[log] germline: WGS + AWS: g4dn.2xlarge (T4 + 8vCPU + 32GB) === ###### tags: `Parabricks-v3.8` ###### tags: `基因體`, `NVIDIA`, `Clara`, `Parabricks`, `二級分析` <br> [TOC] <br> ## 硬體資源：EC2 / g4dn.2xlarge > 查閱方式：[[HackMD] AWS / 容器執行個體(EC2) / EC2 / g4dn.4xlarge](https://hackmd.io/QavypnMBRoW8P9aH4gw8FA#EC2--g4dnxlarge) [![](https://i.imgur.com/MKx9iRZ.png)](https://i.imgur.com/MKx9iRZ.png) ### GPU - GPU 0: Tesla T4 (15360MiB) ### CPU - Intel® Xeon® Platinum 8259CL CPU @ 2.50GHz - 1(插槽) x 4(核/插槽) x 2(超執行緒/核) = 8條執行緒 (16vCPU) - cpu MHz: 3100 - BogoMIPS: 5000 - :::spoiler `$ lscpu` ``` $ lscpu Architecture: x86_64 CPU op-mode(s): 32-bit, 64-bit Byte Order: Little Endian CPU(s): 8 On-line CPU(s) list: 0-7 Thread(s) per core: 2 Core(s) per socket: 4 Socket(s): 1 NUMA node(s): 1 Vendor ID: GenuineIntel CPU family: 6 Model: 85 Model name: Intel(R) Xeon(R) Platinum 8259CL CPU @ 2.50GHz Stepping: 7 CPU MHz: 3100.003 BogoMIPS: 5000.00 Hypervisor vendor: KVM Virtualization type: full L1d cache: 32K L1i cache: 32K L2 cache: 1024K L3 cache: 36608K NUMA node0 CPU(s): 0-7 Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc rep_good nopl xtopology nonstop_tsc cpuid aperfmperf tsc_known_freq pni pclmulqdq ssse3 fma cx16 pcid sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand hypervisor lahf_lm abm 3dnowprefetch invpcid_single pti fsgsbase tsc_adjust bmi1 avx2 smep bmi2 erms invpcid mpx avx512f avx512dq rdseed adx smap clflushopt clwb avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves ida arat pku ospke avx512_vnni ``` ::: ### RAM - 16GB ### Storage - **規格**：`General Purpose SSD (gp3)`, `14600IOPS`, `571MiB` - **儲存容量** - `/`: 50GB - `/workspace`: 500GB - **實際效能測試** | | 速度 | IOPS | |---|-----|------| | Read | 43.1 MiB/s | 11k | | Write | 14.4 MiB/s |3680 | ```bash= $ apt-get install -y fio $ fio \ --randrepeat=1 \ --ioengine=libaio \ --direct=1 \ --gtod_reduce=1 \ --name=fiotest \ --filename=testfio \ --bs=4k \ --iodepth=64 \ --size=8G \ --readwrite=randrw \ --rwmixread=75 ``` :::spoiler 點此查看 **執行結果** ``` fiotest: (g=0): rw=randrw, bs=(R) 4096B-4096B, (W) 4096B-4096B, (T) 4096B-4096B, ioengine=libaio, iodepth=64 fio-3.1 Starting 1 process Jobs: 1 (f=1): [m(1)][100.0%][r=42.5MiB/s,w=14.5MiB/s][r=10.9k,w=3718 IOPS][eta 00m:00s] fiotest: (groupid=0, jobs=1): err= 0: pid=24746: Mon Mar 21 09:55:20 2022 read: IOPS=11.0k, BW=43.1MiB/s (45.1MB/s)(6141MiB/142634msec) bw ( KiB/s): min=42832, max=119600, per=99.99%, avg=44083.46, stdev=4551.88, samples=285 iops : min=10708, max=29900, avg=11020.86, stdev=1137.97, samples=285 write: IOPS=3680, BW=14.4MiB/s (15.1MB/s)(2051MiB/142634msec) bw ( KiB/s): min=13600, max=39784, per=99.99%, avg=14721.11, stdev=1537.27, samples=285 iops : min= 3400, max= 9946, avg=3680.25, stdev=384.32, samples=285 cpu : usr=2.24%, sys=6.38%, ctx=641532, majf=0, minf=8 IO depths : 1=0.1%, 2=0.1%, 4=0.1%, 8=0.1%, 16=0.1%, 32=0.1%, >=64=100.0% submit : 0=0.0%, 4=100.0%, 8=0.0%, 16=0.0%, 32=0.0%, 64=0.0%, >=64=0.0% complete : 0=0.0%, 4=100.0%, 8=0.0%, 16=0.0%, 32=0.0%, 64=0.1%, >=64=0.0% issued rwt: total=1572145,525007,0, short=0,0,0, dropped=0,0,0 latency : target=0, window=0, percentile=100.00%, depth=64 Run status group 0 (all jobs): READ: bw=43.1MiB/s (45.1MB/s), 43.1MiB/s-43.1MiB/s (45.1MB/s-45.1MB/s), io=6141MiB (6440MB), run=142634-142634msec WRITE: bw=14.4MiB/s (15.1MB/s), 14.4MiB/s-14.4MiB/s (15.1MB/s-15.1MB/s), io=2051MiB (2150MB), run=142634-142634msec Disk stats (read/write): nvme2n1: ios=1569518/524146, merge=0/4, ticks=3147945/1116778, in_queue=6120, util=99.97% ``` ::: <br> <hr> <br> ## script ```bash= # cmd: sh germline.sh 2>&1 | tee germline.sh.log & date && start_time=`date +%s` && echo "start_time:" $start_time pbrun germline \ --ref parabricks_sample/Ref/Homo_sapiens_assembly38.fasta \ --in-fq \ datasets/WGS-LIS-AI018A_R1.fastq.gz \ datasets/WGS-LIS-AI018A_R2.fastq.gz \ --knownSites parabricks_sample/Ref/Homo_sapiens_assembly38.known_indels.vcf.gz \ --out-bam output/output.bam \ --out-variants output/output.vcf \ --out-recal-file output/report.txt \ ; \ echo "exit code:" $!; \ echo "Done!" date && end_time=`date +%s` && echo "end_time:" $end_time total=$((end_time - start_time)) time_h=$((total/3600)) time_m=$(( (total - time_h*3600) / 60 )) time_s=$(( total - time_h*3600 - time_m*60 )) echo "Total time: ${time_h}h ${time_m}m ${time_s}s" ``` <br> <hr> <br> ## 執行狀況評估 > **g4dn.2xlarge (T4 + 8vCPU + 16GB)** :::warning :warning: `--memory-limit` 30, 28, 26, 20(P3: 90.4%) 皆被 **killed**，跑不起來 ::: | # | ml | nct | Total | P1 | P2 | P3 | P4 | |---|----|-----|-----:|---:|---:|---:|---:| | 1 | - | - | **7h 58m 13s** | 5h 28m 34s | 6m 50s | 52m 41s | 1h 30m 00s | | 1 | 16 | - | **8h 01m 50s** | 5h 34m 11s | 6m 41s | 52m 02s | 1h 28m 51s | | 1 | 20 | 2 | **7h 57m 51s** | 5h 28m 48s | 6m 41s | 52m 01s | 1h 30m 30s | | 1 | 26 | 1 | **** | | | | | - params - **ng**: `--num-gpus` - **ml**: `--memory-limit` - **nct**: `--num-cpu-threads` - P: Program - **P1**: GPU-BWA mem, Sorting Phase-I - **P2**: Sorting Phase-II - **P3**: Marking Dmuplicates, BQSR - **P4**: GPU-GATK4 HaplotypeCaller <br> <hr> <br> ## Log ```= $ sh germline.sh 2>&1 | tee germline.sh.log & [1] 27305 Mon Mar 21 01:39:17 UTC 2022 start_time: 1647826757 Please visit https://docs.nvidia.com/clara/#parabricks for detailed documentation [Parabricks Options Mesg]: Automatically generating ID prefix [Parabricks Options Mesg]: Read group created for /workspace/datasets/WGS-LIS-AI018A_R1.fastq.gz and /workspace/datasets/WGS-LIS-AI018A_R2.fastq.gz [Parabricks Options Mesg]: @RG\tID:H3WFJDSXX.1\tLB:lib1\tPL:bar\tSM:sample\tPU:H3WFJDSXX.1 [Parabricks Options Mesg]: Checking argument compatibility [Parabricks Options Mesg]: Read group created for /workspace/datasets/WGS-LIS-AI018A_R1.fastq.gz and /workspace/datasets/WGS-LIS-AI018A_R2.fastq.gz [Parabricks Options Mesg]: @RG\tID:H3WFJDSXX.1\tLB:lib1\tPL:bar\tSM:sample\tPU:H3WFJDSXX.1 [PB Info 2022-Mar-21 01:39:18] Logger not initialized! [PB Info 2022-Mar-21 01:39:18] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 01:39:18] || Parabricks accelerated Genomics Pipeline || [PB Info 2022-Mar-21 01:39:18] || Version 3.7.0-1 || [PB Info 2022-Mar-21 01:39:18] || GPU-BWA mem, Sorting Phase-I || [PB Info 2022-Mar-21 01:39:18] || Contact: Parabricks-Support@nvidia.com || [PB Info 2022-Mar-21 01:39:18] ------------------------------------------------------------------------------ gpg: keyblock resource '/home/ubuntu/.gnupg/pubring.kbx': Permission denied [PB Info 2022-Mar-21 01:39:19] Logger already initialized, continuing with current settings. [M::bwa_idx_load_from_disk] read 0 ALT contigs [PB Warning 2022-Mar-21 01:39:36][ParaBricks/src/pbOpts.cu:316] WARNING The system has 30 GB, however recommended RAM with 1 GPU is 64 GB. The run might not finish or might have less than expected performance. [PB Warning 2022-Mar-21 01:39:36][ParaBricks/src/pbOpts.cu:325] WARNING The system has 8 threads, however recommended number of threads with 1 GPU is 16. The run might not finish or might have less than expected performance. [PB Info 2022-Mar-21 01:39:36] GPU-BWA mem [PB Info 2022-Mar-21 01:39:36] ProgressMeter Reads Base Pairs Aligned [PB Info 2022-Mar-21 01:41:27] 5033176 760000000 [PB Info 2022-Mar-21 01:43:12] 10066352 1520000000 [PB Info 2022-Mar-21 01:44:57] 15099528 2280000000 [PB Info 2022-Mar-21 01:46:46] 20132704 3040000000 [PB Info 2022-Mar-21 01:48:34] 25165880 3800000000 [PB Info 2022-Mar-21 01:50:18] 30199056 4560000000 [PB Info 2022-Mar-21 01:52:04] 35232232 5320000000 [PB Info 2022-Mar-21 01:53:54] 40265408 6080000000 [PB Info 2022-Mar-21 01:55:44] 45298584 6840000000 [PB Info 2022-Mar-21 01:57:31] 50331760 7600000000 [PB Info 2022-Mar-21 01:59:16] 55364936 8360000000 [PB Info 2022-Mar-21 02:01:03] 60398112 9120000000 [PB Info 2022-Mar-21 02:02:49] 65431288 9880000000 [PB Info 2022-Mar-21 02:04:37] 70464464 10640000000 [PB Info 2022-Mar-21 02:06:25] 75497640 11400000000 [PB Info 2022-Mar-21 02:08:10] 80530816 12160000000 [PB Info 2022-Mar-21 02:09:59] 85563992 12920000000 [PB Info 2022-Mar-21 02:11:46] 90597168 13680000000 [PB Info 2022-Mar-21 02:13:32] 95630344 14440000000 [PB Info 2022-Mar-21 02:15:19] 100663520 15200000000 [PB Info 2022-Mar-21 02:17:07] 105696696 15960000000 [PB Info 2022-Mar-21 02:18:56] 110729872 16720000000 [PB Info 2022-Mar-21 02:20:44] 115763048 17480000000 [PB Info 2022-Mar-21 02:22:29] 120796224 18240000000 [PB Info 2022-Mar-21 