4:76,002,831
INFO 2026-06-08 08:42:16 MarkDuplicates Tracking 986536 as yet unmatched pairs. 22182 records in RAM.
INFO 2026-06-08 08:42:18 MarkDuplicates Read 126,000,000 records. Elapsed time: 00:03:57s. Time for last 1,000,000: 2s. Last read position: chr4:82,856,995
INFO 2026-06-08 08:42:18 MarkDuplicates Tracking 983824 as yet unmatched pairs. 19453 records in RAM.
INFO 2026-06-08 08:42:20 MarkDuplicates Read 127,000,000 records. Elapsed time: 00:03:59s. Time for last 1,000,000: 1s. Last read position: chr4:89,909,383
INFO 2026-06-08 08:42:20 MarkDuplicates Tracking 980521 as yet unmatched pairs. 16138 records in RAM.
INFO 2026-06-08 08:42:21 MarkDuplicates Read 128,000,000 records. Elapsed time: 00:04:00s. Time for last 1,000,000: 1s. Last read position: chr4:107,654,772
INFO 2026-06-08 08:42:21 MarkDuplicates Tracking 978591 as yet unmatched pairs. 14189 records in RAM.
INFO 2026-06-08 08:42:23 MarkDuplicates Read 129,000,000 records. Elapsed time: 00:04:02s. Time for last 1,000,000: 1s. Last read position: chr4:121,802,986
INFO 2026-06-08 08:42:23 MarkDuplicates Tracking 975535 as yet unmatched pairs. 11125 records in RAM.
INFO 2026-06-08 08:42:25 MarkDuplicates Read 130,000,000 records. Elapsed time: 00:04:03s. Time for last 1,000,000: 1s. Last read position: chr4:143,206,152
INFO 2026-06-08 08:42:25 MarkDuplicates Tracking 972848 as yet unmatched pairs. 8434 records in RAM.
INFO 2026-06-08 08:42:26 MarkDuplicates Read 131,000,000 records. Elapsed time: 00:04:05s. Time for last 1,000,000: 1s. Last read position: chr4:152,964,943
INFO 2026-06-08 08:42:26 MarkDuplicates Tracking 970342 as yet unmatched pairs. 5888 records in RAM.
INFO 2026-06-08 08:42:28 MarkDuplicates Read 132,000,000 records. Elapsed time: 00:04:07s. Time for last 1,000,000: 1s. Last read position: chr4:169,136,319
INFO 2026-06-08 08:42:28 MarkDuplicates Tracking 967739 as yet unmatched pairs. 3274 records in RAM.
INFO 2026-06-08 08:42:30 MarkDuplicates Read 133,000,000 records. Elapsed time: 00:04:09s. Time for last 1,000,000: 1s. Last read position: chr4:186,618,131
INFO 2026-06-08 08:42:30 MarkDuplicates Tracking 965370 as yet unmatched pairs. 895 records in RAM.
INFO 2026-06-08 08:42:32 MarkDuplicates Read 134,000,000 records. Elapsed time: 00:04:11s. Time for last 1,000,000: 1s. Last read position: chr5:10,433,604
INFO 2026-06-08 08:42:32 MarkDuplicates Tracking 962635 as yet unmatched pairs. 57302 records in RAM.
INFO 2026-06-08 08:42:33 MarkDuplicates Read 135,000,000 records. Elapsed time: 00:04:12s. Time for last 1,000,000: 1s. Last read position: chr5:16,676,117
INFO 2026-06-08 08:42:33 MarkDuplicates Tracking 958900 as yet unmatched pairs. 53560 records in RAM.
INFO 2026-06-08 08:42:35 MarkDuplicates Read 136,000,000 records. Elapsed time: 00:04:14s. Time for last 1,000,000: 1s. Last read position: chr5:37,244,471
INFO 2026-06-08 08:42:35 MarkDuplicates Tracking 956206 as yet unmatched pairs. 50842 records in RAM.
INFO 2026-06-08 08:42:37 MarkDuplicates Read 137,000,000 records. Elapsed time: 00:04:16s. Time for last 1,000,000: 2s. Last read position: chr5:52,800,205
INFO 2026-06-08 08:42:37 MarkDuplicates Tracking 953556 as yet unmatched pairs. 48188 records in RAM.
INFO 2026-06-08 08:42:39 MarkDuplicates Read 138,000,000 records. Elapsed time: 00:04:18s. Time for last 1,000,000: 1s. Last read position: chr5:70,109,915
INFO 2026-06-08 08:42:39 MarkDuplicates Tracking 951328 as yet unmatched pairs. 45952 records in RAM.
INFO 2026-06-08 08:42:40 MarkDuplicates Read 139,000,000 records. Elapsed time: 00:04:19s. Time for last 1,000,000: 1s. Last read position: chr5:77,691,449
INFO 2026-06-08 08:42:40 MarkDuplicates Tracking 949783 as yet unmatched pairs. 44403 records in RAM.
INFO 2026-06-08 08:42:42 MarkDuplicates Read 140,000,000 records. Elapsed time: 00:04:21s. Time for last 1,000,000: 1s. Last read position: chr5:83,541,563
INFO 2026-06-08 08:42:42 MarkDuplicates Tracking 946603 as yet unmatched pairs. 41220 records in RAM.
INFO 2026-06-08 08:42:46 MarkDuplicates Read 141,000,000 records. Elapsed time: 00:04:24s. Time for last 1,000,000: 3s. Last read position: chr5:103,017,373
INFO 2026-06-08 08:42:46 MarkDuplicates Tracking 945058 as yet unmatched pairs. 39663 records in RAM.
INFO 2026-06-08 08:42:47 MarkDuplicates Read 142,000,000 records. Elapsed time: 00:04:26s. Time for last 1,000,000: 1s. Last read position: chr5:126,811,880
INFO 2026-06-08 08:42:47 MarkDuplicates Tracking 941001 as yet unmatched pairs. 35595 records in RAM.
INFO 2026-06-08 08:42:49 MarkDuplicates Read 143,000,000 records. Elapsed time: 00:04:28s. Time for last 1,000,000: 1s. Last read position: chr5:135,369,561
INFO 2026-06-08 08:42:49 MarkDuplicates Tracking 938301 as yet unmatched pairs. 32881 records in RAM.
INFO 2026-06-08 08:42:51 MarkDuplicates Read 144,000,000 records. Elapsed time: 00:04:30s. Time for last 1,000,000: 1s. Last read position: chr5:140,449,257
INFO 2026-06-08 08:42:51 MarkDuplicates Tracking 935636 as yet unmatched pairs. 30193 records in RAM.
INFO 2026-06-08 08:42:52 MarkDuplicates Read 145,000,000 records. Elapsed time: 00:04:31s. Time for last 1,000,000: 1s. Last read position: chr5:141,210,592
INFO 2026-06-08 08:42:52 MarkDuplicates Tracking 932718 as yet unmatched pairs. 27275 records in RAM.
INFO 2026-06-08 08:42:54 MarkDuplicates Read 146,000,000 records. Elapsed time: 00:04:33s. Time for last 1,000,000: 1s. Last read position: chr5:146,177,618
INFO 2026-06-08 08:42:54 MarkDuplicates Tracking 930138 as yet unmatched pairs. 24676 records in RAM.
INFO 2026-06-08 08:42:55 MarkDuplicates Read 147,000,000 records. Elapsed time: 00:04:34s. Time for last 1,000,000: 1s. Last read position: chr5:150,399,031
INFO 2026-06-08 08:42:55 MarkDuplicates Tracking 927246 as yet unmatched pairs. 21770 records in RAM.
INFO 2026-06-08 08:42:57 MarkDuplicates Read 148,000,000 records. Elapsed time: 00:04:36s. Time for last 1,000,000: 1s. Last read position: chr5:150,404,680
INFO 2026-06-08 08:42:57 MarkDuplicates Tracking 950351 as yet unmatched pairs. 44870 records in RAM.
INFO 2026-06-08 08:42:59 MarkDuplicates Read 149,000,000 records. Elapsed time: 00:04:38s. Time for last 1,000,000: 1s. Last read position: chr5:150,406,937
INFO 2026-06-08 08:42:59 MarkDuplicates Tracking 939138 as yet unmatched pairs. 33657 records in RAM.
INFO 2026-06-08 08:43:00 MarkDuplicates Read 150,000,000 records. Elapsed time: 00:04:39s. Time for last 1,000,000: 1s. Last read position: chr5:151,507,510
INFO 2026-06-08 08:43:00 MarkDuplicates Tracking 917992 as yet unmatched pairs. 12501 records in RAM.
INFO 2026-06-08 08:43:02 MarkDuplicates Read 151,000,000 records. Elapsed time: 00:04:41s. Time for last 1,000,000: 1s. Last read position: chr5:168,749,555
INFO 2026-06-08 08:43:02 MarkDuplicates Tracking 915501 as yet unmatched pairs. 10002 records in RAM.
INFO 2026-06-08 08:43:04 MarkDuplicates Read 152,000,000 records. Elapsed time: 00:04:42s. Time for last 1,000,000: 1s. Last read position: chr5:172,769,651
INFO 2026-06-08 08:43:04 MarkDuplicates Tracking 913119 as yet unmatched pairs. 7604 records in RAM.
INFO 2026-06-08 08:43:05 MarkDuplicates Read 153,000,000 records. Elapsed time: 00:04:44s. Time for last 1,000,000: 1s. Last read position: chr5:178,965,676
INFO 2026-06-08 08:43:05 MarkDuplicates Tracking 909617 as yet unmatched pairs. 4098 records in RAM.
INFO 2026-06-08 08:43:07 MarkDuplicates Read 154,000,000 records. Elapsed time: 00:04:46s. Time for last 1,000,000: 1s. Last read position: chr5:179,966,843
INFO 2026-06-08 08:43:07 MarkDuplicates Tracking 907442 as yet unmatched pairs. 1922 records in RAM.
INFO 2026-06-08 08:43:09 MarkDuplicates Read 155,000,000 records. Elapsed time: 00:04:48s. Time for last 1,000,000: 2s. Last read position: chr6:7,230,013
INFO 2026-06-08 08:43:09 MarkDuplicates Tracking 904442 as yet unmatched pairs. 71801 records in RAM.
INFO 2026-06-08 08:43:11 MarkDuplicates Read 156,000,000 records. Elapsed time: 00:04:50s. Time for last 1,000,000: 1s. Last read position: chr6:13,637,918
INFO 2026-06-08 08:43:11 MarkDuplicates Tracking 901258 as yet unmatched pairs. 68608 records in RAM.
INFO 2026-06-08 08:43:12 MarkDuplicates Read 157,000,000 records. Elapsed time: 00:04:51s. Time for last 1,000,000: 1s. Last read position: chr6:26,094,332
INFO 2026-06-08 08:43:12 MarkDuplicates Tracking 898418 as yet unmatched pairs. 65743 records in RAM.
INFO 2026-06-08 08:43:14 MarkDuplicates Read 158,000,000 records. Elapsed time: 00:04:53s. Time for last 1,000,000: 1s. Last read position: chr6:29,828,744
INFO 2026-06-08 08:43:14 MarkDuplicates Tracking 895676 as yet unmatched pairs. 62992 records in RAM.
INFO 2026-06-08 08:43:16 MarkDuplicates Read 159,000,000 records. Elapsed time: 00:04:55s. Time for last 1,000,000: 1s. Last read position: chr6:30,712,344
INFO 2026-06-08 08:43:16 MarkDuplicates Tracking 893298 as yet unmatched pairs. 60613 records in RAM.
INFO 2026-06-08 08:43:17 MarkDuplicates Read 160,000,000 records. Elapsed time: 00:04:56s. Time for last 1,000,000: 1s. Last read position: chr6:31,356,418
INFO 2026-06-08 08:43:17 MarkDuplicates Tracking 890417 as yet unmatched pairs. 57720 records in RAM.
INFO 2026-06-08 08:43:19 MarkDuplicates Read 161,000,000 records. Elapsed time: 00:04:58s. Time for last 1,000,000: 1s. Last read position: chr6:31,797,999
INFO 2026-06-08 08:43:19 MarkDuplicates Tracking 887531 as yet unmatched pairs. 54833 records in RAM.
INFO 2026-06-08 08:43:21 MarkDuplicates Read 162,000,000 records. Elapsed time: 00:05:00s. Time for last 1,000,000: 2s. Last read position: chr6:32,089,002
INFO 2026-06-08 08:43:21 MarkDuplicates Tracking 885291 as yet unmatched pairs. 52590 records in RAM.
INFO 2026-06-08 08:43:25 MarkDuplicates Read 163,000,000 records. Elapsed time: 00:05:04s. Time for last 1,000,000: 3s. Last read position: chr6:32,949,724
INFO 2026-06-08 08:43:25 MarkDuplicates Tracking 883441 as yet unmatched pairs. 50735 records in RAM.
INFO 2026-06-08 08:43:27 MarkDuplicates Read 164,000,000 records. Elapsed time: 00:05:06s. Time for last 1,000,000: 2s. Last read position: chr6:33,315,092
INFO 2026-06-08 08:43:27 MarkDuplicates Tracking 879672 as yet unmatched pairs. 46965 records in RAM.
INFO 2026-06-08 08:43:29 MarkDuplicates Read 165,000,000 records. Elapsed time: 00:05:08s. Time for last 1,000,000: 1s. Last read position: chr6:35,556,165
INFO 2026-06-08 08:43:29 MarkDuplicates Tracking 876622 as yet unmatched pairs. 43906 records in RAM.
INFO 2026-06-08 08:43:31 MarkDuplicates Read 166,000,000 records. Elapsed time: 00:05:10s. Time for last 1,000,000: 1s. Last read position: chr6:41,937,288
INFO 2026-06-08 08:43:31 MarkDuplicates Tracking 873958 as yet unmatched pairs. 41226 records in RAM.
INFO 2026-06-08 08:43:32 MarkDuplicates Read 167,000,000 records. Elapsed time: 00:05:11s. Time for last 1,000,000: 1s. Last read position: chr6:43,339,774
INFO 2026-06-08 08:43:32 MarkDuplicates Tracking 870708 as yet unmatched pairs. 37966 records in RAM.
INFO 2026-06-08 08:43:34 MarkDuplicates Read 168,000,000 records. Elapsed time: 00:05:13s. Time for last 1,000,000: 1s. Last read position: chr6:44,250,116
INFO 2026-06-08 08:43:34 MarkDuplicates Tracking 868483 as yet unmatched pairs. 35736 records in RAM.
INFO 2026-06-08 08:43:36 MarkDuplicates Read 169,000,000 records. Elapsed time: 00:05:15s. Time for last 1,000,000: 1s. Last read position: chr6:54,941,192
INFO 2026-06-08 08:43:36 MarkDuplicates Tracking 865212 as yet unmatched pairs. 32446 records in RAM.
INFO 2026-06-08 08:43:37 MarkDuplicates Read 170,000,000 records. Elapsed time: 00:05:16s. Time for last 1,000,000: 1s. Last read position: chr6:63,685,300
INFO 2026-06-08 08:43:37 MarkDuplicates Tracking 863166 as yet unmatched pairs. 30391 records in RAM.
INFO 2026-06-08 08:43:39 MarkDuplicates Read 171,000,000 records. Elapsed time: 00:05:18s. Time for last 1,000,000: 1s. Last read position: chr6:75,677,190
INFO 2026-06-08 08:43:39 MarkDuplicates Tracking 860329 as yet unmatched pairs. 27548 records in RAM.
INFO 2026-06-08 08:43:41 MarkDuplicates Read 172,000,000 records. Elapsed time: 00:05:20s. Time for last 1,000,000: 1s. Last read position: chr6:87,361,870
INFO 2026-06-08 08:43:41 MarkDuplicates Tracking 857256 as yet unmatched pairs. 24465 records in RAM.
INFO 2026-06-08 08:43:42 MarkDuplicates Read 173,000,000 records. Elapsed time: 00:05:21s. Time for last 1,000,000: 1s. Last read position: chr6:106,186,498
INFO 2026-06-08 08:43:42 MarkDuplicates Tracking 854920 as yet unmatched pairs. 22120 records in RAM.
INFO 2026-06-08 08:43:44 MarkDuplicates Read 174,000,000 records. Elapsed time: 00:05:23s. Time for last 1,000,000: 1s. Last read position: chr6:110,893,019
INFO 2026-06-08 08:43:44 MarkDuplicates Tracking 852581 as yet unmatched pairs. 19765 records in RAM.
INFO 2026-06-08 08:43:48 MarkDuplicates Read 175,000,000 records. Elapsed time: 00:05:27s. Time for last 1,000,000: 4s. Last read position: chr6:125,220,115
INFO 2026-06-08 08:43:48 MarkDuplicates Tracking 849668 as yet unmatched pairs. 16850 records in RAM.
INFO 2026-06-08 08:43:50 MarkDuplicates Read 176,000,000 records. Elapsed time: 00:05:29s. Time for last 1,000,000: 1s. Last read position: chr6:132,320,638
INFO 2026-06-08 08:43:50 MarkDuplicates Tracking 846440 as yet unmatched pairs. 13613 records in RAM.
INFO 2026-06-08 08:43:52 MarkDuplicates Read 177,000,000 records. Elapsed time: 00:05:31s. Time for last 1,000,000: 1s. Last read position: chr6:138,432,846
INFO 2026-06-08 08:43:52 MarkDuplicates Tracking 843998 as yet unmatched pairs. 11165 records in RAM.
INFO 2026-06-08 08:43:53 MarkDuplicates Read 178,000,000 records. Elapsed time: 00:05:32s. Time for last 1,000,000: 1s. Last read position: chr6:149,526,684
INFO 2026-06-08 08:43:53 MarkDuplicates Tracking 840895 as yet unmatched pairs. 8060 records in RAM.
INFO 2026-06-08 08:43:55 MarkDuplicates Read 179,000,000 records. Elapsed time: 00:05:34s. Time for last 1,000,000: 1s. Last read position: chr6:158,707,261
INFO 2026-06-08 08:43:55 MarkDuplicates Tracking 838208 as yet unmatched pairs. 5355 records in RAM.
INFO 2026-06-08 08:43:56 MarkDuplicates Read 180,000,000 records. Elapsed time: 00:05:35s. Time for last 1,000,000: 1s. Last read position: chr6:163,567,912
INFO 2026-06-08 08:43:56 MarkDuplicates Tracking 837297 as yet unmatched pairs. 4434 records in RAM.
INFO 2026-06-08 08:43:59 MarkDuplicates Read 181,000,000 records. Elapsed time: 00:05:38s. Time for last 1,000,000: 2s. Last read position: chr7:872,470
INFO 2026-06-08 08:43:59 MarkDuplicates Tracking 832875 as yet unmatched pairs. 69754 records in RAM.
INFO 2026-06-08 08:44:00 MarkDuplicates Read 182,000,000 records. Elapsed time: 00:05:39s. Time for last 1,000,000: 1s. Last read position: chr7:5,505,461
INFO 2026-06-08 08:44:00 MarkDuplicates Tracking 828933 as yet unmatched pairs. 65798 records in RAM.
INFO 2026-06-08 08:44:03 MarkDuplicates Read 183,000,000 records. Elapsed time: 00:05:42s. Time for last 1,000,000: 2s. Last read position: chr7:5,529,389
INFO 2026-06-08 08:44:03 MarkDuplicates Tracking 831418 as yet unmatched pairs. 68278 records in RAM.
INFO 2026-06-08 08:44:05 MarkDuplicates Read 184,000,000 records. Elapsed time: 00:05:44s. Time for last 1,000,000: 1s. Last read position: chr7:18,841,670
INFO 2026-06-08 08:44:05 MarkDuplicates Tracking 823218 as yet unmatched pairs. 60049 records in RAM.
INFO 2026-06-08 08:44:06 MarkDuplicates Read 185,000,000 records. Elapsed time: 00:05:45s. Time for last 1,000,000: 1s. Last read position: chr7:27,769,809
INFO 2026-06-08 08:44:06 MarkDuplicates Tracking 821593 as yet unmatched pairs. 58418 records in RAM.
INFO 2026-06-08 08:44:08 MarkDuplicates Read 186,000,000 records. Elapsed time: 00:05:47s. Time for last 1,000,000: 1s. Last read position: chr7:39,987,596
INFO 2026-06-08 08:44:08 MarkDuplicates Tracking 817953 as yet unmatched pairs. 54770 records in RAM.
INFO 2026-06-08 08:44:10 MarkDuplicates Read 187,000,000 records. Elapsed time: 00:05:49s. Time for last 1,000,000: 1s. Last read position: chr7:44,766,424
INFO 2026-06-08 08:44:10 MarkDuplicates Tracking 815582 as yet unmatched pairs. 52399 records in RAM.
INFO 2026-06-08 08:44:11 MarkDuplicates Read 188,000,000 records. Elapsed time: 00:05:50s. Time for last 1,000,000: 1s. Last read position: chr7:56,058,411
INFO 2026-06-08 08:44:11 MarkDuplicates Tracking 812328 as yet unmatched pairs. 49131 records in RAM.
INFO 2026-06-08 08:44:13 MarkDuplicates Read 189,000,000 records. Elapsed time: 00:05:52s. Time for last 1,000,000: 1s. Last read position: chr7:73,303,426
INFO 2026-06-08 08:44:13 MarkDuplicates Tracking 810282 as yet unmatched pairs. 47078 records in RAM.
INFO 2026-06-08 08:44:15 MarkDuplicates Read 190,000,000 records. Elapsed time: 00:05:53s. Time for last 1,000,000: 1s. Last read position: chr7:75,192,005
INFO 2026-06-08 08:44:15 MarkDuplicates Tracking 807583 as yet unmatched pairs. 44367 records in RAM.
INFO 2026-06-08 08:44:16 MarkDuplicates Read 191,000,000 records. Elapsed time: 00:05:55s. Time for last 1,000,000: 1s. Last read position: chr7:77,638,623
INFO 2026-06-08 08:44:16 MarkDuplicates Tracking 805729 as yet unmatched pairs. 42505 records in RAM.
INFO 2026-06-08 08:44:18 MarkDuplicates Read 192,000,000 records. Elapsed time: 00:05:57s. Time for last 1,000,000: 1s. Last read position: chr7:92,350,955
INFO 2026-06-08 08:44:18 MarkDuplicates Tracking 802528 as yet unmatched pairs. 39298 records in RAM.
INFO 2026-06-08 08:44:20 MarkDuplicates Read 193,000,000 records. Elapsed time: 00:05:59s. Time for last 1,000,000: 1s. Last read position: chr7:94,425,755
INFO 2026-06-08 08:44:20 MarkDuplicates Tracking 802757 as yet unmatched pairs. 39520 records in RAM.
INFO 2026-06-08 08:44:21 MarkDuplicates Read 194,000,000 records. Elapsed time: 00:06:00s. Time for last 1,000,000: 1s. Last read position: chr7:99,460,131
INFO 2026-06-08 08:44:21 MarkDuplicates Tracking 796538 as yet unmatched pairs. 33294 records in RAM.
INFO 2026-06-08 08:44:23 MarkDuplicates Read 195,000,000 records. Elapsed time: 00:06:02s. Time for last 1,000,000: 1s. Last read position: chr7:100,578,714
INFO 2026-06-08 08:44:23 MarkDuplicates Tracking 793930 as yet unmatched pairs. 30682 records in RAM.
INFO 2026-06-08 08:44:25 MarkDuplicates Read 196,000,000 records. Elapsed time: 00:06:04s. Time for last 1,000,000: 1s. Last read position: chr7:102,558,472
INFO 2026-06-08 08:44:25 MarkDuplicates Tracking 791802 as yet unmatched pairs. 28544 records in RAM.
INFO 2026-06-08 08:44:26 MarkDuplicates Read 197,000,000 records. Elapsed time: 00:06:05s. Time for last 1,000,000: 1s. Last read position: chr7:107,940,212
INFO 2026-06-08 08:44:26 MarkDuplicates Tracking 789614 as yet unmatched pairs. 26343 records in RAM.
INFO 2026-06-08 08:44:28 MarkDuplicates Read 198,000,000 records. Elapsed time: 00:06:07s. Time for last 1,000,000: 1s. Last read position: chr7:121,997,953
INFO 2026-06-08 08:44:28 MarkDuplicates Tracking 791293 as yet unmatched pairs. 28018 records in RAM.
INFO 2026-06-08 08:44:30 MarkDuplicates Read 199,000,000 records. Elapsed time: 00:06:09s. Time for last 1,000,000: 2s. Last read position: chr7:127,686,637
INFO 2026-06-08 08:44:30 MarkDuplicates Tracking 787045 as yet unmatched pairs. 23763 records in RAM.
INFO 2026-06-08 08:44:33 MarkDuplicates Read 200,000,000 records. Elapsed time: 00:06:12s. Time for last 1,000,000: 3s. Last read position: chr7:128,767,621
INFO 2026-06-08 08:44:33 MarkDuplicates Tracking 781976 as yet unmatched pairs. 18683 records in RAM.
INFO 2026-06-08 08:44:35 MarkDuplicates Read 201,000,000 records. Elapsed time: 00:06:14s. Time for last 1,000,000: 1s. Last read position: chr7:137,882,411
INFO 2026-06-08 08:44:35 MarkDuplicates Tracking 780682 as yet unmatched pairs. 17373 records in RAM.
INFO 2026-06-08 08:44:37 MarkDuplicates Read 202,000,000 records. Elapsed time: 00:06:16s. Time for last 1,000,000: 1s. Last read position: chr7:139,875,592
INFO 2026-06-08 08:44:37 MarkDuplicates Tracking 776061 as yet unmatched pairs. 12744 records in RAM.
INFO 2026-06-08 08:44:38 MarkDuplicates Read 203,000,000 records. Elapsed time: 00:06:17s. Time for last 1,000,000: 1s. Last read position: chr7:143,381,574
INFO 2026-06-08 08:44:38 MarkDuplicates Tracking 773414 as yet unmatched pairs. 10092 records in RAM.
INFO 2026-06-08 08:44:40 MarkDuplicates Read 204,000,000 records. Elapsed time: 00:06:18s. Time for last 1,000,000: 1s. Last read position: chr7:144,286,748
INFO 2026-06-08 08:44:40 MarkDuplicates Tracking 771539 as yet unmatched pairs. 8213 records in RAM.
INFO 2026-06-08 08:44:41 MarkDuplicates Read 205,000,000 records. Elapsed time: 00:06:20s. Time for last 1,000,000: 1s. Last read position: chr7:150,803,438
INFO 2026-06-08 08:44:41 MarkDuplicates Tracking 768986 as yet unmatched pairs. 5654 records in RAM.
INFO 2026-06-08 08:44:43 MarkDuplicates Read 206,000,000 records. Elapsed time: 00:06:22s. Time for last 1,000,000: 1s. Last read position: chr7:152,182,344
INFO 2026-06-08 08:44:43 MarkDuplicates Tracking 766452 as yet unmatched pairs. 3120 records in RAM.
INFO 2026-06-08 08:44:45 MarkDuplicates Read 207,000,000 records. Elapsed time: 00:06:24s. Time for last 1,000,000: 2s. Last read position: chr8:1,860,036
INFO 2026-06-08 08:44:45 MarkDuplicates Tracking 763483 as yet unmatched pairs. 46388 records in RAM.
INFO 2026-06-08 08:44:47 MarkDuplicates Read 208,000,000 records. Elapsed time: 00:06:25s. Time for last 1,000,000: 1s. Last read position: chr8:17,966,992
INFO 2026-06-08 08:44:47 MarkDuplicates Tracking 760901 as yet unmatched pairs. 43799 records in RAM.
INFO 2026-06-08 08:44:48 MarkDuplicates Read 209,000,000 records. Elapsed time: 00:06:27s. Time for last 1,000,000: 1s. Last read position: chr8:25,436,425
INFO 2026-06-08 08:44:48 MarkDuplicates Tracking 757996 as yet unmatched pairs. 40882 records in RAM.
INFO 2026-06-08 08:44:50 MarkDuplicates Read 210,000,000 records. Elapsed time: 00:06:29s. Time for last 1,000,000: 1s. Last read position: chr8:32,741,823
INFO 2026-06-08 08:44:50 MarkDuplicates Tracking 755621 as yet unmatched pairs. 38472 records in RAM.
INFO 2026-06-08 08:44:52 MarkDuplicates Read 211,000,000 records. Elapsed time: 00:06:31s. Time for last 1,000,000: 1s. Last read position: chr8:38,819,932
INFO 2026-06-08 08:44:52 MarkDuplicates Tracking 753489 as yet unmatched pairs. 36339 records in RAM.
INFO 2026-06-08 08:44:53 MarkDuplicates Read 212,000,000 records. Elapsed time: 00:06:32s. Time for last 1,000,000: 1s. Last read position: chr8:43,197,900
INFO 2026-06-08 08:44:53 MarkDuplicates Tracking 749668 as yet unmatched pairs. 32514 records in RAM.
INFO 2026-06-08 08:44:55 MarkDuplicates Read 213,000,000 records. Elapsed time: 00:06:34s. Time for last 1,000,000: 1s. Last read position: chr8:56,074,110
INFO 2026-06-08 08:44:55 MarkDuplicates Tracking 748801 as yet unmatched pairs. 31643 records in RAM.
INFO 2026-06-08 08:44:57 MarkDuplicates Read 214,000,000 records. Elapsed time: 00:06:36s. Time for last 1,000,000: 1s. Last read position: chr8:69,576,069
INFO 2026-06-08 08:44:57 MarkDuplicates Tracking 743969 as yet unmatched pairs. 26796 records in RAM.
INFO 2026-06-08 08:44:59 MarkDuplicates Read 215,000,000 records. Elapsed time: 00:06:38s. Time for last 1,000,000: 2s. Last read position: chr8:80,064,515
INFO 2026-06-08 08:44:59 MarkDuplicates Tracking 741580 as yet unmatched pairs. 24406 records in RAM.
INFO 2026-06-08 08:45:01 MarkDuplicates Read 216,000,000 records. Elapsed time: 00:06:40s. Time for last 1,000,000: 2s. Last read position: chr8:96,331,058
INFO 2026-06-08 08:45:01 MarkDuplicates Tracking 738734 as yet unmatched pairs. 21557 records in RAM.
INFO 2026-06-08 08:45:03 MarkDuplicates Read 217,000,000 records. Elapsed time: 00:06:42s. Time for last 1,000,000: 1s. Last read position: chr8:100,709,198
INFO 2026-06-08 08:45:03 MarkDuplicates Tracking 738894 as yet unmatched pairs. 21712 records in RAM.
INFO 2026-06-08 08:45:05 MarkDuplicates Read 218,000,000 records. Elapsed time: 00:06:43s. Time for last 1,000,000: 1s. Last read position: chr8:103,378,095
INFO 2026-06-08 08:45:05 MarkDuplicates Tracking 734049 as yet unmatched pairs. 16862 records in RAM.
INFO 2026-06-08 08:45:06 MarkDuplicates Read 219,000,000 records. Elapsed time: 00:06:45s. Time for last 1,000,000: 1s. Last read position: chr8:120,216,389
INFO 2026-06-08 08:45:06 MarkDuplicates Tracking 731086 as yet unmatched pairs. 13890 records in RAM.
INFO 2026-06-08 08:45:08 MarkDuplicates Read 220,000,000 records. Elapsed time: 00:06:47s. Time for last 1,000,000: 1s. Last read position: chr8:127,740,875
INFO 2026-06-08 08:45:08 MarkDuplicates Tracking 729803 as yet unmatched pairs. 12599 records in RAM.
INFO 2026-06-08 08:45:09 MarkDuplicates Read 221,000,000 records. Elapsed time: 00:06:48s. Time for last 1,000,000: 1s. Last read position: chr8:143,586,290
INFO 2026-06-08 08:45:09 MarkDuplicates Tracking 725985 as yet unmatched pairs. 8765 records in RAM.