02:24:13] 125829400 19000000000 [PB Info 2022-Mar-21 02:25:58] 130862576 19760000000 [PB Info 2022-Mar-21 02:27:42] 135895752 20520000000 [PB Info 2022-Mar-21 02:29:29] 140928928 21280000000 [PB Info 2022-Mar-21 02:31:16] 145962104 22040000000 [PB Info 2022-Mar-21 02:33:00] 150995280 22800000000 [PB Info 2022-Mar-21 02:34:45] 156028456 23560000000 [PB Info 2022-Mar-21 02:36:33] 161061632 24320000000 [PB Info 2022-Mar-21 02:38:18] 166094808 25080000000 [PB Info 2022-Mar-21 02:40:04] 171127984 25840000000 [PB Info 2022-Mar-21 02:41:53] 176161160 26600000000 [PB Info 2022-Mar-21 02:43:47] 181194336 27360000000 [PB Info 2022-Mar-21 02:45:38] 186227512 28120000000 [PB Info 2022-Mar-21 02:47:22] 191260688 28880000000 [PB Info 2022-Mar-21 02:49:08] 196293864 29640000000 [PB Info 2022-Mar-21 02:50:57] 201327040 30400000000 [PB Info 2022-Mar-21 02:52:43] 206360216 31160000000 [PB Info 2022-Mar-21 02:54:29] 211393392 31920000000 [PB Info 2022-Mar-21 02:56:14] 216426568 32680000000 [PB Info 2022-Mar-21 02:58:01] 221459744 33440000000 [PB Info 2022-Mar-21 02:59:45] 226492920 34200000000 [PB Info 2022-Mar-21 03:01:30] 231526096 34960000000 [PB Info 2022-Mar-21 03:03:16] 236559272 35720000000 [PB Info 2022-Mar-21 03:05:00] 241592448 36480000000 [PB Info 2022-Mar-21 03:06:44] 246625624 37240000000 [PB Info 2022-Mar-21 03:08:29] 251658800 38000000000 [PB Info 2022-Mar-21 03:10:15] 256691976 38760000000 [PB Info 2022-Mar-21 03:12:00] 261725152 39520000000 [PB Info 2022-Mar-21 03:13:43] 266758328 40280000000 [PB Info 2022-Mar-21 03:15:30] 271791504 41040000000 [PB Info 2022-Mar-21 03:17:21] 276824680 41800000000 [PB Info 2022-Mar-21 03:19:10] 281857856 42560000000 [PB Info 2022-Mar-21 03:20:57] 286891032 43320000000 [PB Info 2022-Mar-21 03:22:41] 291924208 44080000000 [PB Info 2022-Mar-21 03:24:26] 296957384 44840000000 [PB Info 2022-Mar-21 03:26:09] 301990560 45600000000 [PB Info 2022-Mar-21 03:27:52] 307023736 46360000000 [PB Info 2022-Mar-21 03:29:37] 312056912 47120000000 [PB Info 2022-Mar-21 03:31:25] 317090088 47880000000 [PB Info 2022-Mar-21 03:33:13] 322123264 48640000000 [PB Info 2022-Mar-21 03:35:00] 327156440 49400000000 [PB Info 2022-Mar-21 03:36:47] 332189616 50160000000 [PB Info 2022-Mar-21 03:38:30] 337222792 50920000000 [PB Info 2022-Mar-21 03:40:15] 342255968 51680000000 [PB Info 2022-Mar-21 03:42:04] 347289144 52440000000 [PB Info 2022-Mar-21 03:43:53] 352322320 53200000000 [PB Info 2022-Mar-21 03:45:41] 357355496 53960000000 [PB Info 2022-Mar-21 03:47:24] 362388672 54720000000 [PB Info 2022-Mar-21 03:49:08] 367421848 55480000000 [PB Info 2022-Mar-21 03:50:55] 372455024 56240000000 [PB Info 2022-Mar-21 03:52:42] 377488200 57000000000 [PB Info 2022-Mar-21 03:54:24] 382521376 57760000000 [PB Info 2022-Mar-21 03:56:11] 387554552 58520000000 [PB Info 2022-Mar-21 03:57:55] 392587728 59280000000 [PB Info 2022-Mar-21 03:59:40] 397620904 60040000000 [PB Info 2022-Mar-21 04:01:27] 402654080 60800000000 [PB Info 2022-Mar-21 04:03:14] 407687256 61560000000 [PB Info 2022-Mar-21 04:04:59] 412720432 62320000000 [PB Info 2022-Mar-21 04:06:44] 417753608 63080000000 [PB Info 2022-Mar-21 04:08:30] 422786784 63840000000 [PB Info 2022-Mar-21 04:10:20] 427819960 64600000000 [PB Info 2022-Mar-21 04:12:05] 432853136 65360000000 [PB Info 2022-Mar-21 04:13:48] 437886312 66120000000 [PB Info 2022-Mar-21 04:15:31] 442919488 66880000000 [PB Info 2022-Mar-21 04:17:20] 447952664 67640000000 [PB Info 2022-Mar-21 04:19:07] 452985840 68400000000 [PB Info 2022-Mar-21 04:20:54] 458019016 69160000000 [PB Info 2022-Mar-21 04:22:36] 463052192 69920000000 [PB Info 2022-Mar-21 04:24:21] 468085368 70680000000 [PB Info 2022-Mar-21 04:26:07] 473118544 71440000000 [PB Info 2022-Mar-21 04:27:56] 478151720 72200000000 [PB Info 2022-Mar-21 04:29:40] 483184896 72960000000 [PB Info 2022-Mar-21 04:31:28] 488218072 73720000000 [PB Info 2022-Mar-21 04:33:12] 493251248 74480000000 [PB Info 2022-Mar-21 04:34:59] 498284424 75240000000 [PB Info 2022-Mar-21 04:36:43] 503317600 76000000000 [PB Info 2022-Mar-21 04:38:29] 508350776 76760000000 [PB Info 2022-Mar-21 04:40:15] 513383952 77520000000 [PB Info 2022-Mar-21 04:42:01] 518417128 78280000000 [PB Info 2022-Mar-21 04:43:46] 523450304 79040000000 [PB Info 2022-Mar-21 04:45:33] 528483480 79800000000 [PB Info 2022-Mar-21 04:47:17] 533516656 80560000000 [PB Info 2022-Mar-21 04:49:01] 538549832 81320000000 [PB Info 2022-Mar-21 04:50:44] 543583008 82080000000 [PB Info 2022-Mar-21 04:52:28] 548616184 82840000000 [PB Info 2022-Mar-21 04:54:14] 553649360 83600000000 [PB Info 2022-Mar-21 04:55:59] 558682536 84360000000 [PB Info 2022-Mar-21 04:57:45] 563715712 85120000000 [PB Info 2022-Mar-21 04:59:30] 568748888 85880000000 [PB Info 2022-Mar-21 05:01:17] 573782064 86640000000 [PB Info 2022-Mar-21 05:03:02] 578815240 87400000000 [PB Info 2022-Mar-21 05:04:50] 583848416 88160000000 [PB Info 2022-Mar-21 05:06:35] 588881592 88920000000 [PB Info 2022-Mar-21 05:08:19] 593914768 89680000000 [PB Info 2022-Mar-21 05:10:03] 598947944 90440000000 [PB Info 2022-Mar-21 05:11:49] 603981120 91200000000 [PB Info 2022-Mar-21 05:13:33] 609014296 91960000000 [PB Info 2022-Mar-21 05:15:20] 614047472 92720000000 [PB Info 2022-Mar-21 05:17:03] 619080648 93480000000 [PB Info 2022-Mar-21 05:18:51] 624113824 94240000000 [PB Info 2022-Mar-21 05:20:40] 629147000 95000000000 [PB Info 2022-Mar-21 05:22:23] 634180176 95760000000 [PB Info 2022-Mar-21 05:24:07] 639213352 96520000000 [PB Info 2022-Mar-21 05:25:51] 644246528 97280000000 [PB Info 2022-Mar-21 05:27:35] 649279704 98040000000 [PB Info 2022-Mar-21 05:29:20] 654312880 98800000000 [PB Info 2022-Mar-21 05:31:03] 659346056 99560000000 [PB Info 2022-Mar-21 05:32:48] 664379232 100320000000 [PB Info 2022-Mar-21 05:34:31] 669412408 101080000000 [PB Info 2022-Mar-21 05:36:15] 674445584 101840000000 [PB Info 2022-Mar-21 05:37:58] 679478760 102600000000 [PB Info 2022-Mar-21 05:39:46] 684511936 103360000000 [PB Info 2022-Mar-21 05:41:33] 689545112 104120000000 [PB Info 2022-Mar-21 05:43:19] 694578288 104880000000 [PB Info 2022-Mar-21 05:45:04] 699611464 105640000000 [PB Info 2022-Mar-21 05:46:52] 704644640 106400000000 [PB Info 2022-Mar-21 05:48:39] 709677816 107160000000 [PB Info 2022-Mar-21 05:50:27] 714710992 107920000000 [PB Info 2022-Mar-21 05:52:13] 719744168 108680000000 [PB Info 2022-Mar-21 05:53:57] 724777344 109440000000 [PB Info 2022-Mar-21 05:55:43] 729810520 110200000000 [PB Info 2022-Mar-21 05:57:27] 734843696 110960000000 [PB Info 2022-Mar-21 05:59:12] 739876872 111720000000 [PB Info 2022-Mar-21 06:00:58] 744910048 112480000000 [PB Info 2022-Mar-21 06:02:48] 749943224 113240000000 [PB Info 2022-Mar-21 06:04:36] 754976400 114000000000 [PB Info 2022-Mar-21 06:06:23] 760009576 114760000000 [PB Info 2022-Mar-21 06:08:07] 765042752 115520000000 [PB Info 2022-Mar-21 06:09:51] 770075928 116280000000 [PB Info 2022-Mar-21 06:11:36] 775109104 117040000000 [PB Info 2022-Mar-21 06:13:23] 780142280 117800000000 [PB Info 2022-Mar-21 06:15:09] 785175456 118560000000 [PB Info 2022-Mar-21 06:16:55] 790208632 119320000000 [PB Info 2022-Mar-21 06:18:38] 795241808 120080000000 [PB Info 2022-Mar-21 06:20:26] 800274984 120840000000 [PB Info 2022-Mar-21 06:22:15] 805308160 121600000000 [PB Info 2022-Mar-21 06:24:06] 810341336 122360000000 [PB Info 2022-Mar-21 06:25:53] 815374512 123120000000 [PB Info 2022-Mar-21 06:27:37] 820407688 123880000000 [PB Info 2022-Mar-21 06:29:21] 825440864 124640000000 [PB Info 2022-Mar-21 06:31:06] 830474040 125400000000 [PB Info 2022-Mar-21 06:32:48] 835507216 126160000000 [PB Info 2022-Mar-21 06:34:35] 840540392 126920000000 [PB Info 2022-Mar-21 06:36:19] 845573568 127680000000 [PB Info 2022-Mar-21 06:38:03] 850606744 128440000000 [PB Info 2022-Mar-21 06:39:46] 855639920 129200000000 [PB Info 2022-Mar-21 06:41:29] 860673096 129960000000 [PB Info 2022-Mar-21 06:43:14] 865706272 130720000000 [PB Info 2022-Mar-21 06:44:57] 870739448 131480000000 [PB Info 2022-Mar-21 06:46:41] 875772624 132240000000 [PB Info 2022-Mar-21 06:48:27] 880805800 133000000000 [PB Info 2022-Mar-21 06:50:11] 885838976 133760000000 [PB Info 2022-Mar-21 06:51:56] 890872152 134520000000 [PB Info 2022-Mar-21 06:53:39] 895905328 135280000000 [PB Info 2022-Mar-21 06:55:26] 900938504 136040000000 [PB Info 2022-Mar-21 06:57:17] 905971680 136800000000 [PB Info 2022-Mar-21 06:59:04] 911004856 137560000000 [PB Info 2022-Mar-21 07:00:52] 916038032 138320000000 [PB Info 2022-Mar-21 07:02:43] 