INFO 2026-06-08 08:45:11 MarkDuplicates Read 222,000,000 records. Elapsed time: 00:06:50s. Time for last 1,000,000: 1s. Last read position: chr8:143,917,583
INFO 2026-06-08 08:45:11 MarkDuplicates Tracking 723703 as yet unmatched pairs. 6483 records in RAM.
INFO 2026-06-08 08:45:12 MarkDuplicates Read 223,000,000 records. Elapsed time: 00:06:51s. Time for last 1,000,000: 1s. Last read position: chr8:144,359,811
INFO 2026-06-08 08:45:12 MarkDuplicates Tracking 719632 as yet unmatched pairs. 2401 records in RAM.
INFO 2026-06-08 08:45:14 MarkDuplicates Read 224,000,000 records. Elapsed time: 00:06:53s. Time for last 1,000,000: 2s. Last read position: chr9:3,270,369
INFO 2026-06-08 08:45:14 MarkDuplicates Tracking 715951 as yet unmatched pairs. 50604 records in RAM.
INFO 2026-06-08 08:45:16 MarkDuplicates Read 225,000,000 records. Elapsed time: 00:06:55s. Time for last 1,000,000: 1s. Last read position: chr9:14,150,209
INFO 2026-06-08 08:45:16 MarkDuplicates Tracking 723651 as yet unmatched pairs. 58294 records in RAM.
INFO 2026-06-08 08:45:18 MarkDuplicates Read 226,000,000 records. Elapsed time: 00:06:57s. Time for last 1,000,000: 2s. Last read position: chr9:21,333,642
INFO 2026-06-08 08:45:18 MarkDuplicates Tracking 710957 as yet unmatched pairs. 45597 records in RAM.
INFO 2026-06-08 08:45:20 MarkDuplicates Read 227,000,000 records. Elapsed time: 00:06:59s. Time for last 1,000,000: 1s. Last read position: chr9:34,996,541
INFO 2026-06-08 08:45:20 MarkDuplicates Tracking 707874 as yet unmatched pairs. 42507 records in RAM.
INFO 2026-06-08 08:45:22 MarkDuplicates Read 228,000,000 records. Elapsed time: 00:07:01s. Time for last 1,000,000: 1s. Last read position: chr9:35,829,510
INFO 2026-06-08 08:45:22 MarkDuplicates Tracking 705282 as yet unmatched pairs. 39912 records in RAM.
INFO 2026-06-08 08:45:24 MarkDuplicates Read 229,000,000 records. Elapsed time: 00:07:03s. Time for last 1,000,000: 2s. Last read position: chr9:70,297,975
INFO 2026-06-08 08:45:24 MarkDuplicates Tracking 702408 as yet unmatched pairs. 37028 records in RAM.
INFO 2026-06-08 08:45:26 MarkDuplicates Read 230,000,000 records. Elapsed time: 00:07:05s. Time for last 1,000,000: 2s. Last read position: chr9:85,942,247
INFO 2026-06-08 08:45:26 MarkDuplicates Tracking 700119 as yet unmatched pairs. 34725 records in RAM.
INFO 2026-06-08 08:45:28 MarkDuplicates Read 231,000,000 records. Elapsed time: 00:07:07s. Time for last 1,000,000: 1s. Last read position: chr9:94,441,088
INFO 2026-06-08 08:45:28 MarkDuplicates Tracking 697252 as yet unmatched pairs. 31849 records in RAM.
INFO 2026-06-08 08:45:30 MarkDuplicates Read 232,000,000 records. Elapsed time: 00:07:09s. Time for last 1,000,000: 1s. Last read position: chr9:106,016,386
INFO 2026-06-08 08:45:30 MarkDuplicates Tracking 694369 as yet unmatched pairs. 28960 records in RAM.
INFO 2026-06-08 08:45:32 MarkDuplicates Read 233,000,000 records. Elapsed time: 00:07:10s. Time for last 1,000,000: 1s. Last read position: chr9:113,584,295
INFO 2026-06-08 08:45:32 MarkDuplicates Tracking 691728 as yet unmatched pairs. 26314 records in RAM.
INFO 2026-06-08 08:45:33 MarkDuplicates Read 234,000,000 records. Elapsed time: 00:07:12s. Time for last 1,000,000: 1s. Last read position: chr9:121,310,744
INFO 2026-06-08 08:45:33 MarkDuplicates Tracking 689487 as yet unmatched pairs. 24063 records in RAM.
INFO 2026-06-08 08:45:35 MarkDuplicates Read 235,000,000 records. Elapsed time: 00:07:14s. Time for last 1,000,000: 1s. Last read position: chr9:125,559,728
INFO 2026-06-08 08:45:35 MarkDuplicates Tracking 686203 as yet unmatched pairs. 20776 records in RAM.
INFO 2026-06-08 08:45:36 MarkDuplicates Read 236,000,000 records. Elapsed time: 00:07:15s. Time for last 1,000,000: 1s. Last read position: chr9:128,288,673
INFO 2026-06-08 08:45:36 MarkDuplicates Tracking 682877 as yet unmatched pairs. 17445 records in RAM.
INFO 2026-06-08 08:45:38 MarkDuplicates Read 237,000,000 records. Elapsed time: 00:07:17s. Time for last 1,000,000: 1s. Last read position: chr9:129,895,773
INFO 2026-06-08 08:45:38 MarkDuplicates Tracking 680087 as yet unmatched pairs. 14649 records in RAM.
INFO 2026-06-08 08:45:40 MarkDuplicates Read 238,000,000 records. Elapsed time: 00:07:19s. Time for last 1,000,000: 1s. Last read position: chr9:131,628,636
INFO 2026-06-08 08:45:40 MarkDuplicates Tracking 677116 as yet unmatched pairs. 11671 records in RAM.
INFO 2026-06-08 08:45:42 MarkDuplicates Read 239,000,000 records. Elapsed time: 00:07:20s. Time for last 1,000,000: 1s. Last read position: chr9:134,763,713
INFO 2026-06-08 08:45:42 MarkDuplicates Tracking 674591 as yet unmatched pairs. 9140 records in RAM.
INFO 2026-06-08 08:45:43 MarkDuplicates Read 240,000,000 records. Elapsed time: 00:07:22s. Time for last 1,000,000: 1s. Last read position: chr9:136,506,918
INFO 2026-06-08 08:45:43 MarkDuplicates Tracking 671637 as yet unmatched pairs. 6182 records in RAM.
INFO 2026-06-08 08:45:45 MarkDuplicates Read 241,000,000 records. Elapsed time: 00:07:24s. Time for last 1,000,000: 1s. Last read position: chr9:137,113,108
INFO 2026-06-08 08:45:45 MarkDuplicates Tracking 667727 as yet unmatched pairs. 2266 records in RAM.
INFO 2026-06-08 08:45:47 MarkDuplicates Read 242,000,000 records. Elapsed time: 00:07:26s. Time for last 1,000,000: 2s. Last read position: chr10:3,163,878
INFO 2026-06-08 08:45:47 MarkDuplicates Tracking 664658 as yet unmatched pairs. 42095 records in RAM.
INFO 2026-06-08 08:45:50 MarkDuplicates Read 243,000,000 records. Elapsed time: 00:07:29s. Time for last 1,000,000: 2s. Last read position: chr10:6,215,231
INFO 2026-06-08 08:45:50 MarkDuplicates Tracking 661627 as yet unmatched pairs. 39053 records in RAM.
INFO 2026-06-08 08:45:51 MarkDuplicates Read 244,000,000 records. Elapsed time: 00:07:30s. Time for last 1,000,000: 1s. Last read position: chr10:17,153,589
INFO 2026-06-08 08:45:51 MarkDuplicates Tracking 658593 as yet unmatched pairs. 36018 records in RAM.
INFO 2026-06-08 08:45:53 MarkDuplicates Read 245,000,000 records. Elapsed time: 00:07:32s. Time for last 1,000,000: 1s. Last read position: chr10:24,619,846
INFO 2026-06-08 08:45:53 MarkDuplicates Tracking 656267 as yet unmatched pairs. 33678 records in RAM.
INFO 2026-06-08 08:45:55 MarkDuplicates Read 246,000,000 records. Elapsed time: 00:07:34s. Time for last 1,000,000: 1s. Last read position: chr10:32,017,249
INFO 2026-06-08 08:45:55 MarkDuplicates Tracking 655939 as yet unmatched pairs. 33345 records in RAM.
INFO 2026-06-08 08:45:57 MarkDuplicates Read 247,000,000 records. Elapsed time: 00:07:36s. Time for last 1,000,000: 1s. Last read position: chr10:32,930,013
INFO 2026-06-08 08:45:57 MarkDuplicates Tracking 654209 as yet unmatched pairs. 31615 records in RAM.
INFO 2026-06-08 08:47:00 MarkDuplicates Read 248,000,000 records. Elapsed time: 00:08:39s. Time for last 1,000,000: 63s. Last read position: chr10:45,826,195
INFO 2026-06-08 08:47:00 MarkDuplicates Tracking 647975 as yet unmatched pairs. 25362 records in RAM.
INFO 2026-06-08 08:47:02 MarkDuplicates Read 249,000,000 records. Elapsed time: 00:08:40s. Time for last 1,000,000: 1s. Last read position: chr10:51,698,891
INFO 2026-06-08 08:47:02 MarkDuplicates Tracking 646051 as yet unmatched pairs. 23433 records in RAM.
INFO 2026-06-08 08:47:03 MarkDuplicates Read 250,000,000 records. Elapsed time: 00:08:42s. Time for last 1,000,000: 1s. Last read position: chr10:69,376,979
INFO 2026-06-08 08:47:03 MarkDuplicates Tracking 643599 as yet unmatched pairs. 20979 records in RAM.
INFO 2026-06-08 08:47:05 MarkDuplicates Read 251,000,000 records. Elapsed time: 00:08:44s. Time for last 1,000,000: 1s. Last read position: chr10:73,800,149
INFO 2026-06-08 08:47:05 MarkDuplicates Tracking 641270 as yet unmatched pairs. 18649 records in RAM.
INFO 2026-06-08 08:47:07 MarkDuplicates Read 252,000,000 records. Elapsed time: 00:08:46s. Time for last 1,000,000: 2s. Last read position: chr10:84,145,005
INFO 2026-06-08 08:47:07 MarkDuplicates Tracking 637744 as yet unmatched pairs. 15117 records in RAM.
INFO 2026-06-08 08:47:09 MarkDuplicates Read 253,000,000 records. Elapsed time: 00:08:48s. Time for last 1,000,000: 1s. Last read position: chr10:92,291,370
INFO 2026-06-08 08:47:09 MarkDuplicates Tracking 635143 as yet unmatched pairs. 12510 records in RAM.
INFO 2026-06-08 08:47:11 MarkDuplicates Read 254,000,000 records. Elapsed time: 00:08:50s. Time for last 1,000,000: 1s. Last read position: chr10:98,430,602
INFO 2026-06-08 08:47:11 MarkDuplicates Tracking 632849 as yet unmatched pairs. 10211 records in RAM.
INFO 2026-06-08 08:47:12 MarkDuplicates Read 255,000,000 records. Elapsed time: 00:08:51s. Time for last 1,000,000: 1s. Last read position: chr10:103,425,057
INFO 2026-06-08 08:47:12 MarkDuplicates Tracking 629564 as yet unmatched pairs. 6921 records in RAM.
INFO 2026-06-08 08:47:14 MarkDuplicates Read 256,000,000 records. Elapsed time: 00:08:53s. Time for last 1,000,000: 1s. Last read position: chr10:119,059,249
INFO 2026-06-08 08:47:14 MarkDuplicates Tracking 627206 as yet unmatched pairs. 4556 records in RAM.
INFO 2026-06-08 08:47:16 MarkDuplicates Read 257,000,000 records. Elapsed time: 00:08:54s. Time for last 1,000,000: 1s. Last read position: chr10:127,032,212
INFO 2026-06-08 08:47:16 MarkDuplicates Tracking 624198 as yet unmatched pairs. 1543 records in RAM.
INFO 2026-06-08 08:47:18 MarkDuplicates Read 258,000,000 records. Elapsed time: 00:08:57s. Time for last 1,000,000: 2s. Last read position: chr11:618,938
INFO 2026-06-08 08:47:18 MarkDuplicates Tracking 620932 as yet unmatched pairs. 70795 records in RAM.
INFO 2026-06-08 08:47:19 MarkDuplicates Read 259,000,000 records. Elapsed time: 00:08:58s. Time for last 1,000,000: 1s. Last read position: chr11:1,255,179
INFO 2026-06-08 08:47:19 MarkDuplicates Tracking 618242 as yet unmatched pairs. 68104 records in RAM.
INFO 2026-06-08 08:47:21 MarkDuplicates Read 260,000,000 records. Elapsed time: 00:09:00s. Time for last 1,000,000: 1s. Last read position: chr11:3,702,649
INFO 2026-06-08 08:47:21 MarkDuplicates Tracking 615306 as yet unmatched pairs. 65166 records in RAM.
INFO 2026-06-08 08:47:23 MarkDuplicates Read 261,000,000 records. Elapsed time: 00:09:02s. Time for last 1,000,000: 1s. Last read position: chr11:9,295,343
INFO 2026-06-08 08:47:23 MarkDuplicates Tracking 612454 as yet unmatched pairs. 62314 records in RAM.
INFO 2026-06-08 08:47:24 MarkDuplicates Read 262,000,000 records. Elapsed time: 00:09:03s. Time for last 1,000,000: 1s. Last read position: chr11:17,075,605
INFO 2026-06-08 08:47:24 MarkDuplicates Tracking 610940 as yet unmatched pairs. 60794 records in RAM.
INFO 2026-06-08 08:47:26 MarkDuplicates Read 263,000,000 records. Elapsed time: 00:09:05s. Time for last 1,000,000: 2s. Last read position: chr11:34,099,394
INFO 2026-06-08 08:47:26 MarkDuplicates Tracking 606902 as yet unmatched pairs. 56751 records in RAM.
INFO 2026-06-08 08:47:28 MarkDuplicates Read 264,000,000 records. Elapsed time: 00:09:07s. Time for last 1,000,000: 1s. Last read position: chr11:46,379,503
INFO 2026-06-08 08:47:28 MarkDuplicates Tracking 604131 as yet unmatched pairs. 53966 records in RAM.
INFO 2026-06-08 08:47:30 MarkDuplicates Read 265,000,000 records. Elapsed time: 00:09:09s. Time for last 1,000,000: 1s. Last read position: chr11:57,309,082
INFO 2026-06-08 08:47:30 MarkDuplicates Tracking 601390 as yet unmatched pairs. 51220 records in RAM.
INFO 2026-06-08 08:47:32 MarkDuplicates Read 266,000,000 records. Elapsed time: 00:09:11s. Time for last 1,000,000: 1s. Last read position: chr11:59,600,593
INFO 2026-06-08 08:47:32 MarkDuplicates Tracking 598618 as yet unmatched pairs. 48447 records in RAM.
INFO 2026-06-08 08:47:33 MarkDuplicates Read 267,000,000 records. Elapsed time: 00:09:12s. Time for last 1,000,000: 1s. Last read position: chr11:61,965,394
INFO 2026-06-08 08:47:33 MarkDuplicates Tracking 598992 as yet unmatched pairs. 48816 records in RAM.
INFO 2026-06-08 08:47:35 MarkDuplicates Read 268,000,000 records. Elapsed time: 00:09:14s. Time for last 1,000,000: 1s. Last read position: chr11:62,525,834
INFO 2026-06-08 08:47:35 MarkDuplicates Tracking 594784 as yet unmatched pairs. 44599 records in RAM.
INFO 2026-06-08 08:47:37 MarkDuplicates Read 269,000,000 records. Elapsed time: 00:09:16s. Time for last 1,000,000: 1s. Last read position: chr11:62,626,570
INFO 2026-06-08 08:47:37 MarkDuplicates Tracking 591275 as yet unmatched pairs. 41084 records in RAM.
INFO 2026-06-08 08:47:39 MarkDuplicates Read 270,000,000 records. Elapsed time: 00:09:18s. Time for last 1,000,000: 2s. Last read position: chr11:64,219,509
INFO 2026-06-08 08:47:39 MarkDuplicates Tracking 587841 as yet unmatched pairs. 37649 records in RAM.
INFO 2026-06-08 08:47:41 MarkDuplicates Read 271,000,000 records. Elapsed time: 00:09:20s. Time for last 1,000,000: 1s. Last read position: chr11:65,133,065
INFO 2026-06-08 08:47:41 MarkDuplicates Tracking 584596 as yet unmatched pairs. 34402 records in RAM.
INFO 2026-06-08 08:47:43 MarkDuplicates Read 272,000,000 records. Elapsed time: 00:09:22s. Time for last 1,000,000: 1s. Last read position: chr11:65,660,174
INFO 2026-06-08 08:47:43 MarkDuplicates Tracking 582657 as yet unmatched pairs. 32452 records in RAM.
INFO 2026-06-08 08:47:44 MarkDuplicates Read 273,000,000 records. Elapsed time: 00:09:23s. Time for last 1,000,000: 1s. Last read position: chr11:66,640,048
INFO 2026-06-08 08:47:44 MarkDuplicates Tracking 578552 as yet unmatched pairs. 28347 records in RAM.
INFO 2026-06-08 08:47:46 MarkDuplicates Read 274,000,000 records. Elapsed time: 00:09:25s. Time for last 1,000,000: 1s. Last read position: chr11:68,061,725
INFO 2026-06-08 08:47:46 MarkDuplicates Tracking 574820 as yet unmatched pairs. 24606 records in RAM.
INFO 2026-06-08 08:47:48 MarkDuplicates Read 275,000,000 records. Elapsed time: 00:09:27s. Time for last 1,000,000: 1s. Last read position: chr11:72,015,980
INFO 2026-06-08 08:47:48 MarkDuplicates Tracking 571663 as yet unmatched pairs. 21445 records in RAM.
INFO 2026-06-08 08:47:49 MarkDuplicates Read 276,000,000 records. Elapsed time: 00:09:28s. Time for last 1,000,000: 1s. Last read position: chr11:75,200,254
INFO 2026-06-08 08:47:49 MarkDuplicates Tracking 568536 as yet unmatched pairs. 18315 records in RAM.
INFO 2026-06-08 08:47:51 MarkDuplicates Read 277,000,000 records. Elapsed time: 00:09:30s. Time for last 1,000,000: 1s. Last read position: chr11:85,983,875
INFO 2026-06-08 08:47:51 MarkDuplicates Tracking 566690 as yet unmatched pairs. 16463 records in RAM.
INFO 2026-06-08 08:47:53 MarkDuplicates Read 278,000,000 records. Elapsed time: 00:09:31s. Time for last 1,000,000: 1s. Last read position: chr11:102,227,506
INFO 2026-06-08 08:47:53 MarkDuplicates Tracking 564820 as yet unmatched pairs. 14585 records in RAM.
INFO 2026-06-08 08:47:54 MarkDuplicates Read 279,000,000 records. Elapsed time: 00:09:33s. Time for last 1,000,000: 1s. Last read position: chr11:112,086,940
INFO 2026-06-08 08:47:54 MarkDuplicates Tracking 561358 as yet unmatched pairs. 11117 records in RAM.
INFO 2026-06-08 08:47:56 MarkDuplicates Read 280,000,000 records. Elapsed time: 00:09:35s. Time for last 1,000,000: 1s. Last read position: chr11:118,503,325
INFO 2026-06-08 08:47:56 MarkDuplicates Tracking 557949 as yet unmatched pairs. 7704 records in RAM.
INFO 2026-06-08 08:47:57 MarkDuplicates Read 281,000,000 records. Elapsed time: 00:09:36s. Time for last 1,000,000: 1s. Last read position: chr11:120,441,801
INFO 2026-06-08 08:47:57 MarkDuplicates Tracking 555510 as yet unmatched pairs. 5265 records in RAM.
INFO 2026-06-08 08:47:59 MarkDuplicates Read 282,000,000 records. Elapsed time: 00:09:38s. Time for last 1,000,000: 1s. Last read position: chr11:128,490,497
INFO 2026-06-08 08:47:59 MarkDuplicates Tracking 552757 as yet unmatched pairs. 2512 records in RAM.
INFO 2026-06-08 08:48:01 MarkDuplicates Read 283,000,000 records. Elapsed time: 00:09:40s. Time for last 1,000,000: 2s. Last read position: chr12:881,909
INFO 2026-06-08 08:48:01 MarkDuplicates Tracking 550239 as yet unmatched pairs. 65831 records in RAM.
INFO 2026-06-08 08:48:04 MarkDuplicates Read 284,000,000 records. Elapsed time: 00:09:43s. Time for last 1,000,000: 2s. Last read position: chr12:6,329,812
INFO 2026-06-08 08:48:04 MarkDuplicates Tracking 547143 as yet unmatched pairs. 62729 records in RAM.
INFO 2026-06-08 08:48:06 MarkDuplicates Read 285,000,000 records. Elapsed time: 00:09:45s. Time for last 1,000,000: 2s. Last read position: chr12:6,954,943
INFO 2026-06-08 08:48:06 MarkDuplicates Tracking 543971 as yet unmatched pairs. 59556 records in RAM.
INFO 2026-06-08 08:48:08 MarkDuplicates Read 286,000,000 records. Elapsed time: 00:09:47s. Time for last 1,000,000: 1s. Last read position: chr12:9,095,657
INFO 2026-06-08 08:48:08 MarkDuplicates Tracking 541650 as yet unmatched pairs. 57226 records in RAM.
INFO 2026-06-08 08:48:09 MarkDuplicates Read 287,000,000 records. Elapsed time: 00:09:48s. Time for last 1,000,000: 1s. Last read position: chr12:14,497,795
INFO 2026-06-08 08:48:09 MarkDuplicates Tracking 539370 as yet unmatched pairs. 54942 records in RAM.
INFO 2026-06-08 08:48:11 MarkDuplicates Read 288,000,000 records. Elapsed time: 00:09:50s. Time for last 1,000,000: 1s. Last read position: chr12:21,475,726
INFO 2026-06-08 08:48:11 MarkDuplicates Tracking 536158 as yet unmatched pairs. 51723 records in RAM.
INFO 2026-06-08 08:48:13 MarkDuplicates Read 289,000,000 records. Elapsed time: 00:09:52s. Time for last 1,000,000: 1s. Last read position: chr12:32,731,455
INFO 2026-06-08 08:48:13 MarkDuplicates Tracking 533538 as yet unmatched pairs. 49101 records in RAM.
INFO 2026-06-08 08:48:16 MarkDuplicates Read 290,000,000 records. Elapsed time: 00:09:55s. Time for last 1,000,000: 2s. Last read position: chr12:47,964,301
INFO 2026-06-08 08:48:16 MarkDuplicates Tracking 531270 as yet unmatched pairs. 46828 records in RAM.
INFO 2026-06-08 08:48:17 MarkDuplicates Read 291,000,000 records. Elapsed time: 00:09:56s. Time for last 1,000,000: 1s. Last read position: chr12:49,128,171
INFO 2026-06-08 08:48:17 MarkDuplicates Tracking 531255 as yet unmatched pairs. 46809 records in RAM.
INFO 2026-06-08 08:48:19 MarkDuplicates Read 292,000,000 records. Elapsed time: 00:09:58s. Time for last 1,000,000: 1s. Last read position: chr12:49,755,634
INFO 2026-06-08 08:48:19 MarkDuplicates Tracking 529242 as yet unmatched pairs. 44782 records in RAM.
INFO 2026-06-08 08:48:21 MarkDuplicates Read 293,000,000 records. Elapsed time: 00:09:59s. Time for last 1,000,000: 1s. Last read position: chr12:52,057,097
INFO 2026-06-08 08:48:21 MarkDuplicates Tracking 522727 as yet unmatched pairs. 38264 records in RAM.
INFO 2026-06-08 08:48:22 MarkDuplicates Read 294,000,000 records. Elapsed time: 00:10:01s. Time for last 1,000,000: 1s. Last read position: chr12:53,487,105
INFO 2026-06-08 08:48:22 MarkDuplicates Tracking 519883 as yet unmatched pairs. 35420 records in RAM.
INFO 2026-06-08 08:48:24 MarkDuplicates Read 295,000,000 records. Elapsed time: 00:10:03s. Time for last 1,000,000: 1s. Last read position: chr12:55,987,075
INFO 2026-06-08 08:48:24 MarkDuplicates Tracking 517407 as yet unmatched pairs. 32944 records in RAM.
INFO 2026-06-08 08:48:25 MarkDuplicates Read 296,000,000 records. Elapsed time: 00:10:04s. Time for last 1,000,000: 1s. Last read position: chr12:56,643,873
INFO 2026-06-08 08:48:25 MarkDuplicates Tracking 515065 as yet unmatched pairs. 30597 records in RAM.
INFO 2026-06-08 08:48:27 MarkDuplicates Read 297,000,000 records. Elapsed time: 00:10:06s. Time for last 1,000,000: 1s. Last read position: chr12:57,184,401
INFO 2026-06-08 08:48:27 MarkDuplicates Tracking 512118 as yet unmatched pairs. 27639 records in RAM.
INFO 2026-06-08 08:48:29 MarkDuplicates Read 298,000,000 records. Elapsed time: 00:10:08s. Time for last 1,000,000: 1s. Last read position: chr12:62,532,627
INFO 2026-06-08 08:48:29 MarkDuplicates Tracking 509042 as yet unmatched pairs. 24561 records in RAM.
INFO 2026-06-08 08:48:30 MarkDuplicates Read 299,000,000 records. Elapsed time: 00:10:09s. Time for last 1,000,000: 1s. Last read position: chr12:71,634,705
INFO 2026-06-08 08:48:30 MarkDuplicates Tracking 506176 as yet unmatched pairs. 21680 records in RAM.
INFO 2026-06-08 08:48:32 MarkDuplicates Read 300,000,000 records. Elapsed time: 00:10:11s. Time for last 1,000,000: 1s. Last read position: chr12:93,641,191
INFO 2026-06-08 08:48:32 MarkDuplicates Tracking 503541 as yet unmatched pairs. 19043 records in RAM.
INFO 2026-06-08 08:48:35 MarkDuplicates Read 301,000,000 records. Elapsed time: 00:10:14s. Time for last 1,000,000: 2s. Last read position: chr12:103,930,536
INFO 2026-06-08 08:48:35 MarkDuplicates Tracking 501143 as yet unmatched pairs. 16639 records in RAM.
INFO 2026-06-08 08:48:37 MarkDuplicates Read 302,000,000 records. Elapsed time: 00:10:16s. Time for last 1,000,000: 1s. Last read position: chr12:109,264,262
INFO 2026-06-08 08:48:37 MarkDuplicates Tracking 498019 as yet unmatched pairs. 13512 records in RAM.
INFO 2026-06-08 08:48:38 MarkDuplicates Read 303,000,000 records. Elapsed time: 00:10:17s. Time for last 1,000,000: 1s. Last read position: chr12:112,908,619
INFO 2026-06-08 08:48:38 MarkDuplicates Tracking 495416 as yet unmatched pairs. 10897 records in RAM.
INFO 2026-06-08 08:48:40 MarkDuplicates Read 304,000,000 records. Elapsed time: 00:10:19s. Time for last 1,000,000: 1s. Last read position: chr12:120,438,394
INFO 2026-06-08 08:48:40 MarkDuplicates Tracking 493240 as yet unmatched pairs. 8709 records in RAM.
INFO 2026-06-08 08:48:42 MarkDuplicates Read 305,000,000 records. Elapsed time: 00:10:20s. Time for last 1,000,000: 1s. Last read position: chr12:123,261,668
INFO 2026-06-08 08:48:42 MarkDuplicates Tracking 494035 as yet unmatched pairs. 9500 records in RAM.
INFO 2026-06-08 08:48:43 MarkDuplicates Read 306,000,000 records. Elapsed time: 00:10:22s. Time for last 1,000,000: 1s. Last read position: chr12:130,875,609
INFO 2026-06-08 08:48:43 MarkDuplicates Tracking 487189 as yet unmatched pairs. 2652 records in RAM.
INFO 2026-06-08 08:48:45 MarkDuplicates Read 307,000,000 records. Elapsed time: 00:10:24s. Time for last 1,000,000: 1s. Last read position: chr13:20,439,688
INFO 2026-06-08 08:48:45 MarkDuplicates Tracking 483778 as yet unmatched pairs. 16247 records in RAM.
INFO 2026-06-08 08:48:46 MarkDuplicates Read 308,000,000 records. Elapsed time: 00:10:25s. Time for last 1,000,000: 1s. Last read position: chr13:32,764,580
INFO 2026-06-08 08:48:46 MarkDuplicates Tracking 481091 as yet unmatched pairs. 13555 records in RAM.
INFO 2026-06-08 08:48:48 MarkDuplicates Read 309,000,000 records. Elapsed time: 00:10:27s. Time for last 1,000,000: 1s. Last read position: chr13:45,337,513
INFO 2026-06-08 08:48:48 MarkDuplicates Tracking 482116 as yet unmatched pairs. 14570 records in RAM.
INFO 2026-06-08 08:48:50 MarkDuplicates Read 310,000,000 records. Elapsed time: 00:10:29s. Time for last 1,000,000: 1s. Last read position: chr13:71,675,355
INFO 2026-06-08 08:48:50 MarkDuplicates Tracking 475581 as yet unmatched pairs. 8034 records in RAM.
INFO 2026-06-08 08:48:51 MarkDuplicates Read 311,000,000 records. Elapsed time: 00:10:30s. Time for last 1,000,000: 1s. Last read position: chr13:98,904,640
INFO 2026-06-08 08:48:51 MarkDuplicates Tracking 473388 as yet unmatched pairs. 5839 records in RAM.
INFO 2026-06-08 08:48:53 MarkDuplicates Read 312,000,000 records. Elapsed time: 00:10:32s. Time for last 1,000,000: 1s. Last read position: chr13:110,489,721
INFO 2026-06-08 08:48:53 MarkDuplicates Tracking 470213 as yet unmatched pairs. 2662 records in RAM.
INFO 2026-06-08 08:48:55 MarkDuplicates Read 313,000,000 records. Elapsed time: 00:10:34s. Time for last 1,000,000: 2s. Last read position: chr14:20,801,579
INFO 2026-06-08 08:48:55 MarkDuplicates Tracking 471667 as yet unmatched pairs. 42008 records in RAM.
INFO 2026-06-08 08:48:57 MarkDuplicates Read 314,000,000 records. Elapsed time: 00:10:36s. Time for last 1,000,000: 1s. Last read position: chr14:23,033,449
INFO 2026-06-08 08:48:57 MarkDuplicates Tracking 464227 as yet unmatched pairs. 34568 records in RAM.
INFO 2026-06-08 08:48:58 MarkDuplicates Read 315,000,000 records. Elapsed time: 00:10:37s. Time for last 1,000,000: 1s. Last read position: chr14:31,101,001
INFO 2026-06-08 08:48:58 MarkDuplicates Tracking 461451 as yet unmatched pairs. 31792 records in RAM.
INFO 2026-06-08 08:49:01 MarkDuplicates Read 316,000,000 records. Elapsed time: 00:10:40s. Time for last 1,000,000: 2s. Last read position: chr14:49,586,677
INFO 2026-06-08 08:49:01 MarkDuplicates Tracking 461136 as yet unmatched pairs. 31470 records in RAM.
INFO 2026-06-08 08:49:03 MarkDuplicates Read 317,000,000 records. Elapsed time: 00:10:42s. Time for last 1,000,000: 2s. Last read position: chr14:55,671,850
INFO 2026-06-08 08:49:03 MarkDuplicates Tracking 456011 as yet unmatched pairs. 26334 records in RAM.
INFO 2026-06-08 08:49:05 MarkDuplicates Read 318,000,000 records. Elapsed time: 00:10:44s. Time for last 1,000,000: 2s. Last read position: chr14:64,741,447
INFO 2026-06-08 08:49:05 MarkDuplicates Tracking 452927 as yet unmatched pairs. 23245 records in RAM.