921071208 139080000000 [PB Info 2022-Mar-21 07:04:31] 926104384 139840000000 [PB Info 2022-Mar-21 07:06:15] 931137560 140600000000 [PB Info 2022-Mar-21 07:07:52] GPU-BWA Mem time: 19696.238419 seconds [PB Info 2022-Mar-21 07:07:52] GPU-BWA Mem is finished. [main] CMD: PARABRICKS mem -Z ./pbOpts.txt /workspace/parabricks_sample/Ref/Homo_sapiens_assembly38.fasta /workspace/datasets/WGS-LIS-AI018A_R1.fastq.gz /workspace/datasets/WGS-LIS-AI018A_R2.fastq.gz @RG\tID:H3WFJDSXX.1\tLB:lib1\tPL:bar\tSM:sample\tPU:H3WFJDSXX.1 [main] Real time: 19713.634 sec; CPU: 157421.408 sec [PB Info 2022-Mar-21 07:07:52] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 07:07:52] || Program: GPU-BWA mem, Sorting Phase-I || [PB Info 2022-Mar-21 07:07:52] || Version: 3.7.0-1 || [PB Info 2022-Mar-21 07:07:52] || Start Time: Mon Mar 21 01:39:18 2022 || [PB Info 2022-Mar-21 07:07:52] || End Time: Mon Mar 21 07:07:52 2022 || [PB Info 2022-Mar-21 07:07:52] || Total Time: 328 minutes 34 seconds || [PB Info 2022-Mar-21 07:07:52] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 07:07:54] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 07:07:54] || Parabricks accelerated Genomics Pipeline || [PB Info 2022-Mar-21 07:07:54] || Version 3.7.0-1 || [PB Info 2022-Mar-21 07:07:54] || Sorting Phase-II || [PB Info 2022-Mar-21 07:07:54] || Contact: Parabricks-Support@nvidia.com || [PB Info 2022-Mar-21 07:07:54] ------------------------------------------------------------------------------ gpg: keyblock resource '/home/ubuntu/.gnupg/pubring.kbx': Permission denied [PB Info 2022-Mar-21 07:07:54] progressMeter - Percentage [PB Info 2022-Mar-21 07:07:54] 0.0 0.00 GB [PB Info 2022-Mar-21 07:08:04] 0.0 3.00 GB [PB Info 2022-Mar-21 07:08:14] 3.0 3.00 GB [PB Info 2022-Mar-21 07:08:24] 5.9 4.00 GB [PB Info 2022-Mar-21 07:08:34] 8.5 3.00 GB [PB Info 2022-Mar-21 07:08:44] 9.9 3.00 GB [PB Info 2022-Mar-21 07:08:54] 11.7 3.00 GB [PB Info 2022-Mar-21 07:09:04] 14.7 3.00 GB [PB Info 2022-Mar-21 07:09:14] 17.5 3.00 GB [PB Info 2022-Mar-21 07:09:24] 19.6 3.00 GB [PB Info 2022-Mar-21 07:09:34] 21.2 3.00 GB [PB Info 2022-Mar-21 07:09:44] 23.7 3.00 GB [PB Info 2022-Mar-21 07:09:54] 26.5 3.00 GB [PB Info 2022-Mar-21 07:10:04] 29.1 3.00 GB [PB Info 2022-Mar-21 07:10:14] 31.5 3.00 GB [PB Info 2022-Mar-21 07:10:24] 33.7 3.00 GB [PB Info 2022-Mar-21 07:10:34] 36.0 3.00 GB [PB Info 2022-Mar-21 07:10:44] 38.5 3.00 GB [PB Info 2022-Mar-21 07:10:54] 41.1 3.00 GB [PB Info 2022-Mar-21 07:11:04] 43.5 3.00 GB [PB Info 2022-Mar-21 07:11:14] 45.7 2.00 GB [PB Info 2022-Mar-21 07:11:24] 48.6 3.00 GB [PB Info 2022-Mar-21 07:11:34] 51.2 3.00 GB [PB Info 2022-Mar-21 07:11:44] 53.1 3.00 GB [PB Info 2022-Mar-21 07:11:54] 55.3 3.00 GB [PB Info 2022-Mar-21 07:12:04] 58.1 3.00 GB [PB Info 2022-Mar-21 07:12:14] 60.6 3.00 GB [PB Info 2022-Mar-21 07:12:24] 63.8 3.00 GB [PB Info 2022-Mar-21 07:12:34] 65.7 2.00 GB [PB Info 2022-Mar-21 07:12:44] 68.5 2.00 GB [PB Info 2022-Mar-21 07:12:54] 70.9 3.00 GB [PB Info 2022-Mar-21 07:13:04] 73.8 3.00 GB [PB Info 2022-Mar-21 07:13:14] 76.7 3.00 GB [PB Info 2022-Mar-21 07:13:24] 78.8 3.00 GB [PB Info 2022-Mar-21 07:13:34] 80.8 3.00 GB [PB Info 2022-Mar-21 07:13:44] 83.2 3.00 GB [PB Info 2022-Mar-21 07:13:54] 86.1 3.00 GB [PB Info 2022-Mar-21 07:14:04] 88.8 3.00 GB [PB Info 2022-Mar-21 07:14:14] 91.2 1.00 GB [PB Info 2022-Mar-21 07:14:24] 99.3 1.00 GB [PB Info 2022-Mar-21 07:14:34] 99.9 0.00 GB [PB Info 2022-Mar-21 07:14:44] Sorting and Marking: 410.011 seconds [PB Info 2022-Mar-21 07:14:44] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 07:14:44] || Program: Sorting Phase-II || [PB Info 2022-Mar-21 07:14:44] || Version: 3.7.0-1 || [PB Info 2022-Mar-21 07:14:44] || Start Time: Mon Mar 21 07:07:54 2022 || [PB Info 2022-Mar-21 07:14:44] || End Time: Mon Mar 21 07:14:44 2022 || [PB Info 2022-Mar-21 07:14:44] || Total Time: 6 minutes 50 seconds || [PB Info 2022-Mar-21 07:14:44] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 07:14:45] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 07:14:45] || Parabricks accelerated Genomics Pipeline || [PB Info 2022-Mar-21 07:14:45] || Version 3.7.0-1 || [PB Info 2022-Mar-21 07:14:45] || Marking Duplicates, BQSR || [PB Info 2022-Mar-21 07:14:45] || Contact: Parabricks-Support@nvidia.com || [PB Info 2022-Mar-21 07:14:45] ------------------------------------------------------------------------------ gpg: keyblock resource '/home/ubuntu/.gnupg/pubring.kbx': Permission denied [PB Info 2022-Mar-21 07:14:46] progressMeter - Percentage [PB Info 2022-Mar-21 07:14:56] 0.0 9.71 GB [PB Info 2022-Mar-21 07:15:06] 0.0 14.12 GB [PB Info 2022-Mar-21 07:15:16] 0.0 14.12 GB [PB Info 2022-Mar-21 07:15:26] 0.0 14.12 GB [PB Info 2022-Mar-21 07:15:36] 0.0 14.12 GB [PB Info 2022-Mar-21 07:15:46] 0.0 14.12 GB [PB Info 2022-Mar-21 07:15:56] 0.4 14.84 GB [PB Info 2022-Mar-21 07:16:06] 1.1 14.62 GB [PB Info 2022-Mar-21 07:16:16] 1.9 15.29 GB [PB Info 2022-Mar-21 07:16:26] 2.7 14.53 GB [PB Info 2022-Mar-21 07:16:36] 3.4 14.98 GB [PB Info 2022-Mar-21 07:16:46] 3.7 14.98 GB [PB Info 2022-Mar-21 07:16:56] 3.7 14.98 GB [PB Info 2022-Mar-21 07:17:06] 4.3 14.86 GB [PB Info 2022-Mar-21 07:17:16] 4.6 14.69 GB [PB Info 2022-Mar-21 07:17:26] 4.9 14.70 GB [PB Info 2022-Mar-21 07:17:36] 5.2 15.58 GB [PB Info 2022-Mar-21 07:17:46] 5.5 14.46 GB [PB Info 2022-Mar-21 07:17:56] 5.8 14.86 GB [PB Info 2022-Mar-21 07:18:06] 6.1 15.30 GB [PB Info 2022-Mar-21 07:18:16] 6.4 14.07 GB [PB Info 2022-Mar-21 07:18:26] 6.7 14.07 GB [PB Info 2022-Mar-21 07:18:36] 7.0 15.09 GB [PB Info 2022-Mar-21 07:18:46] 7.2 14.32 GB [PB Info 2022-Mar-21 07:18:56] 7.6 14.03 GB [PB Info 2022-Mar-21 07:19:06] 7.8 14.88 GB [PB Info 2022-Mar-21 07:19:16] 8.1 14.90 GB [PB Info 2022-Mar-21 07:19:26] 8.4 15.29 GB [PB Info 2022-Mar-21 07:19:36] 8.6 14.48 GB [PB Info 2022-Mar-21 07:19:46] 8.7 14.20 GB [PB Info 2022-Mar-21 07:19:56] 8.9 14.26 GB [PB Info 2022-Mar-21 07:20:06] 9.2 14.24 GB [PB Info 2022-Mar-21 07:20:16] 9.5 15.03 GB [PB Info 2022-Mar-21 07:20:26] 9.8 14.61 GB [PB Info 2022-Mar-21 07:20:36] 10.1 14.98 GB [PB Info 2022-Mar-21 07:20:46] 10.4 15.36 GB [PB Info 2022-Mar-21 07:20:56] 10.7 14.23 GB [PB Info 2022-Mar-21 07:21:06] 11.0 14.60 GB [PB Info 2022-Mar-21 07:21:16] 11.3 14.63 GB [PB Info 2022-Mar-21 07:21:26] 11.6 14.65 GB [PB Info 2022-Mar-21 07:21:36] 11.9 14.27 GB [PB Info 2022-Mar-21 07:21:46] 12.2 14.28 GB [PB Info 2022-Mar-21 07:21:56] 12.5 14.68 GB [PB Info 2022-Mar-21 07:22:06] 12.8 14.74 GB [PB Info 2022-Mar-21 07:22:16] 13.1 14.79 GB [PB Info 2022-Mar-21 07:22:26] 13.4 14.76 GB [PB Info 2022-Mar-21 07:22:36] 13.7 15.16 GB [PB Info 2022-Mar-21 07:22:46] 14.0 14.07 GB [PB Info 2022-Mar-21 07:22:56] 14.3 14.44 GB [PB Info 2022-Mar-21 07:23:06] 14.6 14.89 GB [PB Info 2022-Mar-21 07:23:16] 14.8 14.82 GB [PB Info 2022-Mar-21 07:23:26] 15.2 14.38 GB [PB Info 2022-Mar-21 07:23:36] 15.5 14.37 GB [PB Info 2022-Mar-21 07:23:46] 15.8 14.40 GB [PB Info 2022-Mar-21 07:23:56] 16.1 14.78 GB [PB Info 2022-Mar-21 07:24:06] 16.4 15.09 GB [PB Info 2022-Mar-21 07:24:16] 16.6 14.26 GB [PB Info 2022-Mar-21 07:24:26] 16.9 14.21 GB [PB Info 2022-Mar-21 07:24:36] 17.2 14.59 GB [PB Info 2022-Mar-21 07:24:46] 17.5 14.61 GB [PB Info 2022-Mar-21 07:24:56] 17.8 14.70 GB [PB Info 2022-Mar-21 07:25:06] 18.0 14.25 GB [PB Info 2022-Mar-21 07:25:16] 18.3 14.27 GB [PB Info 2022-Mar-21 07:25:26] 18.6 14.27 GB [PB Info 2022-Mar-21 07:25:36] 18.9 14.24 GB [PB Info 2022-Mar-21 07:25:46] 19.2 15.22 GB [PB Info 2022-Mar-21 07:25:56] 19.4 14.42 GB [PB Info 2022-Mar-21 07:26:06] 19.8 13.99 GB [PB Info 2022-Mar-21 07:26:16] 20.1 14.00 GB [PB Info 2022-Mar-21 07:26:26] 20.4 14.03 GB [PB Info 2022-Mar-21 07:26:36] 20.6 14.01 GB [PB Info 2022-Mar-21 07:26:46] 20.9 14.78 GB [PB Info 2022-Mar-21 07:26:56] 21.2 14.69 GB [PB Info 2022-Mar-21 07:27:06] 21.5 14.99 GB [PB Info 2022-Mar-21 07:27:16] 21.8 14.98 GB [PB Info 2022-Mar-21 07:27:26] 22.2 15.00 GB [PB Info 2022-Mar-21 07:27:36] 22.5 15.30 GB [PB Info 2022-Mar-21 07:27:46] 22.6 14.52 GB [PB Info 2022-Mar-21 07:27:56] 22.8 15.12 GB [PB Info 2022-Mar-21 07:28:06] 23.1 13.98 GB [PB Info 2022-Mar-21 07:28:16] 23.5 14.45 GB [PB Info 2022-Mar-21 07:28:26] 23.8 14.52 GB [PB Info 2022-Mar-21 07:28:36] 24.1 14.50 GB [PB Info 2022-Mar-21 07:28:46] 24.4 14.11 GB [PB Info 2022-Mar-21 07:28:56] 24.7 14.79 GB [PB Info 2022-Mar-21 07:29:06] 25.0 15.18 GB [PB Info 2022-Mar-21 07:29:16] 25.3 14.10 GB [PB Info 2022-Mar-21 07:29:26] 