INFO 2026-06-08 08:49:07 MarkDuplicates Read 319,000,000 records. Elapsed time: 00:10:46s. Time for last 1,000,000: 1s. Last read position: chr14:71,588,443
INFO 2026-06-08 08:49:07 MarkDuplicates Tracking 450138 as yet unmatched pairs. 20450 records in RAM.
INFO 2026-06-08 08:49:08 MarkDuplicates Read 320,000,000 records. Elapsed time: 00:10:47s. Time for last 1,000,000: 1s. Last read position: chr14:75,196,272
INFO 2026-06-08 08:49:08 MarkDuplicates Tracking 447230 as yet unmatched pairs. 17530 records in RAM.
INFO 2026-06-08 08:49:10 MarkDuplicates Read 321,000,000 records. Elapsed time: 00:10:49s. Time for last 1,000,000: 1s. Last read position: chr14:91,812,353
INFO 2026-06-08 08:49:10 MarkDuplicates Tracking 444676 as yet unmatched pairs. 14974 records in RAM.
INFO 2026-06-08 08:49:12 MarkDuplicates Read 322,000,000 records. Elapsed time: 00:10:51s. Time for last 1,000,000: 1s. Last read position: chr14:96,856,246
INFO 2026-06-08 08:49:12 MarkDuplicates Tracking 441748 as yet unmatched pairs. 12045 records in RAM.
INFO 2026-06-08 08:49:13 MarkDuplicates Read 323,000,000 records. Elapsed time: 00:10:52s. Time for last 1,000,000: 1s. Last read position: chr14:102,081,441
INFO 2026-06-08 08:49:13 MarkDuplicates Tracking 438566 as yet unmatched pairs. 8863 records in RAM.
INFO 2026-06-08 08:49:15 MarkDuplicates Read 324,000,000 records. Elapsed time: 00:10:54s. Time for last 1,000,000: 1s. Last read position: chr14:104,708,475
INFO 2026-06-08 08:49:15 MarkDuplicates Tracking 435799 as yet unmatched pairs. 6090 records in RAM.
INFO 2026-06-08 08:49:17 MarkDuplicates Read 325,000,000 records. Elapsed time: 00:10:56s. Time for last 1,000,000: 1s. Last read position: chr14:105,479,625
INFO 2026-06-08 08:49:17 MarkDuplicates Tracking 432907 as yet unmatched pairs. 3195 records in RAM.
INFO 2026-06-08 08:49:18 MarkDuplicates Read 326,000,000 records. Elapsed time: 00:10:57s. Time for last 1,000,000: 1s. Last read position: chr14:105,742,880
INFO 2026-06-08 08:49:18 MarkDuplicates Tracking 436930 as yet unmatched pairs. 7218 records in RAM.
INFO 2026-06-08 08:49:21 MarkDuplicates Read 327,000,000 records. Elapsed time: 00:11:00s. Time for last 1,000,000: 2s. Last read position: chr15:28,248,595
INFO 2026-06-08 08:49:21 MarkDuplicates Tracking 428459 as yet unmatched pairs. 34669 records in RAM.
INFO 2026-06-08 08:49:23 MarkDuplicates Read 328,000,000 records. Elapsed time: 00:11:02s. Time for last 1,000,000: 2s. Last read position: chr15:34,867,531
INFO 2026-06-08 08:49:23 MarkDuplicates Tracking 425870 as yet unmatched pairs. 32075 records in RAM.
INFO 2026-06-08 08:49:25 MarkDuplicates Read 329,000,000 records. Elapsed time: 00:11:04s. Time for last 1,000,000: 1s. Last read position: chr15:41,377,236
INFO 2026-06-08 08:49:25 MarkDuplicates Tracking 423171 as yet unmatched pairs. 29374 records in RAM.
INFO 2026-06-08 08:49:27 MarkDuplicates Read 330,000,000 records. Elapsed time: 00:11:06s. Time for last 1,000,000: 1s. Last read position: chr15:42,692,041
INFO 2026-06-08 08:49:27 MarkDuplicates Tracking 420211 as yet unmatched pairs. 26414 records in RAM.
INFO 2026-06-08 08:49:28 MarkDuplicates Read 331,000,000 records. Elapsed time: 00:11:07s. Time for last 1,000,000: 1s. Last read position: chr15:48,444,548
INFO 2026-06-08 08:49:28 MarkDuplicates Tracking 417712 as yet unmatched pairs. 23913 records in RAM.
INFO 2026-06-08 08:49:30 MarkDuplicates Read 332,000,000 records. Elapsed time: 00:11:09s. Time for last 1,000,000: 1s. Last read position: chr15:57,253,290
INFO 2026-06-08 08:49:30 MarkDuplicates Tracking 416110 as yet unmatched pairs. 22309 records in RAM.
INFO 2026-06-08 08:49:32 MarkDuplicates Read 333,000,000 records. Elapsed time: 00:11:11s. Time for last 1,000,000: 1s. Last read position: chr15:63,694,512
INFO 2026-06-08 08:49:32 MarkDuplicates Tracking 412546 as yet unmatched pairs. 18742 records in RAM.
INFO 2026-06-08 08:49:33 MarkDuplicates Read 334,000,000 records. Elapsed time: 00:11:12s. Time for last 1,000,000: 1s. Last read position: chr15:68,291,097
INFO 2026-06-08 08:49:33 MarkDuplicates Tracking 409484 as yet unmatched pairs. 15680 records in RAM.
INFO 2026-06-08 08:49:35 MarkDuplicates Read 335,000,000 records. Elapsed time: 00:11:14s. Time for last 1,000,000: 1s. Last read position: chr15:74,032,643
INFO 2026-06-08 08:49:35 MarkDuplicates Tracking 406988 as yet unmatched pairs. 13183 records in RAM.
INFO 2026-06-08 08:49:38 MarkDuplicates Read 336,000,000 records. Elapsed time: 00:11:17s. Time for last 1,000,000: 3s. Last read position: chr15:77,179,268
INFO 2026-06-08 08:49:38 MarkDuplicates Tracking 403705 as yet unmatched pairs. 9892 records in RAM.
INFO 2026-06-08 08:49:40 MarkDuplicates Read 337,000,000 records. Elapsed time: 00:11:19s. Time for last 1,000,000: 1s. Last read position: chr15:84,798,703
INFO 2026-06-08 08:49:40 MarkDuplicates Tracking 401048 as yet unmatched pairs. 7232 records in RAM.
INFO 2026-06-08 08:49:42 MarkDuplicates Read 338,000,000 records. Elapsed time: 00:11:21s. Time for last 1,000,000: 1s. Last read position: chr15:89,646,854
INFO 2026-06-08 08:49:42 MarkDuplicates Tracking 398134 as yet unmatched pairs. 4313 records in RAM.
INFO 2026-06-08 08:49:43 MarkDuplicates Read 339,000,000 records. Elapsed time: 00:11:22s. Time for last 1,000,000: 1s. Last read position: chr15:99,130,153
INFO 2026-06-08 08:49:43 MarkDuplicates Tracking 396552 as yet unmatched pairs. 2728 records in RAM.
INFO 2026-06-08 08:49:45 MarkDuplicates Read 340,000,000 records. Elapsed time: 00:11:24s. Time for last 1,000,000: 2s. Last read position: chr16:669,551
INFO 2026-06-08 08:49:45 MarkDuplicates Tracking 392336 as yet unmatched pairs. 61754 records in RAM.
INFO 2026-06-08 08:49:47 MarkDuplicates Read 341,000,000 records. Elapsed time: 00:11:26s. Time for last 1,000,000: 1s. Last read position: chr16:2,084,469
INFO 2026-06-08 08:49:47 MarkDuplicates Tracking 388763 as yet unmatched pairs. 58181 records in RAM.
INFO 2026-06-08 08:49:49 MarkDuplicates Read 342,000,000 records. Elapsed time: 00:11:28s. Time for last 1,000,000: 1s. Last read position: chr16:2,764,013
INFO 2026-06-08 08:49:49 MarkDuplicates Tracking 386037 as yet unmatched pairs. 55455 records in RAM.
INFO 2026-06-08 08:49:50 MarkDuplicates Read 343,000,000 records. Elapsed time: 00:11:29s. Time for last 1,000,000: 1s. Last read position: chr16:3,067,984
INFO 2026-06-08 08:49:50 MarkDuplicates Tracking 382784 as yet unmatched pairs. 52202 records in RAM.
INFO 2026-06-08 08:49:52 MarkDuplicates Read 344,000,000 records. Elapsed time: 00:11:31s. Time for last 1,000,000: 1s. Last read position: chr16:5,062,506
INFO 2026-06-08 08:49:52 MarkDuplicates Tracking 379266 as yet unmatched pairs. 48682 records in RAM.
INFO 2026-06-08 08:49:54 MarkDuplicates Read 345,000,000 records. Elapsed time: 00:11:33s. Time for last 1,000,000: 1s. Last read position: chr16:14,833,924
INFO 2026-06-08 08:49:54 MarkDuplicates Tracking 376709 as yet unmatched pairs. 46112 records in RAM.
INFO 2026-06-08 08:49:56 MarkDuplicates Read 346,000,000 records. Elapsed time: 00:11:35s. Time for last 1,000,000: 2s. Last read position: chr16:16,111,398
INFO 2026-06-08 08:49:56 MarkDuplicates Tracking 375031 as yet unmatched pairs. 44434 records in RAM.
INFO 2026-06-08 08:49:57 MarkDuplicates Read 347,000,000 records. Elapsed time: 00:11:36s. Time for last 1,000,000: 1s. Last read position: chr16:18,350,660
INFO 2026-06-08 08:49:57 MarkDuplicates Tracking 375158 as yet unmatched pairs. 44561 records in RAM.
INFO 2026-06-08 08:49:59 MarkDuplicates Read 348,000,000 records. Elapsed time: 00:11:38s. Time for last 1,000,000: 1s. Last read position: chr16:19,521,920
INFO 2026-06-08 08:49:59 MarkDuplicates Tracking 372317 as yet unmatched pairs. 41719 records in RAM.
INFO 2026-06-08 08:50:01 MarkDuplicates Read 349,000,000 records. Elapsed time: 00:11:40s. Time for last 1,000,000: 1s. Last read position: chr16:21,851,064
INFO 2026-06-08 08:50:01 MarkDuplicates Tracking 371418 as yet unmatched pairs. 40820 records in RAM.
INFO 2026-06-08 08:50:02 MarkDuplicates Read 350,000,000 records. Elapsed time: 00:11:41s. Time for last 1,000,000: 1s. Last read position: chr16:24,571,746
INFO 2026-06-08 08:50:02 MarkDuplicates Tracking 369688 as yet unmatched pairs. 39087 records in RAM.
INFO 2026-06-08 08:50:04 MarkDuplicates Read 351,000,000 records. Elapsed time: 00:11:43s. Time for last 1,000,000: 1s. Last read position: chr16:28,982,415
INFO 2026-06-08 08:50:04 MarkDuplicates Tracking 367682 as yet unmatched pairs. 37079 records in RAM.
INFO 2026-06-08 08:50:05 MarkDuplicates Read 352,000,000 records. Elapsed time: 00:11:44s. Time for last 1,000,000: 1s. Last read position: chr16:29,887,738
INFO 2026-06-08 08:50:05 MarkDuplicates Tracking 365906 as yet unmatched pairs. 35303 records in RAM.
INFO 2026-06-08 08:50:07 MarkDuplicates Read 353,000,000 records. Elapsed time: 00:11:46s. Time for last 1,000,000: 1s. Last read position: chr16:30,667,380
INFO 2026-06-08 08:50:07 MarkDuplicates Tracking 363421 as yet unmatched pairs. 32817 records in RAM.
INFO 2026-06-08 08:50:08 MarkDuplicates Read 354,000,000 records. Elapsed time: 00:11:47s. Time for last 1,000,000: 1s. Last read position: chr16:31,297,931
INFO 2026-06-08 08:50:08 MarkDuplicates Tracking 360616 as yet unmatched pairs. 30012 records in RAM.
INFO 2026-06-08 08:50:10 MarkDuplicates Read 355,000,000 records. Elapsed time: 00:11:49s. Time for last 1,000,000: 1s. Last read position: chr16:50,094,769
INFO 2026-06-08 08:50:10 MarkDuplicates Tracking 357977 as yet unmatched pairs. 27364 records in RAM.
INFO 2026-06-08 08:50:11 MarkDuplicates Read 356,000,000 records. Elapsed time: 00:11:50s. Time for last 1,000,000: 1s. Last read position: chr16:54,285,273
INFO 2026-06-08 08:50:11 MarkDuplicates Tracking 356206 as yet unmatched pairs. 25585 records in RAM.
INFO 2026-06-08 08:50:13 MarkDuplicates Read 357,000,000 records. Elapsed time: 00:11:52s. Time for last 1,000,000: 2s. Last read position: chr16:57,798,120
INFO 2026-06-08 08:50:13 MarkDuplicates Tracking 352177 as yet unmatched pairs. 21551 records in RAM.
INFO 2026-06-08 08:50:15 MarkDuplicates Read 358,000,000 records. Elapsed time: 00:11:54s. Time for last 1,000,000: 1s. Last read position: chr16:67,881,364
INFO 2026-06-08 08:50:15 MarkDuplicates Tracking 348679 as yet unmatched pairs. 18049 records in RAM.
INFO 2026-06-08 08:50:17 MarkDuplicates Read 359,000,000 records. Elapsed time: 00:11:55s. Time for last 1,000,000: 1s. Last read position: chr16:70,370,304
INFO 2026-06-08 08:50:17 MarkDuplicates Tracking 346068 as yet unmatched pairs. 15437 records in RAM.
INFO 2026-06-08 08:50:18 MarkDuplicates Read 360,000,000 records. Elapsed time: 00:11:57s. Time for last 1,000,000: 1s. Last read position: chr16:74,391,659
INFO 2026-06-08 08:50:18 MarkDuplicates Tracking 343551 as yet unmatched pairs. 12920 records in RAM.
INFO 2026-06-08 08:50:21 MarkDuplicates Read 361,000,000 records. Elapsed time: 00:12:00s. Time for last 1,000,000: 2s. Last read position: chr16:84,744,951
INFO 2026-06-08 08:50:21 MarkDuplicates Tracking 340369 as yet unmatched pairs. 9737 records in RAM.
INFO 2026-06-08 08:50:23 MarkDuplicates Read 362,000,000 records. Elapsed time: 00:12:02s. Time for last 1,000,000: 2s. Last read position: chr16:88,438,328
INFO 2026-06-08 08:50:23 MarkDuplicates Tracking 337356 as yet unmatched pairs. 6724 records in RAM.
INFO 2026-06-08 08:50:25 MarkDuplicates Read 363,000,000 records. Elapsed time: 00:12:04s. Time for last 1,000,000: 1s. Last read position: chr16:89,285,249
INFO 2026-06-08 08:50:25 MarkDuplicates Tracking 333797 as yet unmatched pairs. 3165 records in RAM.
INFO 2026-06-08 08:50:27 MarkDuplicates Read 364,000,000 records. Elapsed time: 00:12:06s. Time for last 1,000,000: 2s. Last read position: chr17:699,364
INFO 2026-06-08 08:50:27 MarkDuplicates Tracking 331094 as yet unmatched pairs. 112168 records in RAM.
INFO 2026-06-08 08:50:29 MarkDuplicates Read 365,000,000 records. Elapsed time: 00:12:08s. Time for last 1,000,000: 1s. Last read position: chr17:1,800,110
INFO 2026-06-08 08:50:29 MarkDuplicates Tracking 327504 as yet unmatched pairs. 108570 records in RAM.
INFO 2026-06-08 08:50:31 MarkDuplicates Read 366,000,000 records. Elapsed time: 00:12:10s. Time for last 1,000,000: 1s. Last read position: chr17:4,891,705
INFO 2026-06-08 08:50:31 MarkDuplicates Tracking 324739 as yet unmatched pairs. 105805 records in RAM.
INFO 2026-06-08 08:50:32 MarkDuplicates Read 367,000,000 records. Elapsed time: 00:12:11s. Time for last 1,000,000: 1s. Last read position: chr17:7,311,041
INFO 2026-06-08 08:50:32 MarkDuplicates Tracking 322954 as yet unmatched pairs. 104020 records in RAM.
INFO 2026-06-08 08:50:34 MarkDuplicates Read 368,000,000 records. Elapsed time: 00:12:13s. Time for last 1,000,000: 1s. Last read position: chr17:7,856,769
INFO 2026-06-08 08:50:34 MarkDuplicates Tracking 319460 as yet unmatched pairs. 100526 records in RAM.
INFO 2026-06-08 08:50:36 MarkDuplicates Read 369,000,000 records. Elapsed time: 00:12:15s. Time for last 1,000,000: 1s. Last read position: chr17:16,382,292
INFO 2026-06-08 08:50:36 MarkDuplicates Tracking 316587 as yet unmatched pairs. 97646 records in RAM.
INFO 2026-06-08 08:50:37 MarkDuplicates Read 370,000,000 records. Elapsed time: 00:12:16s. Time for last 1,000,000: 1s. Last read position: chr17:27,312,209
INFO 2026-06-08 08:50:37 MarkDuplicates Tracking 313347 as yet unmatched pairs. 94399 records in RAM.
INFO 2026-06-08 08:50:39 MarkDuplicates Read 371,000,000 records. Elapsed time: 00:12:18s. Time for last 1,000,000: 1s. Last read position: chr17:30,179,107
INFO 2026-06-08 08:50:39 MarkDuplicates Tracking 310318 as yet unmatched pairs. 91370 records in RAM.
INFO 2026-06-08 08:50:40 MarkDuplicates Read 372,000,000 records. Elapsed time: 00:12:19s. Time for last 1,000,000: 1s. Last read position: chr17:35,717,202
INFO 2026-06-08 08:50:40 MarkDuplicates Tracking 307957 as yet unmatched pairs. 89009 records in RAM.
INFO 2026-06-08 08:50:42 MarkDuplicates Read 373,000,000 records. Elapsed time: 00:12:21s. Time for last 1,000,000: 1s. Last read position: chr17:38,533,327
INFO 2026-06-08 08:50:42 MarkDuplicates Tracking 305796 as yet unmatched pairs. 86847 records in RAM.
INFO 2026-06-08 08:50:44 MarkDuplicates Read 374,000,000 records. Elapsed time: 00:12:23s. Time for last 1,000,000: 1s. Last read position: chr17:39,710,129
INFO 2026-06-08 08:50:44 MarkDuplicates Tracking 305392 as yet unmatched pairs. 86442 records in RAM.
INFO 2026-06-08 08:50:45 MarkDuplicates Read 375,000,000 records. Elapsed time: 00:12:24s. Time for last 1,000,000: 1s. Last read position: chr17:40,416,019
INFO 2026-06-08 08:50:45 MarkDuplicates Tracking 300211 as yet unmatched pairs. 81261 records in RAM.
INFO 2026-06-08 08:50:47 MarkDuplicates Read 376,000,000 records. Elapsed time: 00:12:26s. Time for last 1,000,000: 1s. Last read position: chr17:42,125,827
INFO 2026-06-08 08:50:47 MarkDuplicates Tracking 297092 as yet unmatched pairs. 78142 records in RAM.
INFO 2026-06-08 08:50:49 MarkDuplicates Read 377,000,000 records. Elapsed time: 00:12:28s. Time for last 1,000,000: 2s. Last read position: chr17:43,848,673
INFO 2026-06-08 08:50:49 MarkDuplicates Tracking 293286 as yet unmatched pairs. 74335 records in RAM.
INFO 2026-06-08 08:50:51 MarkDuplicates Read 378,000,000 records. Elapsed time: 00:12:30s. Time for last 1,000,000: 1s. Last read position: chr17:45,597,763
INFO 2026-06-08 08:50:51 MarkDuplicates Tracking 290310 as yet unmatched pairs. 71358 records in RAM.
INFO 2026-06-08 08:50:53 MarkDuplicates Read 379,000,000 records. Elapsed time: 00:12:32s. Time for last 1,000,000: 2s. Last read position: chr17:49,705,866
INFO 2026-06-08 08:50:53 MarkDuplicates Tracking 288205 as yet unmatched pairs. 69250 records in RAM.
INFO 2026-06-08 08:50:55 MarkDuplicates Read 380,000,000 records. Elapsed time: 00:12:34s. Time for last 1,000,000: 2s. Last read position: chr17:50,186,776
INFO 2026-06-08 08:50:55 MarkDuplicates Tracking 296581 as yet unmatched pairs. 77619 records in RAM.
INFO 2026-06-08 08:50:57 MarkDuplicates Read 381,000,000 records. Elapsed time: 00:12:36s. Time for last 1,000,000: 1s. Last read position: chr17:50,187,945
INFO 2026-06-08 08:50:57 MarkDuplicates Tracking 325768 as yet unmatched pairs. 106806 records in RAM.
INFO 2026-06-08 08:50:59 MarkDuplicates Read 382,000,000 records. Elapsed time: 00:12:37s. Time for last 1,000,000: 1s. Last read position: chr17:50,188,929
INFO 2026-06-08 08:50:59 MarkDuplicates Tracking 319035 as yet unmatched pairs. 100072 records in RAM.
INFO 2026-06-08 08:51:00 MarkDuplicates Read 383,000,000 records. Elapsed time: 00:12:39s. Time for last 1,000,000: 1s. Last read position: chr17:50,189,701
INFO 2026-06-08 08:51:00 MarkDuplicates Tracking 319677 as yet unmatched pairs. 100706 records in RAM.
INFO 2026-06-08 08:51:02 MarkDuplicates Read 384,000,000 records. Elapsed time: 00:12:41s. Time for last 1,000,000: 1s. Last read position: chr17:50,190,830
INFO 2026-06-08 08:51:02 MarkDuplicates Tracking 289234 as yet unmatched pairs. 70262 records in RAM.
INFO 2026-06-08 08:51:04 MarkDuplicates Read 385,000,000 records. Elapsed time: 00:12:43s. Time for last 1,000,000: 1s. Last read position: chr17:50,192,490
INFO 2026-06-08 08:51:04 MarkDuplicates Tracking 301887 as yet unmatched pairs. 82915 records in RAM.
INFO 2026-06-08 08:51:06 MarkDuplicates Read 386,000,000 records. Elapsed time: 00:12:44s. Time for last 1,000,000: 1s. Last read position: chr17:50,193,982
INFO 2026-06-08 08:51:06 MarkDuplicates Tracking 314277 as yet unmatched pairs. 95301 records in RAM.
INFO 2026-06-08 08:51:07 MarkDuplicates Read 387,000,000 records. Elapsed time: 00:12:46s. Time for last 1,000,000: 1s. Last read position: chr17:50,194,725
INFO 2026-06-08 08:51:07 MarkDuplicates Tracking 298781 as yet unmatched pairs. 79804 records in RAM.
INFO 2026-06-08 08:51:09 MarkDuplicates Read 388,000,000 records. Elapsed time: 00:12:48s. Time for last 1,000,000: 1s. Last read position: chr17:50,195,597
INFO 2026-06-08 08:51:09 MarkDuplicates Tracking 301147 as yet unmatched pairs. 82159 records in RAM.
INFO 2026-06-08 08:51:11 MarkDuplicates Read 389,000,000 records. Elapsed time: 00:12:50s. Time for last 1,000,000: 1s. Last read position: chr17:50,196,502
INFO 2026-06-08 08:51:11 MarkDuplicates Tracking 304997 as yet unmatched pairs. 86006 records in RAM.
INFO 2026-06-08 08:51:13 MarkDuplicates Read 390,000,000 records. Elapsed time: 00:12:51s. Time for last 1,000,000: 1s. Last read position: chr17:50,197,968
INFO 2026-06-08 08:51:13 MarkDuplicates Tracking 283549 as yet unmatched pairs. 64551 records in RAM.
INFO 2026-06-08 08:51:14 MarkDuplicates Read 391,000,000 records. Elapsed time: 00:12:53s. Time for last 1,000,000: 1s. Last read position: chr17:50,199,574
INFO 2026-06-08 08:51:14 MarkDuplicates Tracking 271969 as yet unmatched pairs. 52968 records in RAM.
INFO 2026-06-08 08:51:16 MarkDuplicates Read 392,000,000 records. Elapsed time: 00:12:55s. Time for last 1,000,000: 1s. Last read position: chr17:57,116,866
INFO 2026-06-08 08:51:16 MarkDuplicates Tracking 247711 as yet unmatched pairs. 28709 records in RAM.
INFO 2026-06-08 08:51:17 MarkDuplicates Read 393,000,000 records. Elapsed time: 00:12:56s. Time for last 1,000,000: 1s. Last read position: chr17:59,681,396
INFO 2026-06-08 08:51:17 MarkDuplicates Tracking 248299 as yet unmatched pairs. 29297 records in RAM.
INFO 2026-06-08 08:51:20 MarkDuplicates Read 394,000,000 records. Elapsed time: 00:12:59s. Time for last 1,000,000: 2s. Last read position: chr17:63,435,764
INFO 2026-06-08 08:51:20 MarkDuplicates Tracking 242638 as yet unmatched pairs. 23633 records in RAM.
INFO 2026-06-08 08:51:21 MarkDuplicates Read 395,000,000 records. Elapsed time: 00:13:00s. Time for last 1,000,000: 1s. Last read position: chr17:65,535,671
INFO 2026-06-08 08:51:21 MarkDuplicates Tracking 239280 as yet unmatched pairs. 20272 records in RAM.
INFO 2026-06-08 08:51:24 MarkDuplicates Read 396,000,000 records. Elapsed time: 00:13:03s. Time for last 1,000,000: 2s. Last read position: chr17:72,121,669
INFO 2026-06-08 08:51:24 MarkDuplicates Tracking 237328 as yet unmatched pairs. 18320 records in RAM.
INFO 2026-06-08 08:51:25 MarkDuplicates Read 397,000,000 records. Elapsed time: 00:13:04s. Time for last 1,000,000: 1s. Last read position: chr17:75,724,729
INFO 2026-06-08 08:51:25 MarkDuplicates Tracking 234348 as yet unmatched pairs. 15340 records in RAM.
INFO 2026-06-08 08:51:27 MarkDuplicates Read 398,000,000 records. Elapsed time: 00:13:06s. Time for last 1,000,000: 1s. Last read position: chr17:76,738,378
INFO 2026-06-08 08:51:27 MarkDuplicates Tracking 230628 as yet unmatched pairs. 11620 records in RAM.
INFO 2026-06-08 08:51:29 MarkDuplicates Read 399,000,000 records. Elapsed time: 00:13:08s. Time for last 1,000,000: 1s. Last read position: chr17:80,144,202
INFO 2026-06-08 08:51:29 MarkDuplicates Tracking 227350 as yet unmatched pairs. 8336 records in RAM.
INFO 2026-06-08 08:51:31 MarkDuplicates Read 400,000,000 records. Elapsed time: 00:13:09s. Time for last 1,000,000: 1s. Last read position: chr17:81,511,372
INFO 2026-06-08 08:51:31 MarkDuplicates Tracking 225333 as yet unmatched pairs. 6319 records in RAM.
INFO 2026-06-08 08:51:32 MarkDuplicates Read 401,000,000 records. Elapsed time: 00:13:11s. Time for last 1,000,000: 1s. Last read position: chr17:82,081,648
INFO 2026-06-08 08:51:32 MarkDuplicates Tracking 221051 as yet unmatched pairs. 2037 records in RAM.
INFO 2026-06-08 08:51:34 MarkDuplicates Read 402,000,000 records. Elapsed time: 00:13:13s. Time for last 1,000,000: 1s. Last read position: chr18:6,462,119
INFO 2026-06-08 08:51:34 MarkDuplicates Tracking 217892 as yet unmatched pairs. 13156 records in RAM.
INFO 2026-06-08 08:51:36 MarkDuplicates Read 403,000,000 records. Elapsed time: 00:13:14s. Time for last 1,000,000: 1s. Last read position: chr18:23,894,301
INFO 2026-06-08 08:51:36 MarkDuplicates Tracking 215098 as yet unmatched pairs. 10360 records in RAM.
INFO 2026-06-08 08:51:37 MarkDuplicates Read 404,000,000 records. Elapsed time: 00:13:16s. Time for last 1,000,000: 1s. Last read position: chr18:31,546,632
INFO 2026-06-08 08:51:37 MarkDuplicates Tracking 213149 as yet unmatched pairs. 8411 records in RAM.
INFO 2026-06-08 08:51:39 MarkDuplicates Read 405,000,000 records. Elapsed time: 00:13:18s. Time for last 1,000,000: 1s. Last read position: chr18:48,619,667
INFO 2026-06-08 08:51:39 MarkDuplicates Tracking 209739 as yet unmatched pairs. 4992 records in RAM.
INFO 2026-06-08 08:51:40 MarkDuplicates Read 406,000,000 records. Elapsed time: 00:13:19s. Time for last 1,000,000: 1s. Last read position: chr18:62,228,539
INFO 2026-06-08 08:51:40 MarkDuplicates Tracking 208050 as yet unmatched pairs. 3299 records in RAM.
INFO 2026-06-08 08:51:43 MarkDuplicates Read 407,000,000 records. Elapsed time: 00:13:21s. Time for last 1,000,000: 2s. Last read position: chr19:663,032
INFO 2026-06-08 08:51:43 MarkDuplicates Tracking 203963 as yet unmatched pairs. 89470 records in RAM.
INFO 2026-06-08 08:51:44 MarkDuplicates Read 408,000,000 records. Elapsed time: 00:13:23s. Time for last 1,000,000: 1s. Last read position: chr19:1,854,623
INFO 2026-06-08 08:51:44 MarkDuplicates Tracking 200657 as yet unmatched pairs. 86163 records in RAM.
INFO 2026-06-08 08:51:46 MarkDuplicates Read 409,000,000 records. Elapsed time: 00:13:25s. Time for last 1,000,000: 1s. Last read position: chr19:3,959,308
INFO 2026-06-08 08:51:46 MarkDuplicates Tracking 197123 as yet unmatched pairs. 82629 records in RAM.
INFO 2026-06-08 08:51:47 MarkDuplicates Read 410,000,000 records. Elapsed time: 00:13:26s. Time for last 1,000,000: 1s. Last read position: chr19:5,611,384
INFO 2026-06-08 08:51:47 MarkDuplicates Tracking 193794 as yet unmatched pairs. 79297 records in RAM.
INFO 2026-06-08 08:51:49 MarkDuplicates Read 411,000,000 records. Elapsed time: 00:13:28s. Time for last 1,000,000: 2s. Last read position: chr19:6,821,843
INFO 2026-06-08 08:51:49 MarkDuplicates Tracking 190783 as yet unmatched pairs. 76284 records in RAM.
INFO 2026-06-08 08:51:52 MarkDuplicates Read 412,000,000 records. Elapsed time: 00:13:31s. Time for last 1,000,000: 2s. Last read position: chr19:8,536,987
INFO 2026-06-08 08:51:52 MarkDuplicates Tracking 187674 as yet unmatched pairs. 73173 records in RAM.
INFO 2026-06-08 08:51:53 MarkDuplicates Read 413,000,000 records. Elapsed time: 00:13:32s. Time for last 1,000,000: 1s. Last read position: chr19:10,119,113
INFO 2026-06-08 08:51:53 MarkDuplicates Tracking 185121 as yet unmatched pairs. 70620 records in RAM.
INFO 2026-06-08 08:51:55 MarkDuplicates Read 414,000,000 records. Elapsed time: 00:13:34s. Time for last 1,000,000: 1s. Last read position: chr19:11,034,982
INFO 2026-06-08 08:51:55 MarkDuplicates Tracking 181783 as yet unmatched pairs. 67282 records in RAM.
INFO 2026-06-08 08:51:56 MarkDuplicates Read 415,000,000 records. Elapsed time: 00:13:35s. Time for last 1,000,000: 1s. Last read position: chr19:12,706,235
INFO 2026-06-08 08:51:56 MarkDuplicates Tracking 178985 as yet unmatched pairs. 64481 records in RAM.