25.6 15.50 GB [PB Info 2022-Mar-21 07:29:36] 25.9 14.33 GB [PB Info 2022-Mar-21 07:29:46] 26.2 14.72 GB [PB Info 2022-Mar-21 07:29:56] 26.5 14.72 GB [PB Info 2022-Mar-21 07:30:06] 26.8 14.33 GB [PB Info 2022-Mar-21 07:30:16] 27.0 14.25 GB [PB Info 2022-Mar-21 07:30:26] 27.4 15.05 GB [PB Info 2022-Mar-21 07:30:36] 27.7 15.02 GB [PB Info 2022-Mar-21 07:30:46] 28.0 15.42 GB [PB Info 2022-Mar-21 07:30:56] 28.3 14.33 GB [PB Info 2022-Mar-21 07:31:06] 28.6 14.86 GB [PB Info 2022-Mar-21 07:31:16] 28.9 14.82 GB [PB Info 2022-Mar-21 07:31:26] 29.2 15.09 GB [PB Info 2022-Mar-21 07:31:36] 29.5 14.70 GB [PB Info 2022-Mar-21 07:31:46] 29.9 14.28 GB [PB Info 2022-Mar-21 07:31:56] 30.2 14.74 GB [PB Info 2022-Mar-21 07:32:06] 30.5 15.33 GB [PB Info 2022-Mar-21 07:32:16] 30.8 14.17 GB [PB Info 2022-Mar-21 07:32:26] 31.1 14.10 GB [PB Info 2022-Mar-21 07:32:36] 31.4 14.05 GB [PB Info 2022-Mar-21 07:32:46] 31.7 14.40 GB [PB Info 2022-Mar-21 07:32:56] 32.0 14.00 GB [PB Info 2022-Mar-21 07:33:06] 32.3 15.12 GB [PB Info 2022-Mar-21 07:33:16] 32.5 15.00 GB [PB Info 2022-Mar-21 07:33:26] 32.8 15.29 GB [PB Info 2022-Mar-21 07:33:36] 33.1 14.18 GB [PB Info 2022-Mar-21 07:33:46] 33.5 14.23 GB [PB Info 2022-Mar-21 07:33:56] 33.7 14.64 GB [PB Info 2022-Mar-21 07:34:06] 34.1 14.28 GB [PB Info 2022-Mar-21 07:34:16] 34.4 14.10 GB [PB Info 2022-Mar-21 07:34:26] 34.6 14.92 GB [PB Info 2022-Mar-21 07:34:36] 35.0 14.98 GB [PB Info 2022-Mar-21 07:34:46] 35.3 14.95 GB [PB Info 2022-Mar-21 07:34:56] 35.6 14.66 GB [PB Info 2022-Mar-21 07:35:06] 35.9 15.04 GB [PB Info 2022-Mar-21 07:35:16] 36.2 15.47 GB [PB Info 2022-Mar-21 07:35:26] 36.5 14.34 GB [PB Info 2022-Mar-21 07:35:36] 36.8 15.50 GB [PB Info 2022-Mar-21 07:35:46] 37.1 14.31 GB [PB Info 2022-Mar-21 07:35:56] 37.4 15.13 GB [PB Info 2022-Mar-21 07:36:06] 37.7 15.13 GB [PB Info 2022-Mar-21 07:36:16] 38.0 15.07 GB [PB Info 2022-Mar-21 07:36:26] 38.3 14.65 GB [PB Info 2022-Mar-21 07:36:36] 38.5 15.07 GB [PB Info 2022-Mar-21 07:36:46] 38.8 14.66 GB [PB Info 2022-Mar-21 07:36:56] 39.1 14.91 GB [PB Info 2022-Mar-21 07:37:06] 39.4 14.42 GB [PB Info 2022-Mar-21 07:37:16] 39.6 15.37 GB [PB Info 2022-Mar-21 07:37:26] 40.0 15.23 GB [PB Info 2022-Mar-21 07:37:36] 40.3 14.16 GB [PB Info 2022-Mar-21 07:37:46] 40.6 14.58 GB [PB Info 2022-Mar-21 07:37:56] 40.9 14.50 GB [PB Info 2022-Mar-21 07:38:06] 41.2 14.89 GB [PB Info 2022-Mar-21 07:38:16] 41.5 14.93 GB [PB Info 2022-Mar-21 07:38:26] 41.8 14.92 GB [PB Info 2022-Mar-21 07:38:36] 42.1 14.64 GB [PB Info 2022-Mar-21 07:38:46] 42.4 14.20 GB [PB Info 2022-Mar-21 07:38:56] 42.7 14.68 GB [PB Info 2022-Mar-21 07:39:06] 43.0 15.07 GB [PB Info 2022-Mar-21 07:39:16] 43.3 15.42 GB [PB Info 2022-Mar-21 07:39:26] 43.6 14.32 GB [PB Info 2022-Mar-21 07:39:36] 43.9 14.34 GB [PB Info 2022-Mar-21 07:39:46] 44.1 14.31 GB [PB Info 2022-Mar-21 07:39:56] 44.4 14.31 GB [PB Info 2022-Mar-21 07:40:06] 44.7 14.10 GB [PB Info 2022-Mar-21 07:40:16] 45.0 14.29 GB [PB Info 2022-Mar-21 07:40:26] 45.2 14.19 GB [PB Info 2022-Mar-21 07:40:36] 45.5 14.58 GB [PB Info 2022-Mar-21 07:40:46] 45.8 14.64 GB [PB Info 2022-Mar-21 07:40:56] 46.2 14.27 GB [PB Info 2022-Mar-21 07:41:06] 46.5 14.27 GB [PB Info 2022-Mar-21 07:41:16] 46.8 14.28 GB [PB Info 2022-Mar-21 07:41:26] 47.0 14.75 GB [PB Info 2022-Mar-21 07:41:36] 47.4 14.84 GB [PB Info 2022-Mar-21 07:41:46] 47.7 14.77 GB [PB Info 2022-Mar-21 07:41:56] 48.0 14.79 GB [PB Info 2022-Mar-21 07:42:06] 48.2 14.04 GB [PB Info 2022-Mar-21 07:42:16] 48.9 14.45 GB [PB Info 2022-Mar-21 07:42:26] 49.3 14.88 GB [PB Info 2022-Mar-21 07:42:36] 49.6 14.79 GB [PB Info 2022-Mar-21 07:42:46] 49.9 14.76 GB [PB Info 2022-Mar-21 07:42:56] 50.1 15.16 GB [PB Info 2022-Mar-21 07:43:06] 50.4 14.04 GB [PB Info 2022-Mar-21 07:43:16] 50.6 14.44 GB [PB Info 2022-Mar-21 07:43:26] 50.9 14.41 GB [PB Info 2022-Mar-21 07:43:36] 51.2 14.29 GB [PB Info 2022-Mar-21 07:43:46] 51.4 15.12 GB [PB Info 2022-Mar-21 07:43:56] 51.7 15.63 GB [PB Info 2022-Mar-21 07:44:06] 52.0 14.46 GB [PB Info 2022-Mar-21 07:44:16] 52.3 14.48 GB [PB Info 2022-Mar-21 07:44:26] 52.5 14.57 GB [PB Info 2022-Mar-21 07:44:36] 52.8 14.89 GB [PB Info 2022-Mar-21 07:44:46] 53.1 15.30 GB [PB Info 2022-Mar-21 07:44:56] 53.4 14.11 GB [PB Info 2022-Mar-21 07:45:06] 53.7 14.07 GB [PB Info 2022-Mar-21 07:45:16] 54.1 15.28 GB [PB Info 2022-Mar-21 07:45:26] 54.4 14.15 GB [PB Info 2022-Mar-21 07:45:36] 54.7 14.15 GB [PB Info 2022-Mar-21 07:45:46] 55.0 14.10 GB [PB Info 2022-Mar-21 07:45:56] 55.2 14.05 GB [PB Info 2022-Mar-21 07:46:06] 55.5 14.38 GB [PB Info 2022-Mar-21 07:46:16] 55.8 14.39 GB [PB Info 2022-Mar-21 07:46:26] 56.0 14.03 GB [PB Info 2022-Mar-21 07:46:36] 56.3 14.00 GB [PB Info 2022-Mar-21 07:46:46] 56.6 14.00 GB [PB Info 2022-Mar-21 07:46:56] 56.9 14.76 GB [PB Info 2022-Mar-21 07:47:06] 57.2 15.17 GB [PB Info 2022-Mar-21 07:47:16] 57.5 14.68 GB [PB Info 2022-Mar-21 07:47:26] 57.8 14.66 GB [PB Info 2022-Mar-21 07:47:36] 58.1 14.77 GB [PB Info 2022-Mar-21 07:47:46] 58.4 14.75 GB [PB Info 2022-Mar-21 07:47:56] 58.8 14.35 GB [PB Info 2022-Mar-21 07:48:06] 59.0 14.32 GB [PB Info 2022-Mar-21 07:48:16] 59.4 15.40 GB [PB Info 2022-Mar-21 07:48:26] 59.7 14.28 GB [PB Info 2022-Mar-21 07:48:36] 60.0 14.21 GB [PB Info 2022-Mar-21 07:48:46] 60.3 15.05 GB [PB Info 2022-Mar-21 07:48:56] 60.6 14.65 GB [PB Info 2022-Mar-21 07:49:06] 60.8 14.71 GB [PB Info 2022-Mar-21 07:49:16] 61.1 14.27 GB [PB Info 2022-Mar-21 07:49:26] 61.4 15.31 GB [PB Info 2022-Mar-21 07:49:36] 61.7 14.05 GB [PB Info 2022-Mar-21 07:49:46] 61.8 14.04 GB [PB Info 2022-Mar-21 07:49:56] 62.2 15.09 GB [PB Info 2022-Mar-21 07:50:06] 62.5 14.01 GB [PB Info 2022-Mar-21 07:50:16] 62.8 14.38 GB [PB Info 2022-Mar-21 07:50:26] 63.1 14.01 GB [PB Info 2022-Mar-21 07:50:36] 63.4 14.86 GB [PB Info 2022-Mar-21 07:50:46] 64.0 14.20 GB [PB Info 2022-Mar-21 07:50:56] 64.3 14.66 GB [PB Info 2022-Mar-21 07:51:06] 64.6 14.66 GB [PB Info 2022-Mar-21 07:51:16] 64.9 14.68 GB [PB Info 2022-Mar-21 07:51:26] 65.2 14.69 GB [PB Info 2022-Mar-21 07:51:36] 65.5 14.73 GB [PB Info 2022-Mar-21 07:51:46] 65.8 15.16 GB [PB Info 2022-Mar-21 07:51:56] 66.2 14.10 GB [PB Info 2022-Mar-21 07:52:06] 66.5 14.63 GB [PB Info 2022-Mar-21 07:52:16] 66.8 14.29 GB [PB Info 2022-Mar-21 07:52:26] 67.6 14.41 GB [PB Info 2022-Mar-21 07:52:36] 67.8 14.39 GB [PB Info 2022-Mar-21 07:52:46] 68.1 14.41 GB [PB Info 2022-Mar-21 07:52:56] 68.4 14.48 GB [PB Info 2022-Mar-21 07:53:06] 68.7 14.89 GB [PB Info 2022-Mar-21 07:53:16] 69.0 14.92 GB [PB Info 2022-Mar-21 07:53:26] 69.3 14.57 GB [PB Info 2022-Mar-21 07:53:36] 69.6 14.12 GB [PB Info 2022-Mar-21 07:53:46] 69.9 14.17 GB [PB Info 2022-Mar-21 07:53:56] 70.8 14.76 GB [PB Info 2022-Mar-21 07:54:06] 71.0 15.26 GB [PB Info 2022-Mar-21 07:54:16] 71.4 13.98 GB [PB Info 2022-Mar-21 07:54:26] 71.7 13.99 GB [PB Info 2022-Mar-21 07:54:36] 72.0 14.41 GB [PB Info 2022-Mar-21 07:54:46] 72.3 14.45 GB [PB Info 2022-Mar-21 07:54:56] 72.6 13.99 GB [PB Info 2022-Mar-21 07:55:06] 72.9 15.19 GB [PB Info 2022-Mar-21 07:55:16] 73.2 14.07 GB [PB Info 2022-Mar-21 07:55:26] 73.5 14.08 GB [PB Info 2022-Mar-21 07:55:36] 73.6 14.52 GB [PB Info 2022-Mar-21 07:55:46] 74.0 14.36 GB [PB Info 2022-Mar-21 07:55:56] 74.2 14.74 GB [PB Info 2022-Mar-21 07:56:06] 74.7 14.48 GB [PB Info 2022-Mar-21 07:56:16] 74.9 14.38 GB [PB Info 2022-Mar-21 07:56:26] 75.1 14.41 GB [PB Info 2022-Mar-21 07:56:36] 75.4 14.52 GB [PB Info 2022-Mar-21 07:56:46] 75.8 14.06 GB [PB Info 2022-Mar-21 07:56:56] 76.0 14.38 GB [PB Info 2022-Mar-21 07:57:06] 76.3 14.72 GB [PB Info 2022-Mar-21 07:57:16] 76.6 15.08 GB [PB Info 2022-Mar-21 07:57:26] 76.9 14.66 GB [PB Info 2022-Mar-21 07:57:36] 77.2 14.89 GB [PB Info 2022-Mar-21 07:57:46] 77.6 14.81 GB [PB Info 2022-Mar-21 07:57:56] 77.9 14.77 GB [PB Info 2022-Mar-21 07:58:06] 78.2 14.65 GB [PB Info 2022-Mar-21 07:58:16] 78.5 14.34 GB [PB Info 2022-Mar-21 07:58:26] 78.7 14.90 GB [PB Info 2022-Mar-21 07:58:36] 79.0 15.15 GB [PB Info 2022-Mar-21 07:58:46] 79.3 14.04 GB [PB Info 2022-Mar-21 07:58:56] 79.5 14.08 GB [PB Info 2022-Mar-21 07:59:06] 79.8 14.10 GB [PB Info 2022-Mar-21 07:59:16] 80.2 14.73 GB [PB Info 2022-Mar-21 07:59:26] 80.5 15.40 GB [PB Info 2022-Mar-21 07:59:36] 80.8 14.24 GB [PB Info 2022-Mar-21 07:59:46] 81.1 14.68 GB [PB Info 2022-Mar-21 07:59:56] 81.4 14.04 GB [PB Info 2022-Mar-21 08:00:06] 81.7 15.26 GB [PB Info 2022-Mar-21 08:00:16] 82.0 14.42 GB [PB Info 2022-Mar-21 08:00:26] 82.3 14.30 GB [PB Info 2022-Mar-21 08:00:36] 82.6 14.21 