INFO 2026-06-08 08:51:58 MarkDuplicates Read 416,000,000 records. Elapsed time: 00:13:37s. Time for last 1,000,000: 1s. Last read position: chr19:13,081,798
INFO 2026-06-08 08:51:58 MarkDuplicates Tracking 178569 as yet unmatched pairs. 64062 records in RAM.
INFO 2026-06-08 08:52:00 MarkDuplicates Read 417,000,000 records. Elapsed time: 00:13:39s. Time for last 1,000,000: 1s. Last read position: chr19:14,412,577
INFO 2026-06-08 08:52:00 MarkDuplicates Tracking 172440 as yet unmatched pairs. 57933 records in RAM.
INFO 2026-06-08 08:52:01 MarkDuplicates Read 418,000,000 records. Elapsed time: 00:13:40s. Time for last 1,000,000: 1s. Last read position: chr19:15,238,845
INFO 2026-06-08 08:52:01 MarkDuplicates Tracking 169190 as yet unmatched pairs. 54683 records in RAM.
INFO 2026-06-08 08:52:03 MarkDuplicates Read 419,000,000 records. Elapsed time: 00:13:42s. Time for last 1,000,000: 1s. Last read position: chr19:16,386,212
INFO 2026-06-08 08:52:03 MarkDuplicates Tracking 166178 as yet unmatched pairs. 51671 records in RAM.
INFO 2026-06-08 08:52:04 MarkDuplicates Read 420,000,000 records. Elapsed time: 00:13:43s. Time for last 1,000,000: 1s. Last read position: chr19:17,341,129
INFO 2026-06-08 08:52:04 MarkDuplicates Tracking 162954 as yet unmatched pairs. 48447 records in RAM.
INFO 2026-06-08 08:52:06 MarkDuplicates Read 421,000,000 records. Elapsed time: 00:13:45s. Time for last 1,000,000: 1s. Last read position: chr19:18,281,125
INFO 2026-06-08 08:52:06 MarkDuplicates Tracking 160151 as yet unmatched pairs. 45644 records in RAM.
INFO 2026-06-08 08:52:08 MarkDuplicates Read 422,000,000 records. Elapsed time: 00:13:47s. Time for last 1,000,000: 1s. Last read position: chr19:19,025,573
INFO 2026-06-08 08:52:08 MarkDuplicates Tracking 156692 as yet unmatched pairs. 42183 records in RAM.
INFO 2026-06-08 08:52:09 MarkDuplicates Read 423,000,000 records. Elapsed time: 00:13:48s. Time for last 1,000,000: 1s. Last read position: chr19:32,605,861
INFO 2026-06-08 08:52:09 MarkDuplicates Tracking 152995 as yet unmatched pairs. 38484 records in RAM.
INFO 2026-06-08 08:52:11 MarkDuplicates Read 424,000,000 records. Elapsed time: 00:13:50s. Time for last 1,000,000: 1s. Last read position: chr19:35,267,660
INFO 2026-06-08 08:52:11 MarkDuplicates Tracking 151520 as yet unmatched pairs. 37009 records in RAM.
INFO 2026-06-08 08:52:13 MarkDuplicates Read 425,000,000 records. Elapsed time: 00:13:52s. Time for last 1,000,000: 1s. Last read position: chr19:37,889,814
INFO 2026-06-08 08:52:13 MarkDuplicates Tracking 146882 as yet unmatched pairs. 32370 records in RAM.
INFO 2026-06-08 08:52:14 MarkDuplicates Read 426,000,000 records. Elapsed time: 00:13:53s. Time for last 1,000,000: 1s. Last read position: chr19:39,388,799
INFO 2026-06-08 08:52:14 MarkDuplicates Tracking 144180 as yet unmatched pairs. 29667 records in RAM.
INFO 2026-06-08 08:52:16 MarkDuplicates Read 427,000,000 records. Elapsed time: 00:13:55s. Time for last 1,000,000: 1s. Last read position: chr19:40,374,540
INFO 2026-06-08 08:52:16 MarkDuplicates Tracking 141919 as yet unmatched pairs. 27406 records in RAM.
INFO 2026-06-08 08:52:17 MarkDuplicates Read 428,000,000 records. Elapsed time: 00:13:56s. Time for last 1,000,000: 1s. Last read position: chr19:42,090,782
INFO 2026-06-08 08:52:17 MarkDuplicates Tracking 138032 as yet unmatched pairs. 23519 records in RAM.
INFO 2026-06-08 08:52:19 MarkDuplicates Read 429,000,000 records. Elapsed time: 00:13:58s. Time for last 1,000,000: 1s. Last read position: chr19:44,907,832
INFO 2026-06-08 08:52:19 MarkDuplicates Tracking 137538 as yet unmatched pairs. 23023 records in RAM.
INFO 2026-06-08 08:52:21 MarkDuplicates Read 430,000,000 records. Elapsed time: 00:14:00s. Time for last 1,000,000: 1s. Last read position: chr19:46,015,940
INFO 2026-06-08 08:52:21 MarkDuplicates Tracking 131033 as yet unmatched pairs. 16517 records in RAM.
INFO 2026-06-08 08:52:24 MarkDuplicates Read 431,000,000 records. Elapsed time: 00:14:03s. Time for last 1,000,000: 2s. Last read position: chr19:48,633,475
INFO 2026-06-08 08:52:24 MarkDuplicates Tracking 128034 as yet unmatched pairs. 13517 records in RAM.
INFO 2026-06-08 08:52:25 MarkDuplicates Read 432,000,000 records. Elapsed time: 00:14:04s. Time for last 1,000,000: 1s. Last read position: chr19:49,646,717
INFO 2026-06-08 08:52:25 MarkDuplicates Tracking 125154 as yet unmatched pairs. 10635 records in RAM.
INFO 2026-06-08 08:52:27 MarkDuplicates Read 433,000,000 records. Elapsed time: 00:14:06s. Time for last 1,000,000: 1s. Last read position: chr19:51,872,939
INFO 2026-06-08 08:52:27 MarkDuplicates Tracking 121627 as yet unmatched pairs. 7108 records in RAM.
INFO 2026-06-08 08:52:29 MarkDuplicates Read 434,000,000 records. Elapsed time: 00:14:07s. Time for last 1,000,000: 1s. Last read position: chr19:54,663,815
INFO 2026-06-08 08:52:29 MarkDuplicates Tracking 119191 as yet unmatched pairs. 4666 records in RAM.
INFO 2026-06-08 08:52:30 MarkDuplicates Read 435,000,000 records. Elapsed time: 00:14:09s. Time for last 1,000,000: 1s. Last read position: chr19:57,859,368
INFO 2026-06-08 08:52:30 MarkDuplicates Tracking 116132 as yet unmatched pairs. 1607 records in RAM.
INFO 2026-06-08 08:52:32 MarkDuplicates Read 436,000,000 records. Elapsed time: 00:14:11s. Time for last 1,000,000: 1s. Last read position: chr20:2,988,339
INFO 2026-06-08 08:52:32 MarkDuplicates Tracking 113294 as yet unmatched pairs. 26219 records in RAM.
INFO 2026-06-08 08:52:34 MarkDuplicates Read 437,000,000 records. Elapsed time: 00:14:12s. Time for last 1,000,000: 1s. Last read position: chr20:17,618,625
INFO 2026-06-08 08:52:34 MarkDuplicates Tracking 110583 as yet unmatched pairs. 23508 records in RAM.
INFO 2026-06-08 08:52:35 MarkDuplicates Read 438,000,000 records. Elapsed time: 00:14:14s. Time for last 1,000,000: 1s. Last read position: chr20:32,143,041
INFO 2026-06-08 08:52:35 MarkDuplicates Tracking 107624 as yet unmatched pairs. 20549 records in RAM.
INFO 2026-06-08 08:52:37 MarkDuplicates Read 439,000,000 records. Elapsed time: 00:14:16s. Time for last 1,000,000: 1s. Last read position: chr20:35,632,162
INFO 2026-06-08 08:52:37 MarkDuplicates Tracking 104596 as yet unmatched pairs. 17521 records in RAM.
INFO 2026-06-08 08:52:38 MarkDuplicates Read 440,000,000 records. Elapsed time: 00:14:17s. Time for last 1,000,000: 1s. Last read position: chr20:38,554,042
INFO 2026-06-08 08:52:38 MarkDuplicates Tracking 101786 as yet unmatched pairs. 14711 records in RAM.
INFO 2026-06-08 08:52:40 MarkDuplicates Read 441,000,000 records. Elapsed time: 00:14:19s. Time for last 1,000,000: 1s. Last read position: chr20:45,883,041
INFO 2026-06-08 08:52:40 MarkDuplicates Tracking 98756 as yet unmatched pairs. 11681 records in RAM.
INFO 2026-06-08 08:52:41 MarkDuplicates Read 442,000,000 records. Elapsed time: 00:14:20s. Time for last 1,000,000: 1s. Last read position: chr20:49,905,670
INFO 2026-06-08 08:52:41 MarkDuplicates Tracking 95806 as yet unmatched pairs. 8729 records in RAM.
INFO 2026-06-08 08:52:43 MarkDuplicates Read 443,000,000 records. Elapsed time: 00:14:22s. Time for last 1,000,000: 1s. Last read position: chr20:58,903,534
INFO 2026-06-08 08:52:43 MarkDuplicates Tracking 95323 as yet unmatched pairs. 8244 records in RAM.
INFO 2026-06-08 08:52:44 MarkDuplicates Read 444,000,000 records. Elapsed time: 00:14:23s. Time for last 1,000,000: 1s. Last read position: chr20:62,943,561
INFO 2026-06-08 08:52:44 MarkDuplicates Tracking 90009 as yet unmatched pairs. 2930 records in RAM.
INFO 2026-06-08 08:52:46 MarkDuplicates Read 445,000,000 records. Elapsed time: 00:14:25s. Time for last 1,000,000: 1s. Last read position: chr21:6,487,163
INFO 2026-06-08 08:52:46 MarkDuplicates Tracking 87048 as yet unmatched pairs. 18189 records in RAM.
INFO 2026-06-08 08:52:48 MarkDuplicates Read 446,000,000 records. Elapsed time: 00:14:27s. Time for last 1,000,000: 1s. Last read position: chr21:26,090,020
INFO 2026-06-08 08:52:48 MarkDuplicates Tracking 86873 as yet unmatched pairs. 18011 records in RAM.
INFO 2026-06-08 08:52:50 MarkDuplicates Read 447,000,000 records. Elapsed time: 00:14:29s. Time for last 1,000,000: 2s. Last read position: chr21:33,555,274
INFO 2026-06-08 08:52:50 MarkDuplicates Tracking 81829 as yet unmatched pairs. 12967 records in RAM.
INFO 2026-06-08 08:52:52 MarkDuplicates Read 448,000,000 records. Elapsed time: 00:14:30s. Time for last 1,000,000: 1s. Last read position: chr21:39,181,867
INFO 2026-06-08 08:52:52 MarkDuplicates Tracking 78747 as yet unmatched pairs. 9883 records in RAM.
INFO 2026-06-08 08:52:54 MarkDuplicates Read 449,000,000 records. Elapsed time: 00:14:33s. Time for last 1,000,000: 2s. Last read position: chr21:44,226,116
INFO 2026-06-08 08:52:54 MarkDuplicates Tracking 75980 as yet unmatched pairs. 7116 records in RAM.
INFO 2026-06-08 08:52:56 MarkDuplicates Read 450,000,000 records. Elapsed time: 00:14:35s. Time for last 1,000,000: 1s. Last read position: chr21:45,992,769
INFO 2026-06-08 08:52:56 MarkDuplicates Tracking 74034 as yet unmatched pairs. 5167 records in RAM.
INFO 2026-06-08 08:52:57 MarkDuplicates Read 451,000,000 records. Elapsed time: 00:14:36s. Time for last 1,000,000: 1s. Last read position: chr21:46,353,231
INFO 2026-06-08 08:52:57 MarkDuplicates Tracking 69851 as yet unmatched pairs. 982 records in RAM.
INFO 2026-06-08 08:52:59 MarkDuplicates Read 452,000,000 records. Elapsed time: 00:14:38s. Time for last 1,000,000: 1s. Last read position: chr22:20,753,166
INFO 2026-06-08 08:52:59 MarkDuplicates Tracking 67036 as yet unmatched pairs. 30107 records in RAM.
INFO 2026-06-08 08:53:01 MarkDuplicates Read 453,000,000 records. Elapsed time: 00:14:39s. Time for last 1,000,000: 1s. Last read position: chr22:24,042,956
INFO 2026-06-08 08:53:01 MarkDuplicates Tracking 63920 as yet unmatched pairs. 26989 records in RAM.
INFO 2026-06-08 08:53:02 MarkDuplicates Read 454,000,000 records. Elapsed time: 00:14:41s. Time for last 1,000,000: 1s. Last read position: chr22:29,287,085
INFO 2026-06-08 08:53:02 MarkDuplicates Tracking 63314 as yet unmatched pairs. 26383 records in RAM.
INFO 2026-06-08 08:53:04 MarkDuplicates Read 455,000,000 records. Elapsed time: 00:14:42s. Time for last 1,000,000: 1s. Last read position: chr22:31,262,220
INFO 2026-06-08 08:53:04 MarkDuplicates Tracking 57884 as yet unmatched pairs. 20951 records in RAM.
INFO 2026-06-08 08:53:05 MarkDuplicates Read 456,000,000 records. Elapsed time: 00:14:44s. Time for last 1,000,000: 1s. Last read position: chr22:36,293,358
INFO 2026-06-08 08:53:05 MarkDuplicates Tracking 55318 as yet unmatched pairs. 18381 records in RAM.
INFO 2026-06-08 08:53:07 MarkDuplicates Read 457,000,000 records. Elapsed time: 00:14:46s. Time for last 1,000,000: 1s. Last read position: chr22:37,863,292
INFO 2026-06-08 08:53:07 MarkDuplicates Tracking 52643 as yet unmatched pairs. 15706 records in RAM.
INFO 2026-06-08 08:53:08 MarkDuplicates Read 458,000,000 records. Elapsed time: 00:14:47s. Time for last 1,000,000: 1s. Last read position: chr22:39,350,075
INFO 2026-06-08 08:53:08 MarkDuplicates Tracking 48808 as yet unmatched pairs. 11871 records in RAM.
INFO 2026-06-08 08:53:11 MarkDuplicates Read 459,000,000 records. Elapsed time: 00:14:50s. Time for last 1,000,000: 2s. Last read position: chr22:41,663,621
INFO 2026-06-08 08:53:11 MarkDuplicates Tracking 46263 as yet unmatched pairs. 9324 records in RAM.
INFO 2026-06-08 08:53:13 MarkDuplicates Read 460,000,000 records. Elapsed time: 00:14:52s. Time for last 1,000,000: 1s. Last read position: chr22:45,332,700
INFO 2026-06-08 08:53:13 MarkDuplicates Tracking 43324 as yet unmatched pairs. 6385 records in RAM.
INFO 2026-06-08 08:53:14 MarkDuplicates Read 461,000,000 records. Elapsed time: 00:14:53s. Time for last 1,000,000: 1s. Last read position: chr22:50,431,301
INFO 2026-06-08 08:53:14 MarkDuplicates Tracking 39727 as yet unmatched pairs. 2788 records in RAM.
INFO 2026-06-08 08:53:16 MarkDuplicates Read 462,000,000 records. Elapsed time: 00:14:55s. Time for last 1,000,000: 1s. Last read position: chrX:3,317,699
INFO 2026-06-08 08:53:16 MarkDuplicates Tracking 36381 as yet unmatched pairs. 34981 records in RAM.
INFO 2026-06-08 08:53:18 MarkDuplicates Read 463,000,000 records. Elapsed time: 00:14:56s. Time for last 1,000,000: 1s. Last read position: chrX:24,057,716
INFO 2026-06-08 08:53:18 MarkDuplicates Tracking 34791 as yet unmatched pairs. 33391 records in RAM.
INFO 2026-06-08 08:53:19 MarkDuplicates Read 464,000,000 records. Elapsed time: 00:14:58s. Time for last 1,000,000: 1s. Last read position: chrX:45,053,342
INFO 2026-06-08 08:53:19 MarkDuplicates Tracking 30880 as yet unmatched pairs. 29480 records in RAM.
INFO 2026-06-08 08:53:21 MarkDuplicates Read 465,000,000 records. Elapsed time: 00:14:59s. Time for last 1,000,000: 1s. Last read position: chrX:48,706,357
INFO 2026-06-08 08:53:21 MarkDuplicates Tracking 27943 as yet unmatched pairs. 26543 records in RAM.
INFO 2026-06-08 08:53:22 MarkDuplicates Read 466,000,000 records. Elapsed time: 00:15:01s. Time for last 1,000,000: 1s. Last read position: chrX:53,215,831
INFO 2026-06-08 08:53:22 MarkDuplicates Tracking 25289 as yet unmatched pairs. 23889 records in RAM.
INFO 2026-06-08 08:53:24 MarkDuplicates Read 467,000,000 records. Elapsed time: 00:15:03s. Time for last 1,000,000: 1s. Last read position: chrX:63,706,396
INFO 2026-06-08 08:53:24 MarkDuplicates Tracking 22391 as yet unmatched pairs. 20991 records in RAM.
INFO 2026-06-08 08:53:25 MarkDuplicates Read 468,000,000 records. Elapsed time: 00:15:04s. Time for last 1,000,000: 1s. Last read position: chrX:71,557,021
INFO 2026-06-08 08:53:25 MarkDuplicates Tracking 21079 as yet unmatched pairs. 19679 records in RAM.
INFO 2026-06-08 08:53:27 MarkDuplicates Read 469,000,000 records. Elapsed time: 00:15:06s. Time for last 1,000,000: 1s. Last read position: chrX:77,875,554
INFO 2026-06-08 08:53:27 MarkDuplicates Tracking 16722 as yet unmatched pairs. 15322 records in RAM.
INFO 2026-06-08 08:53:28 MarkDuplicates Read 470,000,000 records. Elapsed time: 00:15:07s. Time for last 1,000,000: 1s. Last read position: chrX:107,628,520
INFO 2026-06-08 08:53:28 MarkDuplicates Tracking 13967 as yet unmatched pairs. 12567 records in RAM.
INFO 2026-06-08 08:53:30 MarkDuplicates Read 471,000,000 records. Elapsed time: 00:15:08s. Time for last 1,000,000: 1s. Last read position: chrX:120,456,675
INFO 2026-06-08 08:53:30 MarkDuplicates Tracking 14001 as yet unmatched pairs. 12601 records in RAM.
INFO 2026-06-08 08:53:31 MarkDuplicates Read 472,000,000 records. Elapsed time: 00:15:10s. Time for last 1,000,000: 1s. Last read position: chrX:136,875,147
INFO 2026-06-08 08:53:31 MarkDuplicates Tracking 9898 as yet unmatched pairs. 8498 records in RAM.
INFO 2026-06-08 08:53:33 MarkDuplicates Read 473,000,000 records. Elapsed time: 00:15:12s. Time for last 1,000,000: 1s. Last read position: chrX:153,950,916
INFO 2026-06-08 08:53:33 MarkDuplicates Tracking 6188 as yet unmatched pairs. 4788 records in RAM.
INFO 2026-06-08 08:53:35 MarkDuplicates Read 474,000,000 records. Elapsed time: 00:15:13s. Time for last 1,000,000: 1s. Last read position: chrX:154,448,708
INFO 2026-06-08 08:53:35 MarkDuplicates Tracking 2819 as yet unmatched pairs. 1419 records in RAM.
INFO 2026-06-08 08:53:36 MarkDuplicates Read 475,000,000 records. Elapsed time: 00:15:15s. Time for last 1,000,000: 1s. Last read position: GL000220.1:160,833
INFO 2026-06-08 08:53:36 MarkDuplicates Tracking 807 as yet unmatched pairs. 0 records in RAM.
INFO 2026-06-08 08:53:37 MarkDuplicates Read 475429236 records. 0 pairs never matched.
INFO 2026-06-08 08:54:40 MarkDuplicates After buildSortedReadEndLists freeMemory: 41946433416; totalMemory: 59861106688; maxMemory: 63585648640
INFO 2026-06-08 08:54:40 MarkDuplicates Will retain up to 1987051520 duplicate indices before spilling to disk.
INFO 2026-06-08 08:54:57 MarkDuplicates Traversing read pair information and detecting duplicates.
INFO 2026-06-08 08:55:20 OpticalDuplicateFinder Large duplicate set. size = 1638
INFO 2026-06-08 08:55:20 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:-24,968
INFO 2026-06-08 08:55:36 OpticalDuplicateFinder Large duplicate set. size = 1001
INFO 2026-06-08 08:55:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:10,643
INFO 2026-06-08 08:55:36 OpticalDuplicateFinder Large duplicate set. size = 1069
INFO 2026-06-08 08:55:36 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:19,235
INFO 2026-06-08 08:55:37 OpticalDuplicateFinder Large duplicate set. size = 1252
INFO 2026-06-08 08:55:37 OpticalDuplicateFinder compared 1,000 ReadEnds to others. Elapsed time: 00:00:00s. Time for last 1,000: 0s. Last read position: 0:32,244
INFO 2026-06-08 08:55:42 MarkDuplicates Traversing fragment information and detecting duplicates.
WARNING 2026-06-08 08:55:42 SortingCollection There is not enough memory per file for buffering. Reading will be unbuffered.
INFO 2026-06-08 08:56:25 MarkDuplicates Sorting list of duplicate records.
INFO 2026-06-08 08:56:34 MarkDuplicates After generateDuplicateIndexes freeMemory: 37301367328; totalMemory: 53250883584; maxMemory: 63585648640
INFO 2026-06-08 08:56:34 MarkDuplicates Marking 255824402 records as duplicates.
INFO 2026-06-08 08:56:34 MarkDuplicates Found 10224247 optical duplicate clusters.
INFO 2026-06-08 08:56:34 MarkDuplicates Reads are assumed to be ordered by: coordinate
INFO 2026-06-08 08:56:50 MarkDuplicates Written 10,000,000 records. Elapsed time: 00:00:15s. Time for last 10,000,000: 15s. Last read position: chr1:33,334,090
INFO 2026-06-08 08:57:07 MarkDuplicates Written 20,000,000 records. Elapsed time: 00:00:32s. Time for last 10,000,000: 16s. Last read position: chr1:109,250,570
INFO 2026-06-08 08:57:23 MarkDuplicates Written 30,000,000 records. Elapsed time: 00:00:48s. Time for last 10,000,000: 16s. Last read position: chr1:150,266,632
INFO 2026-06-08 08:57:41 MarkDuplicates Written 40,000,000 records. Elapsed time: 00:01:06s. Time for last 10,000,000: 17s. Last read position: chr1:156,311,111
INFO 2026-06-08 08:57:57 MarkDuplicates Written 50,000,000 records. Elapsed time: 00:01:22s. Time for last 10,000,000: 16s. Last read position: chr1:203,185,342
INFO 2026-06-08 08:58:15 MarkDuplicates Written 60,000,000 records. Elapsed time: 00:01:40s. Time for last 10,000,000: 17s. Last read position: chr2:27,225,139
INFO 2026-06-08 08:58:31 MarkDuplicates Written 70,000,000 records. Elapsed time: 00:01:56s. Time for last 10,000,000: 16s. Last read position: chr2:64,553,179
INFO 2026-06-08 08:58:48 MarkDuplicates Written 80,000,000 records. Elapsed time: 00:02:13s. Time for last 10,000,000: 16s. Last read position: chr2:159,446,966
INFO 2026-06-08 08:59:04 MarkDuplicates Written 90,000,000 records. Elapsed time: 00:02:29s. Time for last 10,000,000: 16s. Last read position: chr2:215,422,107
INFO 2026-06-08 08:59:20 MarkDuplicates Written 100,000,000 records. Elapsed time: 00:02:45s. Time for last 10,000,000: 15s. Last read position: chr3:39,408,711
INFO 2026-06-08 08:59:36 MarkDuplicates Written 110,000,000 records. Elapsed time: 00:03:01s. Time for last 10,000,000: 16s. Last read position: chr3:128,055,553
INFO 2026-06-08 08:59:52 MarkDuplicates Written 120,000,000 records. Elapsed time: 00:03:17s. Time for last 10,000,000: 16s. Last read position: chr4:991,379
INFO 2026-06-08 09:00:08 MarkDuplicates Written 130,000,000 records. Elapsed time: 00:03:33s. Time for last 10,000,000: 16s. Last read position: chr4:143,206,152
INFO 2026-06-08 09:00:25 MarkDuplicates Written 140,000,000 records. Elapsed time: 00:03:50s. Time for last 10,000,000: 16s. Last read position: chr5:83,541,563
INFO 2026-06-08 09:00:41 MarkDuplicates Written 150,000,000 records. Elapsed time: 00:04:06s. Time for last 10,000,000: 16s. Last read position: chr5:151,507,510
INFO 2026-06-08 09:00:57 MarkDuplicates Written 160,000,000 records. Elapsed time: 00:04:22s. Time for last 10,000,000: 15s. Last read position: chr6:31,356,418
INFO 2026-06-08 09:01:14 MarkDuplicates Written 170,000,000 records. Elapsed time: 00:04:39s. Time for last 10,000,000: 16s. Last read position: chr6:63,685,300
INFO 2026-06-08 09:01:30 MarkDuplicates Written 180,000,000 records. Elapsed time: 00:04:55s. Time for last 10,000,000: 16s. Last read position: chr6:163,567,912
INFO 2026-06-08 09:01:47 MarkDuplicates Written 190,000,000 records. Elapsed time: 00:05:12s. Time for last 10,000,000: 16s. Last read position: chr7:75,192,005
INFO 2026-06-08 09:02:03 MarkDuplicates Written 200,000,000 records. Elapsed time: 00:05:28s. Time for last 10,000,000: 16s. Last read position: chr7:128,767,621
INFO 2026-06-08 09:02:19 MarkDuplicates Written 210,000,000 records. Elapsed time: 00:05:44s. Time for last 10,000,000: 16s. Last read position: chr8:32,741,823
INFO 2026-06-08 09:02:36 MarkDuplicates Written 220,000,000 records. Elapsed time: 00:06:01s. Time for last 10,000,000: 16s. Last read position: chr8:127,740,875
INFO 2026-06-08 09:02:53 MarkDuplicates Written 230,000,000 records. Elapsed time: 00:06:18s. Time for last 10,000,000: 16s. Last read position: chr9:85,942,247
INFO 2026-06-08 09:03:10 MarkDuplicates Written 240,000,000 records. Elapsed time: 00:06:35s. Time for last 10,000,000: 16s. Last read position: chr9:136,506,918
INFO 2026-06-08 09:03:27 MarkDuplicates Written 250,000,000 records. Elapsed time: 00:06:52s. Time for last 10,000,000: 17s. Last read position: chr10:69,376,979
INFO 2026-06-08 09:03:44 MarkDuplicates Written 260,000,000 records. Elapsed time: 00:07:09s. Time for last 10,000,000: 17s. Last read position: chr11:3,702,649
INFO 2026-06-08 09:04:01 MarkDuplicates Written 270,000,000 records. Elapsed time: 00:07:26s. Time for last 10,000,000: 17s. Last read position: chr11:64,219,509
INFO 2026-06-08 09:04:18 MarkDuplicates Written 280,000,000 records. Elapsed time: 00:07:44s. Time for last 10,000,000: 17s. Last read position: chr11:118,503,325
INFO 2026-06-08 09:04:36 MarkDuplicates Written 290,000,000 records. Elapsed time: 00:08:01s. Time for last 10,000,000: 17s. Last read position: chr12:47,964,301
INFO 2026-06-08 09:04:53 MarkDuplicates Written 300,000,000 records. Elapsed time: 00:08:18s. Time for last 10,000,000: 17s. Last read position: chr12:93,641,191
INFO 2026-06-08 09:05:10 MarkDuplicates Written 310,000,000 records. Elapsed time: 00:08:35s. Time for last 10,000,000: 17s. Last read position: chr13:71,675,355
INFO 2026-06-08 09:05:27 MarkDuplicates Written 320,000,000 records. Elapsed time: 00:08:52s. Time for last 10,000,000: 17s. Last read position: chr14:75,196,272
INFO 2026-06-08 09:05:44 MarkDuplicates Written 330,000,000 records. Elapsed time: 00:09:09s. Time for last 10,000,000: 17s. Last read position: chr15:42,692,041
INFO 2026-06-08 09:06:01 MarkDuplicates Written 340,000,000 records. Elapsed time: 00:09:26s. Time for last 10,000,000: 17s. Last read position: chr16:669,551
INFO 2026-06-08 09:06:18 MarkDuplicates Written 350,000,000 records. Elapsed time: 00:09:43s. Time for last 10,000,000: 16s. Last read position: chr16:24,571,746
INFO 2026-06-08 09:06:35 MarkDuplicates Written 360,000,000 records. Elapsed time: 00:10:00s. Time for last 10,000,000: 16s. Last read position: chr16:74,391,659
INFO 2026-06-08 09:06:52 MarkDuplicates Written 370,000,000 records. Elapsed time: 00:10:17s. Time for last 10,000,000: 16s. Last read position: chr17:27,312,209
INFO 2026-06-08 09:07:08 MarkDuplicates Written 380,000,000 records. Elapsed time: 00:10:33s. Time for last 10,000,000: 16s. Last read position: chr17:50,186,776
INFO 2026-06-08 09:07:26 MarkDuplicates Written 390,000,000 records. Elapsed time: 00:10:51s. Time for last 10,000,000: 17s. Last read position: chr17:50,197,968
INFO 2026-06-08 09:07:43 MarkDuplicates Written 400,000,000 records. Elapsed time: 00:11:08s. Time for last 10,000,000: 17s. Last read position: chr17:81,511,372
INFO 2026-06-08 09:08:00 MarkDuplicates Written 410,000,000 records. Elapsed time: 00:11:25s. Time for last 10,000,000: 16s. Last read position: chr19:5,611,384
INFO 2026-06-08 09:08:17 MarkDuplicates Written 420,000,000 records. Elapsed time: 00:11:42s. Time for last 10,000,000: 16s. Last read position: chr19:17,341,129
INFO 2026-06-08 09:08:33 MarkDuplicates Written 430,000,000 records. Elapsed time: 00:11:58s. Time for last 10,000,000: 16s. Last read position: chr19:46,015,940
INFO 2026-06-08 09:08:51 MarkDuplicates Written 440,000,000 records. Elapsed time: 00:12:16s. Time for last 10,000,000: 17s. Last read position: chr20:38,554,042
INFO 2026-06-08 09:09:08 MarkDuplicates Written 450,000,000 records. Elapsed time: 00:12:33s. Time for last 10,000,000: 16s. Last read position: chr21:45,992,769
INFO 2026-06-08 09:09:25 MarkDuplicates Written 460,000,000 records. Elapsed time: 00:12:50s. Time for last 10,000,000: 17s. Last read position: chr22:45,332,700
INFO 2026-06-08 09:09:42 MarkDuplicates Written 470,000,000 records. Elapsed time: 00:13:07s. Time for last 10,000,000: 17s. Last read position: chrX:107,628,520
INFO 2026-06-08 09:09:58 MarkDuplicates Writing complete. Closing input iterator.
INFO 2026-06-08 09:09:58 MarkDuplicates Duplicate Index cleanup.
INFO 2026-06-08 09:09:58 MarkDuplicates Getting Memory Stats.
INFO 2026-06-08 09:09:59 MarkDuplicates Before output close freeMemory: 202626760; totalMemory: 234881024; maxMemory: 63585648640
INFO 2026-06-08 09:09:59 MarkDuplicates Closed outputs. Getting more Memory Stats.
INFO 2026-06-08 09:09:59 MarkDuplicates After output close freeMemory: 104832072; totalMemory: 134217728; maxMemory: 63585648640
[Mon Jun 08 09:09:59 GMT 2026] picard.sam.markduplicates.MarkDuplicates done. Elapsed time: 31.66 minutes.
Runtime.totalMemory()=134217728
Tool returned:
0
ls: *cram: No such file or directory
ls: *.crai: No such file or directory