GB [PB Info 2022-Mar-21 08:00:46] 82.9 14.30 GB [PB Info 2022-Mar-21 08:00:56] 83.2 14.51 GB [PB Info 2022-Mar-21 08:01:06] 83.5 14.48 GB [PB Info 2022-Mar-21 08:01:16] 83.8 14.30 GB [PB Info 2022-Mar-21 08:01:26] 84.0 14.49 GB [PB Info 2022-Mar-21 08:01:36] 84.3 14.49 GB [PB Info 2022-Mar-21 08:01:46] 84.6 14.43 GB [PB Info 2022-Mar-21 08:01:56] 84.9 14.71 GB [PB Info 2022-Mar-21 08:02:06] 85.1 14.55 GB [PB Info 2022-Mar-21 08:02:16] 85.3 14.82 GB [PB Info 2022-Mar-21 08:02:26] 85.6 14.88 GB [PB Info 2022-Mar-21 08:02:36] 85.9 14.88 GB [PB Info 2022-Mar-21 08:02:46] 86.2 14.45 GB [PB Info 2022-Mar-21 08:02:56] 86.9 14.21 GB [PB Info 2022-Mar-21 08:03:06] 87.1 14.94 GB [PB Info 2022-Mar-21 08:03:16] 87.4 14.89 GB [PB Info 2022-Mar-21 08:03:26] 87.7 14.82 GB [PB Info 2022-Mar-21 08:03:36] 88.0 14.39 GB [PB Info 2022-Mar-21 08:03:46] 88.3 14.77 GB [PB Info 2022-Mar-21 08:03:56] 88.6 14.77 GB [PB Info 2022-Mar-21 08:04:06] 88.9 14.84 GB [PB Info 2022-Mar-21 08:04:16] 89.3 14.11 GB [PB Info 2022-Mar-21 08:04:26] 89.6 16.99 GB [PB Info 2022-Mar-21 08:04:36] 89.9 15.92 GB [PB Info 2022-Mar-21 08:04:46] 90.2 14.74 GB [PB Info 2022-Mar-21 08:04:56] 90.5 14.10 GB [PB Info 2022-Mar-21 08:05:06] 90.8 14.14 GB [PB Info 2022-Mar-21 08:05:16] 91.1 14.27 GB [PB Info 2022-Mar-21 08:05:26] 91.4 13.97 GB [PB Info 2022-Mar-21 08:05:36] 91.6 16.59 GB [PB Info 2022-Mar-21 08:05:46] 92.0 15.15 GB [PB Info 2022-Mar-21 08:05:56] 92.3 13.97 GB [PB Info 2022-Mar-21 08:06:06] 92.9 13.18 GB [PB Info 2022-Mar-21 08:06:16] 94.5 11.68 GB [PB Info 2022-Mar-21 08:06:26] 94.6 10.81 GB [PB Info 2022-Mar-21 08:06:36] 95.1 7.61 GB [PB Info 2022-Mar-21 08:06:46] 96.1 5.66 GB [PB Info 2022-Mar-21 08:06:56] 97.6 3.79 GB [PB Info 2022-Mar-21 08:07:06] 98.0 3.59 GB [PB Info 2022-Mar-21 08:07:16] 98.1 0.97 GB [PB Info 2022-Mar-21 08:07:26] 100.0 0.00 GB [PB Info 2022-Mar-21 08:07:26] BQSR and writing final BAM: 3160.201 seconds [PB Info 2022-Mar-21 08:07:26] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 08:07:26] || Program: Marking Duplicates, BQSR || [PB Info 2022-Mar-21 08:07:26] || Version: 3.7.0-1 || [PB Info 2022-Mar-21 08:07:26] || Start Time: Mon Mar 21 07:14:45 2022 || [PB Info 2022-Mar-21 08:07:26] || End Time: Mon Mar 21 08:07:26 2022 || [PB Info 2022-Mar-21 08:07:26] || Total Time: 52 minutes 41 seconds || [PB Info 2022-Mar-21 08:07:26] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 08:07:30] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 08:07:30] || Parabricks accelerated Genomics Pipeline || [PB Info 2022-Mar-21 08:07:30] || Version 3.7.0-1 || [PB Info 2022-Mar-21 08:07:30] || GPU-GATK4 HaplotypeCaller || [PB Info 2022-Mar-21 08:07:30] || Contact: Parabricks-Support@nvidia.com || [PB Info 2022-Mar-21 08:07:30] ------------------------------------------------------------------------------ gpg: keyblock resource '/home/ubuntu/.gnupg/pubring.kbx': Permission denied [PB Info 2022-Mar-21 08:07:58] 0 /workspace/output/output.bam/workspace/output/output.vcf [PB Info 2022-Mar-21 08:07:58] ProgressMeter - Current-Locus Elapsed-Minutes Regions-Processed Regions/Minute [PB Info 2022-Mar-21 08:08:08] chr1:6577807 0.2 36277 217662 [PB Info 2022-Mar-21 08:08:18] chr1:13533551 0.3 74588 223749 [PB Info 2022-Mar-21 08:08:28] chr1:17860640 0.5 100266 200532 [PB Info 2022-Mar-21 08:08:38] chr1:24647735 0.7 140178 210267 [PB Info 2022-Mar-21 08:08:48] chr1:31761347 0.8 178728 214473 [PB Info 2022-Mar-21 08:08:58] chr1:38457496 1.0 215970 215970 [PB Info 2022-Mar-21 08:09:08] chr1:46420606 1.2 259973 222834 [PB Info 2022-Mar-21 08:09:18] chr1:53879955 1.3 299518 224638 [PB Info 2022-Mar-21 08:09:28] chr1:61012747 1.5 340472 226981 [PB Info 2022-Mar-21 08:09:38] chr1:69177510 1.7 387056 232233 [PB Info 2022-Mar-21 08:09:48] chr1:77073581 1.8 430864 235016 [PB Info 2022-Mar-21 08:09:58] chr1:84819127 2.0 475835 237917 [PB Info 2022-Mar-21 08:10:08] chr1:92020631 2.2 516615 238437 [PB Info 2022-Mar-21 08:10:18] chr1:99379028 2.3 558139 239202 [PB Info 2022-Mar-21 08:10:28] chr1:106233587 2.5 598705 239482 [PB Info 2022-Mar-21 08:10:38] chr1:113414260 2.7 638892 239584 [PB Info 2022-Mar-21 08:10:48] chr1:120575984 2.8 678182 239358 [PB Info 2022-Mar-21 08:10:58] chr1:123494194 3.0 696186 232062 [PB Info 2022-Mar-21 08:11:08] chr1:124123121 3.2 701625 221565 [PB Info 2022-Mar-21 08:11:18] chr1:124569378 3.3 705514 211654 [PB Info 2022-Mar-21 08:11:28] chr1:125010963 3.5 709019 202576 [PB Info 2022-Mar-21 08:11:38] chr1:143356795 3.7 711321 193996 [PB Info 2022-Mar-21 08:11:48] chr1:143630252 3.8 712665 185912 [PB Info 2022-Mar-21 08:11:58] chr1:145871903 4.0 721619 180404 [PB Info 2022-Mar-21 08:12:08] chr1:145972639 4.2 722091 173301 [PB Info 2022-Mar-21 08:12:18] chr1:146049418 4.3 722499 166730 [PB Info 2022-Mar-21 08:12:28] chr1:146068560 4.5 722610 160580 [PB Info 2022-Mar-21 08:12:38] chr1:146231906 4.7 723409 155016 [PB Info 2022-Mar-21 08:12:48] chr1:146587002 4.8 724953 149990 [PB Info 2022-Mar-21 08:12:58] chr1:152990175 5.0 759211 151842 [PB Info 2022-Mar-21 08:13:08] chr1:159523191 5.2 796157 154094 [PB Info 2022-Mar-21 08:13:18] chr1:166439767 5.3 836207 156788 [PB Info 2022-Mar-21 08:13:28] chr1:173505326 5.5 876606 159382 [PB Info 2022-Mar-21 08:13:38] chr1:180734328 5.7 917024 161827 [PB Info 2022-Mar-21 08:13:48] chr1:188135725 5.8 957502 164143 [PB Info 2022-Mar-21 08:13:58] chr1:195340676 6.0 999667 166611 [PB Info 2022-Mar-21 08:14:08] chr1:201988670 6.2 1035090 167852 [PB Info 2022-Mar-21 08:14:18] chr1:208170940 6.3 1069696 168899 [PB Info 2022-Mar-21 08:14:28] chr1:214943858 6.5 1108892 170598 [PB Info 2022-Mar-21 08:14:38] chr1:221870308 6.7 1148212 172231 [PB Info 2022-Mar-21 08:14:48] chr1:228081408 6.8 1185287 173456 [PB Info 2022-Mar-21 08:14:58] chr1:234657528 7.0 1223084 174726 [PB Info 2022-Mar-21 08:15:08] chr1:240081313 7.2 1255747 175220 [PB Info 2022-Mar-21 08:15:18] chr1:247790394 7.3 1295010 176592 [PB Info 2022-Mar-21 08:15:28] chr2:5212757 7.5 1330611 177414 [PB Info 2022-Mar-21 08:15:38] chr2:12369532 7.7 1372091 178968 [PB Info 2022-Mar-21 08:15:48] chr2:19593564 7.8 1413438 180438 [PB Info 2022-Mar-21 08:15:58] chr2:27710310 8.0 1457709 182213 [PB Info 2022-Mar-21 08:16:08] chr2:34564769 8.2 1497691 183390 [PB Info 2022-Mar-21 08:16:18] chr2:40449546 8.3 1532518 183902 [PB Info 2022-Mar-21 08:16:28] chr2:47409393 8.5 1573808 185153 [PB Info 2022-Mar-21 08:16:38] chr2:54249478 8.7 1614221 186256 [PB Info 2022-Mar-21 08:16:48] chr2:62164516 8.8 1658573 187762 [PB Info 2022-Mar-21 08:16:58] chr2:69897522 9.0 1701432 189048 [PB Info 2022-Mar-21 08:17:08] chr2:76838161 9.2 1740403 189862 [PB Info 2022-Mar-21 08:17:18] chr2:83697534 9.3 1778657 190570 [PB Info 2022-Mar-21 08:17:28] chr2:91795074 9.5 1815779 191134 [PB Info 2022-Mar-21 08:17:38] chr2:96268686 9.7 1839278 190270 [PB Info 2022-Mar-21 08:17:48] chr2:101961414 9.8 1869976 190167 [PB Info 2022-Mar-21 08:17:58] chr2:109271752 10.0 1911061 191106 [PB Info 2022-Mar-21 08:18:08] chr2:116687901 10.2 1951014 191903 [PB Info 2022-Mar-21 08:18:18] chr2:123527938 10.3 1990346 192614 [PB Info 2022-Mar-21 08:18:28] chr2:131385481 10.5 2034496 193761 [PB Info 2022-Mar-21 08:18:38] chr2:137284776 10.7 2067852 193861 [PB Info 2022-Mar-21 08:18:48] chr2:143394944 10.8 2104402 194252 [PB Info 2022-Mar-21 08:18:58] chr2:151074963 11.0 2146784 195162 [PB Info 2022-Mar-21 08:19:08] chr2:159206147 11.2 2192578 196350 [PB Info 2022-Mar-21 08:19:18] chr2:167443159 11.3 2237927 197464 [PB Info 2022-Mar-21 08:19:28] chr2:173692654 11.5 2274965 197823 [PB Info 2022-Mar-21 08:19:38] chr2:180234929 11.7 2312839 198243 [PB Info 2022-Mar-21 08:19:48] chr2:187089329 11.8 2351114 198685 [PB Info 2022-Mar-21 08:19:58] chr2:194817378 12.0 2395035 199586 [PB Info 2022-Mar-21 08:20:08] chr2:202862324 12.2 2438184 200398 [PB Info 2022-Mar-21 08:20:18] chr2:209750318 12.3 2476699 200813 [PB Info 2022-Mar-21 08:20:28] chr2:215918395 12.5 2511765 200941 [PB Info 2022-Mar-21 08:20:38] chr2:224169398 12.7 2559159 202038 [PB Info 2022-Mar-21 08:20:48] chr2:231940574 12.8 2603385 202861 [PB Info 2022-Mar-21 08:20:58] chr2:238939198 13.0 2643895 203376 [PB Info 2022-Mar-21 08:21:08] chr3:3215935 13.2 2682234 203713 [PB Info 2022-Mar-21 08:21:18] chr3:8769515 13.3 2716873 203765 [PB Info 2022-Mar-21 08:21:28] chr3:15499004 13.5 2754857 204063 [PB Info 2022-Mar-21 08:21:38] chr3:22286289 13.7 2791731 204273 [PB Info 2022-Mar-21 08:21:48] chr3:29846348 13.8 2835306 204961 [PB Info 2022-Mar-21 08:21:58] chr3:37435144 14.0 2877487 205534 [PB Info 2022-Mar-21 08:22:08] chr3:45081505 14.2 2919281 206066 [PB Info 2022-Mar-21 08:22:18] chr3:52507166 14.3 2957568 206341 [PB Info 2022-Mar-21 08:22:28] chr3:59270386 14.5 2997319 206711 [PB Info 2022-Mar-21 08:22:38] chr3:66254139 14.7 3039025 207206 [PB Info 2022-Mar-21 08:22:48] chr3:73113522 14.8 3078838 207562 [PB Info 2022-Mar-21 08:22:58] chr3:78225577 15.0 3108553 207236 [PB Info 2022-Mar-21 08:23:08] chr3:85631923 15.2 3151569 207795 [PB Info 2022-Mar-21 08:23:18] chr3:91569498 15.3 3186574 207820 [PB Info 2022-Mar-21 08:23:28] chr3:98347029 15.5 3219109 207684 [PB Info 2022-Mar-21 08:23:38] chr3:104783733 15.7 3256986 207892 [PB Info 2022-Mar-21 08:23:48] chr3:112090258 15.8 3300102 208427 [PB Info 2022-Mar-21 08:23:58] chr3:119907405 16.0 3343751 208984 [PB Info 2022-Mar-21 08:24:08] chr3:127166160 16.2 3384537 209352 [PB Info 2022-Mar-21 08:24:18] chr3:133732700 16.3 3421771 209496 [PB Info 2022-Mar-21 08:24:28] chr3:141464913 16.5 3464334 209959 [PB Info 2022-Mar-21 08:24:38] chr3:148910329 16.7 3505563 210333 [PB Info 2022-Mar-21 08:24:48] chr3:156292774 16.8 3544612 210571 [PB Info 2022-Mar-21 08:24:58] chr3:163300712 17.0 3584129 210831 [PB Info 2022-Mar-21 08:25:08] chr3:171959898 17.2 3628983 211397 [PB Info 2022-Mar-21 08:25:18] chr3:179265570 17.3 3669563 211705 [PB Info 2022-Mar-21 08:25:28] chr3:186907016 17.5 3710844 212048 [PB Info 2022-Mar-21 08:25:38] chr3:193271708 17.7 3748152 212159 [PB Info 2022-Mar-21 08:25:48] chr4:470384 17.8 3777848 211841 [PB Info 2022-Mar-21 08:25:58] chr4:6513378 18.0 3813252 211847 [PB Info 2022-Mar-21 08:26:08] chr4:11716685 18.2 3845969 211704 [PB Info 2022-Mar-21 08:26:18] chr4:18513456 18.3 3884871 211902 [PB Info 2022-Mar-21 08:26:28] chr4:26543840 18.5 3929110 212384 [PB Info 2022-Mar-21 08:26:38] chr4:32515024 18.7 3964985 212409 [PB Info 2022-Mar-21 08:26:48] chr4:39897547 18.8 4007144 212768 [PB Info 2022-Mar-21 08:26:58] chr4:46545454 19.0 4045609 212926 [PB Info 2022-Mar-21 08:27:08] chr4:49276692 19.2 4061451 211901 [PB Info 2022-Mar-21 08:27:18] chr4:51907046 19.3 4070695 210553 [PB Info 2022-Mar-21 08:27:28] chr4:52094260 19.5 4071693 208804 [PB Info 2022-Mar-21 08:27:38] chr4:53193316 19.7 4077667 207339 [PB Info 2022-Mar-21 08:27:48] chr4:59145567 19.8 4112161 207335 [PB Info 2022-Mar-21 08:27:58] chr4:64627095 20.0 4145346 207267 [PB Info 2022-Mar-21 08:28:08] chr4:72158348 20.2 4187438 207641 [PB Info 2022-Mar-21 08:28:18] chr4:79247960 20.3 4228725 207970 [PB Info 2022-Mar-21 08:28:28] chr4:86337518 20.5 4268571 208222 [PB Info 2022-Mar-21 08:28:38] chr4:93544698 20.7 4307260 208415 [PB Info 2022-Mar-21 08:28:48] chr4:100262375 20.8 4344715 208546 [PB Info 2022-Mar-21 08:28:58] chr4:108353466 21.0 4388625 208982 [PB Info 2022-Mar-21 08:29:08] chr4:114662399 21.2 4425570 209082 [PB Info 2022-Mar-21 08:29:18] chr4:121267087 21.3 4464782 209286 [PB Info 2022-Mar-21 08:29:28] chr4:129436707 21.5 4511192 209822 [PB Info 2022-Mar-21 08:29:38] chr4:135916611 21.7 4549224 209964 [PB Info 2022-Mar-21 08:29:48] chr4:143217444 21.8 4592302 210334 [PB Info 2022-Mar-21 08:29:58] chr4:151247817 22.0 4637213 210782 [PB Info 2022-Mar-21 08:30:08] chr4:157401428 22.2 4671381 210738 [PB Info 2022-Mar-21 08:30:18] chr4:163814325 22.3 4709332 210865 [PB Info 2022-Mar-21 08:30:28] chr4:170308705 22.5 4748193 211030 [PB Info 2022-Mar-21 08:30:38] chr4:176721489 22.7 4785757 211136 [PB Info 2022-Mar-21 08:30:48] chr4:182980761 22.8 4824390 211287 [PB Info 2022-Mar-21 08:30:58] chr4:189306932 23.0 4862249 211402 [PB Info 2022-Mar-21 08:31:08] chr5:2217504 23.2 4875653 210459 [PB Info 2022-Mar-21 08:31:18] chr5:7987187 23.3 4911705 210501 [PB Info 2022-Mar-21 08:31:28] chr5:15119767 23.5 4953335 210780 [PB Info 2022-Mar-21 08:31:38] chr5:22171150 23.7 4994015 211014 [PB Info 2022-Mar-21 08:31:48] chr5:29097412 23.8 5033259 211185 [PB Info 2022-Mar-21 08:31:58] chr5:35524777 24.0 5070474 211269 [PB Info 2022-Mar-21 08:32:08] chr5:42710343 24.2 5110037 211449 [PB Info 2022-Mar-21 08:32:18] chr5:49790307 24.3 5138041 211152 [PB Info 2022-Mar-21 08:32:28] chr5:50135995 24.5 5140803 209828 [PB Info 2022-Mar-21 08:32:38] chr5:52459179 24.7 5153721 208934 [PB Info 2022-Mar-21 08:32:48] chr5:59927849 24.8 5196830 209268 [PB Info 2022-Mar-21 08:32:58] chr5:67003147 25.0 5235525 209421 [PB Info 2022-Mar-21 08:33:08] chr5:76329488 25.2 5278033 209723 [PB Info 2022-Mar-21 08:33:18] chr5:82999225 25.3 5315673 209829 [PB Info 2022-Mar-21 08:33:28] chr5:91411061 25.5 5360845 210229 [PB Info 2022-Mar-21 08:33:38] chr5:99595050 25.7 5404364 210559 [PB Info 2022-Mar-21 08:33:48] chr5:107466934 25.8 5447710 210879 [PB Info 2022-Mar-21 08:33:58] chr5:115281550 26.0 5491938 211228 [PB Info 2022-Mar-21 08:34:08] chr5:123518275 26.2 5537044 211606 [PB Info 2022-Mar-21 08:34:18] chr5:131505568 26.3 5580100 211902 [PB Info 2022-Mar-21 08:34:28] chr5:139953519 26.5 5626007 212302 [PB Info 2022-Mar-21 08:34:38] chr5:147724750 26.7 5667950 212548 [PB Info 2022-Mar-21 08:34:48] chr5:154074958 26.8 5703723 212561 [PB Info 2022-Mar-21 08:34:58] chr5:161635037 27.0 5744916 212774 [PB Info 2022-Mar-21 08:35:08] chr5:168523178 27.2 5784098 212911 [PB Info 2022-Mar-21 08:35:18] chr5:175099179 27.3 5822496 213018 [PB Info 2022-Mar-21 08:35:28] chr6:402940 27.5 5861857 213158 [PB Info 2022-Mar-21 08:35:38] chr6:6134327 27.7 5896478 213125 [PB Info 2022-Mar-21 08:35:48] chr6:12220566 27.8 5932087 213128 [PB Info 2022-Mar-21 08:35:58] chr6:17889575 28.0 5964931 213033 [PB Info 2022-Mar-21 08:36:08] chr6:23351956 28.2 5997679 212935 [PB Info 2022-Mar-21 08:36:18] chr6:34099159 28.3 6038274 213115 [PB Info 2022-Mar-21 08:36:28] chr6:40977505 28.5 6077909 213259 [PB Info 2022-Mar-21 08:36:38] chr6:48076559 28.7 6117909 213415 [PB Info 2022-Mar-21 08:36:48] chr6:54916764 28.8 6158291 213582 [PB Info 2022-Mar-21 08:36:58] chr6:63028708 29.0 6198929 213756 [PB Info 2022-Mar-21 08:37:08] chr6:70670148 29.2 6241518 213994 [PB Info 2022-Mar-21 08:37:18] chr6:77740796 29.3 6281857 214154 [PB Info 2022-Mar-21 08:37:28] chr6:85238162 29.5 6324961 214405 [PB Info 2022-Mar-21 08:37:38] chr6:91583939 29.7 6361736 214440 [PB Info 2022-Mar-21 08:37:48] chr6:98188759 29.8 6400181 214531 [PB Info 2022-Mar-21 08:37:58] chr6:105388531 30.0 6441305 214710 [PB Info 2022-Mar-21 08:38:08] chr6:112579018 30.2 6482358 214884 [PB Info 2022-Mar-21 08:38:18] chr6:120422240 30.3 6526536 215160 [PB Info 2022-Mar-21 08:38:28] chr6:127434929 30.5 6566529 215296 [PB Info 2022-Mar-21 08:38:38] chr6:134918227 30.7 6603960 215346 [PB Info 2022-Mar-21 08:38:48] chr6:143068644 30.8 6647624 215598 [PB Info 2022-Mar-21 08:38:58] chr6:149942244 31.0 6685618 215665 [PB Info 2022-Mar-21 08:39:08] chr6:155860745 31.2 6720524 215631 [PB Info 2022-Mar-21 08:39:18] chr6:162100646 31.3 6757096 215652 [PB Info 2022-Mar-21 08:39:28] chr6:168503756 31.5 6795654 215735 [PB Info 2022-Mar-21 08:39:38] chr7:3907159 31.7 6829471 215667 [PB Info 2022-Mar-21 08:39:48] chr7:10137377 31.8 6867771 215741 [PB Info 2022-Mar-21 08:39:58] chr7:16444740 32.0 6907457 215858 [PB Info 2022-Mar-21 08:40:08] chr7:22598133 32.2 6944532 215892 [PB Info 2022-Mar-21 08:40:18] chr7:29130974 32.3 6981855 215933 [PB Info 2022-Mar-21 08:40:28] chr7:36571119 32.5 7023794 216116 [PB Info 2022-Mar-21 08:40:38] chr7:43430359 32.7 7062175 216189 [PB Info 2022-Mar-21 08:40:48] chr7:49718109 32.8 7098443 216196 [PB Info 2022-Mar-21 08:40:58] chr7:56087990 33.0 7136873 216268 [PB Info 2022-Mar-21 08:41:08] chr7:62443176 33.2 7166277 216068 [PB Info 2022-Mar-21 08:41:18] chr7:67305444 33.3 7196448 215893 [PB Info 2022-Mar-21 08:41:28] chr7:73564544 33.5 7232565 215897 [PB Info 2022-Mar-21 08:41:38] chr7:79977529 33.7 7269139 215915 [PB Info 2022-Mar-21 08:41:48] chr7:87239999 33.8 7311479 216102 [PB Info 2022-Mar-21 08:41:58] chr7:94718213 34.0 7352301 216244 [PB Info 2022-Mar-21 08:42:08] chr7:101155135 34.2 7388475 216248 [PB Info 2022-Mar-21 08:42:18] chr7:107361528 34.3 7423626 216222 [PB Info 2022-Mar-21 08:42:28] chr7:115732616 34.5 7468223 216470 [PB Info 2022-Mar-21 08:42:38] chr7:123566353 34.7 7509978 216633 [PB Info 2022-Mar-21 08:42:48] chr7:131140581 34.8 7552417 216815 [PB Info 2022-Mar-21 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chr8:79852781 37.5 8157902 217544 [PB Info 2022-Mar-21 08:45:38] chr8:87484768 37.7 8199136 217676 [PB Info 2022-Mar-21 08:45:48] chr8:95088287 37.8 8240647 217814 [PB Info 2022-Mar-21 08:45:58] chr8:102182177 38.0 8278645 217859 [PB Info 2022-Mar-21 08:46:08] chr8:109569478 38.2 8318392 217949 [PB Info 2022-Mar-21 08:46:18] chr8:117287888 38.3 8359899 218084 [PB Info 2022-Mar-21 08:46:28] chr8:124838269 38.5 8401356 218217 [PB Info 2022-Mar-21 08:46:38] chr8:132038201 38.7 8441226 218307 [PB Info 2022-Mar-21 08:46:48] chr8:138911764 38.8 8482798 218441 [PB Info 2022-Mar-21 08:46:58] chr9:623823 39.0 8519421 218446 [PB Info 2022-Mar-21 08:47:08] chr9:6494384 39.2 8555762 218444 [PB Info 2022-Mar-21 08:47:18] chr9:11951946 39.3 8590142 218393 [PB Info 2022-Mar-21 08:47:28] chr9:18326392 39.5 8628542 218444 [PB Info 2022-Mar-21 08:47:38] chr9:24849532 39.7 8666093 218472 [PB Info 2022-Mar-21 08:47:48] chr9:30787158 39.8 8701420 218445 [PB Info 2022-Mar-21 08:47:58] chr9:36628538 40.0 8735811 218395 [PB Info 2022-Mar-21 08:48:08] chr9:41716745 40.2 8765004 218215 [PB Info 2022-Mar-21 08:48:18] chr9:45297525 40.3 8785706 217827 [PB Info 2022-Mar-21 08:48:28] chr9:65318279 40.5 8808086 217483 [PB Info 2022-Mar-21 08:48:38] chr9:71342300 40.7 8837612 217318 [PB Info 2022-Mar-21 08:48:48] chr9:76977545 40.8 8870040 217225 [PB Info 2022-Mar-21 08:48:58] chr9:84340730 41.0 8911197 217346 [PB Info 2022-Mar-21 08:49:08] chr9:90604794 41.2 8946500 217323 [PB Info 2022-Mar-21 08:49:18] chr9:97511935 41.3 8985743 217397 [PB Info 2022-Mar-21 08:49:28] chr9:105306902 41.5 9027695 217534 [PB Info 2022-Mar-21 08:49:38] chr9:112588546 41.7 9069837 217676 [PB Info 2022-Mar-21 08:49:48] chr9:120172746 41.8 9112748 217834 [PB Info 2022-Mar-21 08:49:58] chr9:127396743 42.0 9152742 217922 [PB Info 2022-Mar-21 08:50:08] chr9:134265534 42.2 9193065 218017 [PB Info 2022-Mar-21 08:50:18] chr10:2035191 42.3 9228966 218007 [PB Info 2022-Mar-21 08:50:28] chr10:7651015 42.5 9264013 217976 [PB Info 2022-Mar-21 08:50:38] chr10:13569480 42.7 9300594 217982 [PB Info 2022-Mar-21 08:50:48] chr10:18830250 42.8 9332757 217885 [PB Info 2022-Mar-21 08:50:58] chr10:26538933 43.0 9374294 218006 [PB Info 2022-Mar-21 08:51:08] chr10:32371097 43.2 9409773 217987 [PB Info 2022-Mar-21 08:51:18] chr10:38491120 43.3 9444918 217959 [PB Info 2022-Mar-21 08:51:28] chr10:42335924 43.5 9464080 217565 [PB Info 2022-Mar-21 08:51:38] chr10:43622139 43.7 9471618 216907 [PB Info 2022-Mar-21 08:51:48] chr10:43708729 43.8 9472206 216095 [PB Info 2022-Mar-21 08:51:58] chr10:43727816 44.0 9472350 215280 [PB Info 2022-Mar-21 08:52:08] chr10:46747183 44.2 9488135 214825 [PB Info 2022-Mar-21 08:52:18] chr10:53462220 44.3 9526769 214889 [PB Info 2022-Mar-21 08:52:28] chr10:60388696 44.5 9567677 215003 [PB Info 2022-Mar-21 08:52:38] chr10:67953578 44.7 9611010 215171 [PB Info 2022-Mar-21 08:52:48] chr10:73977581 44.8 9646111 215154 [PB Info 2022-Mar-21 08:52:58] chr10:80807884 45.0 9683115 215180 [PB Info 2022-Mar-21 08:53:08] chr10:87139101 45.2 9719390 215189 [PB Info 2022-Mar-21 08:53:18] chr10:94032458 45.3 9758248 215255 [PB Info 2022-Mar-21 08:53:28] chr10:100886335 45.5 9796200 215301 [PB Info 2022-Mar-21 08:53:38] chr10:108100794 45.7 9836087 215388 [PB Info 2022-Mar-21 08:53:48] chr10:115526267 45.8 9878754 215536 [PB Info 2022-Mar-21 08:53:58] chr10:121847800 46.0 9916851 215583 [PB Info 2022-Mar-21 08:54:08] chr10:128255752 46.2 9954880 215629 [PB Info 2022-Mar-21 08:54:18] chr11:259131 46.3 9989245 215595 [PB Info 2022-Mar-21 08:54:28] chr11:5423869 46.5 10017436 215428 [PB Info 2022-Mar-21 08:54:38] chr11:10871871 46.7 10049811 215353 [PB Info 2022-Mar-21 08:54:48] chr11:16939152 46.8 10084867 215335 [PB Info 2022-Mar-21 08:54:58] chr11:22535887 47.0 10119135 215300 [PB Info 2022-Mar-21 08:55:08] chr11:28444559 47.2 10155019 215300 [PB Info 2022-Mar-21 08:55:18] chr11:35015974 47.3 10192356 215331 [PB Info 2022-Mar-21 08:55:28] chr11:41927830 47.5 10233094 215433 [PB Info 2022-Mar-21 08:55:38] chr11:49171153 47.7 10274978 215558 [PB Info 2022-Mar-21 08:55:48] chr11:58910199 47.8 10329331 215944 [PB Info 2022-Mar-21 08:55:58] chr11:65697514 48.0 10367133 215981 [PB Info 2022-Mar-21 08:56:08] chr11:71433357 48.2 10399808 215912 [PB Info 2022-Mar-21 08:56:18] chr11:78623898 48.3 10440015 216000 [PB Info 2022-Mar-21 08:56:28] chr11:86327969 48.5 10483605 216156 [PB Info 2022-Mar-21 08:56:38] chr11:92529538 48.7 10520141 216167 [PB Info 2022-Mar-21 08:56:48] chr11:99163190 48.8 10558951 216224 [PB Info 2022-Mar-21 08:56:58] chr11:105200785 49.0 10596079 216246 [PB Info 2022-Mar-21 08:57:08] chr11:113016328 49.2 10640130 216409 [PB Info 2022-Mar-21 08:57:18] chr11:119759970 49.3 10678479 216455 [PB Info 2022-Mar-21 08:57:28] chr11:126057444 49.5 10715341 216471 [PB Info 2022-Mar-21 08:57:38] chr11:133334344 49.7 10756802 216579 [PB Info 2022-Mar-21 08:57:48] chr12:5380655 49.8 10797051 216663 [PB Info 2022-Mar-21 08:57:58] chr12:11707199 50.0 10832228 216644 [PB Info 2022-Mar-21 08:58:08] chr12:17677624 50.2 10866483 216607 [PB Info 2022-Mar-21 08:58:18] chr12:24110295 50.3 10904754 216650 [PB Info 2022-Mar-21 08:58:28] chr12:31060764 50.5 10945632 216745 [PB Info 2022-Mar-21 08:58:38] chr12:37876756 50.7 10984330 216795 [PB Info 2022-Mar-21 08:58:48] chr12:45359840 50.8 11027264 216929 [PB Info 2022-Mar-21 08:58:58] chr12:52511364 51.0 11067634 217012 [PB Info 2022-Mar-21 08:59:08] chr12:60345403 51.2 11110409 217141 [PB Info 2022-Mar-21 08:59:18] chr12:66489497 51.3 11145618 217122 [PB Info 2022-Mar-21 08:59:28] chr12:73113354 51.5 11183722 217159 [PB Info 2022-Mar-21 08:59:38] chr12:80947041 51.7 11227351 217303 [PB Info 2022-Mar-21 08:59:48] chr12:88833574 51.8 11270044 217428 [PB Info 2022-Mar-21 08:59:58] chr12:95817583 52.0 11310577 217511 [PB Info 2022-Mar-21 09:00:08] chr12:103550175 52.2 11353285 217634 [PB Info 2022-Mar-21 09:00:18] chr12:110951994 52.3 11394445 217728 [PB Info 2022-Mar-21 09:00:28] chr12:117767931 52.5 11433421 217779 [PB Info 2022-Mar-21 09:00:38] chr12:123403178 52.7 11466854 217725 [PB Info 2022-Mar-21 09:00:48] chr12:129513555 52.8 11502958 217721 [PB Info 2022-Mar-21 09:00:58] chr13:16391970 53.0 11529573 217539 [PB Info 2022-Mar-21 09:01:08] chr13:17390399 53.2 11539038 217035 [PB Info 2022-Mar-21 09:01:18] chr13:20126250 53.3 11555608 216667 [PB Info 2022-Mar-21 09:01:28] chr13:25387048 53.5 11588596 216609 [PB Info 2022-Mar-21 09:01:38] chr13:31987182 53.7 11627459 216660 [PB Info 2022-Mar-21 09:01:48] chr13:38515006 53.8 11665008 216687 [PB Info 2022-Mar-21 09:01:58] chr13:45983795 54.0 11708354 216821 [PB Info 2022-Mar-21 09:02:08] chr13:52871960 54.2 11747739 216881 [PB Info 2022-Mar-21 09:02:18] chr13:59558268 54.3 11786344 216926 [PB Info 2022-Mar-21 09:02:28] chr13:66762955 54.5 11826598 217001 [PB Info 2022-Mar-21 09:02:38] chr13:73972723 54.7 11868969 217115 [PB Info 2022-Mar-21 09:02:48] chr13:81561301 54.8 11913024 217258 [PB Info 2022-Mar-21 09:02:58] chr13:87777527 55.0 11949126 217256 [PB Info 2022-Mar-21 09:03:08] chr13:94588773 55.2 11988733 217318 [PB Info 2022-Mar-21 09:03:18] chr13:100963058 55.3 12025500 217328 [PB Info 2022-Mar-21 09:03:28] chr13:107673429 55.5 12066100 217407 [PB Info 2022-Mar-21 09:03:38] chr13:112895897 55.7 12096328 217299 [PB Info 2022-Mar-21 09:03:48] chr14:21571044 55.8 12124591 217156 [PB Info 2022-Mar-21 09:03:58] chr14:27710246 56.0 12161133 217163 [PB Info 2022-Mar-21 09:04:08] chr14:35054380 56.2 12203877 217279 [PB Info 2022-Mar-21 09:04:18] chr14:41438258 56.3 12241816 217310 [PB Info 2022-Mar-21 09:04:28] chr14:48167937 56.5 12280489 217353 [PB Info 2022-Mar-21 09:04:38] chr14:55660740 56.7 12324243 217486 [PB Info 2022-Mar-21 09:04:48] chr14:62519708 56.8 12364088 217549 [PB Info 2022-Mar-21 09:04:58] chr14:69820585 57.0 12403961 217613 [PB Info 2022-Mar-21 09:05:08] chr14:76036707 57.2 12439054 217592 [PB Info 2022-Mar-21 09:05:18] chr14:83414224 57.3 12480405 217681 [PB Info 2022-Mar-21 09:05:28] chr14:90355172 57.5 12520430 217746 [PB Info 2022-Mar-21 09:05:38] chr14:97953535 57.7 12555483 217725 [PB Info 2022-Mar-21 09:05:48] chr14:104332797 57.8 12592908 217744 [PB Info 2022-Mar-21 09:05:58] chr15:21590381 58.0 12619095 217570 [PB Info 2022-Mar-21 09:06:08] chr15:22900523 58.2 12625763 217061 [PB Info 2022-Mar-21 09:06:18] chr15:32188580 58.3 12668593 217175 [PB Info 2022-Mar-21 09:06:28] chr15:39115198 58.5 12708156 217233 [PB Info 2022-Mar-21 09:06:38] chr15:47159794 58.7 12750960 217345 [PB Info 2022-Mar-21 09:06:48] chr15:54359841 58.8 12791634 217421 [PB Info 2022-Mar-21 09:06:58] chr15:61036719 59.0 12831850 217488 [PB Info 2022-Mar-21 09:07:08] chr15:68169556 59.2 12870141 217523 [PB Info 2022-Mar-21 09:07:18] chr15:74596751 59.3 12905681 217511 [PB Info 2022-Mar-21 09:07:28] chr15:80615871 59.5 12941121 217497 [PB Info 2022-Mar-21 09:07:38] chr15:88339026 59.7 12982651 217586 [PB Info 2022-Mar-21 09:07:48] chr15:94473360 59.8 13019575 217597 [PB Info 2022-Mar-21 09:07:58] chr15:101423906 60.0 13060696 217678 [PB Info 2022-Mar-21 09:08:08] chr16:5203115 60.2 13093480 217620 [PB Info 2022-Mar-21 09:08:18] chr16:9854246 60.3 13125347 217547 [PB Info 2022-Mar-21 09:08:28] chr16:18105415 60.5 13167733 217648 [PB Info 2022-Mar-21 09:08:38] chr16:25540749 60.7 13208499 217722 [PB Info 2022-Mar-21 09:08:48] chr16:31847826 60.8 13244407 217716 [PB Info 2022-Mar-21 09:08:58] chr16:35087960 61.0 13256835 217325 [PB Info 2022-Mar-21 09:09:08] chr16:46617552 61.2 13269647 216942 [PB Info 2022-Mar-21 09:09:18] chr16:46631972 61.3 13269726 216354 [PB Info 2022-Mar-21 09:09:28] chr16:46636787 61.5 13269753 215768 [PB Info 2022-Mar-21 09:09:38] chr16:46651200 61.7 13269827 215186 [PB Info 2022-Mar-21 09:09:48] chr16:46972627 61.8 13271473 214632 [PB Info 2022-Mar-21 09:09:58] chr16:49070218 62.0 13281255 214213 [PB Info 2022-Mar-21 09:10:08] chr16:49075091 62.2 13281283 213639 [PB Info 2022-Mar-21 09:10:18] chr16:49075091 62.3 13281283 213068 [PB Info 2022-Mar-21 09:10:28] chr16:49094384 62.5 13281436 212502 [PB Info 2022-Mar-21 09:10:38] chr16:49108720 62.7 13281524 211939 [PB Info 2022-Mar-21 09:10:48] chr16:49113512 62.8 13281552 211377 [PB Info 2022-Mar-21 09:10:58] chr16:49118383 63.0 13281585 210818 [PB Info 2022-Mar-21 09:11:08] chr16:49204582 63.2 13282014 210269 [PB Info 2022-Mar-21 09:11:18] chr16:53889520 63.3 13308881 210140 [PB Info 2022-Mar-21 09:11:28] chr16:59563157 63.5 13342101 210111 [PB Info 2022-Mar-21 09:11:38] chr16:66345498 63.7 13379380 210147 [PB Info 2022-Mar-21 09:11:48] chr16:73250413 63.8 13416180 210175 [PB Info 2022-Mar-21 09:11:58] chr16:79411169 64.0 13454373 210224 [PB Info 2022-Mar-21 09:12:08] chr16:84619089 64.2 13488293 210207 [PB Info 2022-Mar-21 09:12:18] chr16:88905474 64.3 13516314 210098 [PB Info 2022-Mar-21 09:12:28] chr17:5231951 64.5 13552029 210108 [PB Info 2022-Mar-21 09:12:38] chr17:10242969 64.7 13582425 210037 [PB Info 2022-Mar-21 09:12:48] chr17:16113550 64.8 13617974 210045 [PB Info 2022-Mar-21 09:12:58] chr17:21820670 65.0 13650076 210001 [PB Info 2022-Mar-21 09:13:08] chr17:24791872 65.2 13662196 209650 [PB Info 2022-Mar-21 09:13:18] chr17:27844693 65.3 13675387 209317 [PB Info 2022-Mar-21 09:13:28] chr17:28262279 65.5 13677413 208815 [PB Info 2022-Mar-21 09:13:38] chr17:33278370 65.7 13702856 208672 [PB Info 2022-Mar-21 09:13:48] chr17:41793439 65.8 13739251 208697 [PB Info 2022-Mar-21 09:13:58] chr17:49915188 66.0 13779212 208775 [PB Info 2022-Mar-21 09:14:08] chr17:55876746 66.2 13813802 208772 [PB Info 2022-Mar-21 09:14:18] chr17:64142379 66.3 13858622 208923 [PB Info 2022-Mar-21 09:14:28] chr17:69654883 66.5 13890710 208882 [PB Info 2022-Mar-21 09:14:38] chr17:75979172 66.7 13925423 208881 [PB Info 2022-Mar-21 09:14:48] chr17:81436633 66.8 13958469 208854 [PB Info 2022-Mar-21 09:14:58] chr18:824369 67.0 13973623 208561 [PB Info 2022-Mar-21 09:15:08] chr18:1516788 67.2 13977641 208103 [PB Info 2022-Mar-21 09:15:18] chr18:7137562 67.3 14011040 208084 [PB Info 2022-Mar-21 09:15:28] chr18:12820669 67.5 14045136 208076 [PB Info 2022-Mar-21 09:15:38] chr18:22953329 67.7 14095924 208314 [PB Info 2022-Mar-21 09:15:48] chr18:29644700 67.8 14132987 208348 [PB Info 2022-Mar-21 09:15:58] chr18:37708602 68.0 14177051 208486 [PB Info 2022-Mar-21 09:16:08] chr18:43854048 68.2 14211465 208481 [PB Info 2022-Mar-21 09:16:18] chr18:50898907 68.3 14249814 208533 [PB Info 2022-Mar-21 09:16:28] chr18:57287811 68.5 14286122 208556 [PB Info 2022-Mar-21 09:16:38] chr18:63479874 68.7 14322469 208579 [PB Info 2022-Mar-21 09:16:48] chr18:70046131 68.8 14362142 208650 [PB Info 2022-Mar-21 09:16:58] chr18:76670276 69.0 14402880 208737 [PB Info 2022-Mar-21 09:17:08] chr19:2615972 69.2 14438271 208746 [PB Info 2022-Mar-21 09:17:18] chr19:7828683 69.3 14470691 208711 [PB Info 2022-Mar-21 09:17:28] chr19:14375991 69.5 14507321 208738 [PB Info 2022-Mar-21 09:17:38] chr19:19967833 69.7 14540805 208719 [PB Info 2022-Mar-21 09:17:48] chr19:28526214 69.8 14572418 208674 [PB Info 2022-Mar-21 09:17:58] chr19:33465405 70.0 14601322 208590 [PB Info 2022-Mar-21 09:18:08] chr19:40118266 70.2 14637615 208612 [PB Info 2022-Mar-21 09:18:18] chr19:46732796 70.3 14673952 208634 [PB Info 2022-Mar-21 09:18:28] chr19:52650996 70.5 14708300 208628 [PB Info 2022-Mar-21 09:18:38] chr20:863992 70.7 14744635 208650 [PB Info 2022-Mar-21 09:18:48] chr20:6897600 70.8 14780601 208667 [PB Info 2022-Mar-21 09:18:58] chr20:12071735 71.0 14810867 208603 [PB Info 2022-Mar-21 09:19:08] chr20:18868289 71.2 14848540 208644 [PB Info 2022-Mar-21 09:19:18] chr20:25502319 71.3 14886127 208684 [PB Info 2022-Mar-21 09:19:28] chr20:29428777 71.5 14903713 208443 [PB Info 2022-Mar-21 09:19:38] chr20:29822356 71.7 14906213 207993 [PB Info 2022-Mar-21 09:19:48] chr20:30566216 71.8 14910850 207575 [PB Info 2022-Mar-21 09:19:58] chr20:32658927 72.0 14920856 207234 [PB Info 2022-Mar-21 09:20:08] chr20:33091182 72.2 14923556 206792 [PB Info 2022-Mar-21 09:20:18] chr20:40267158 72.3 14962076 206848 [PB Info 2022-Mar-21 09:20:28] chr20:47711965 72.5 15003053 206938 [PB Info 2022-Mar-21 09:20:38] chr20:53491165 72.7 15036837 206928 [PB Info 2022-Mar-21 09:20:48] chr20:60436607 72.8 15076393 206998 [PB Info 2022-Mar-21 09:20:58] chr21:8260622 73.0 15104614 206912 [PB Info 2022-Mar-21 09:21:08] chr21:9331194 73.2 15109214 206504 [PB Info 2022-Mar-21 09:21:18] chr21:9604734 73.3 15110169 206047 [PB Info 2022-Mar-21 09:21:28] chr21:9854255 73.5 15112253 205608 [PB Info 2022-Mar-21 09:21:38] chr21:10583898 73.7 15117050 205208 [PB Info 2022-Mar-21 09:21:48] chr21:13051038 73.8 15119956 204784 [PB Info 2022-Mar-21 09:21:58] chr21:13550104 74.0 15123187 204367 [PB Info 2022-Mar-21 09:22:08] chr21:16603091 74.2 15140599 204142 [PB Info 2022-Mar-21 09:22:18] chr21:23318278 74.3 15179415 204207 [PB Info 2022-Mar-21 09:22:28] chr21:29356580 74.5 15215422 204233 [PB Info 2022-Mar-21 09:22:38] chr21:35582378 74.7 15249552 204235 [PB Info 2022-Mar-21 09:22:48] chr21:41831950 74.8 15286669 204276 [PB Info 2022-Mar-21 09:22:58] chr22:11030253 75.0 15316377 204218 [PB Info 2022-Mar-21 09:23:08] chr22:12153359 75.2 15321905 203839 [PB Info 2022-Mar-21 09:23:18] chr22:12369528 75.3 15323252 203406 [PB Info 2022-Mar-21 09:23:28] chr22:15681384 75.5 15329039 203033 [PB Info 2022-Mar-21 09:23:38] chr22:17514978 75.7 15340672 202740 [PB Info 2022-Mar-21 09:23:48] chr22:24571162 75.8 15377513 202780 [PB Info 2022-Mar-21 09:23:58] chr22:31737380 76.0 15417956 202867 [PB Info 2022-Mar-21 09:24:08] chr22:38755099 76.2 15457534 202943 [PB Info 2022-Mar-21 09:24:18] chr22:45547184 76.3 15495700 203000 [PB Info 2022-Mar-21 09:24:28] chr22:50284554 76.5 15524291 202931 [PB Info 2022-Mar-21 09:24:38] chrX:4915151 76.7 15555104 202892 [PB Info 2022-Mar-21 09:24:48] chrX:13583986 76.8 15599728 203033 [PB Info 2022-Mar-21 09:24:58] chrX:23015885 77.0 15645071 203182 [PB Info 2022-Mar-21 09:25:08] chrX:31689495 77.2 15690284 203329 [PB Info 2022-Mar-21 09:25:18] chrX:40430358 77.3 15733910 203455 [PB Info 2022-Mar-21 09:25:28] chrX:48710196 77.5 15776327 203565 [PB Info 2022-Mar-21 09:25:38] chrX:57604753 77.7 15819282 203681 [PB Info 2022-Mar-21 09:25:48] chrX:72234917 77.8 15879936 204024 [PB Info 2022-Mar-21 09:25:58] chrX:81324516 78.0 15927923 204204 [PB Info 2022-Mar-21 09:26:08] chrX:89591967 78.2 15972323 204336 [PB Info 2022-Mar-21 09:26:18] chrX:98764720 78.3 16020895 204522 [PB Info 2022-Mar-21 09:26:28] chrX:108177395 78.5 16065255 204652 [PB Info 2022-Mar-21 09:26:38] chrX:117575726 78.7 16112067 204814 [PB Info 2022-Mar-21 09:26:48] chrX:126643184 78.8 16157511 204957 [PB Info 2022-Mar-21 09:26:58] chrX:137059112 79.0 16207965 205164 [PB Info 2022-Mar-21 09:27:08] chrX:145151881 79.2 16251324 205279 [PB Info 2022-Mar-21 09:27:18] chrX:153801484 79.3 16296090 205412 [PB Info 2022-Mar-21 09:27:28] chrY:11481417 79.5 16336292 205487 [PB Info 2022-Mar-21 09:27:38] chr1_KI270706v1_random:67119 79.7 16366913 205442 [PB Info 2022-Mar-21 09:27:48] chr1_KI270713v1_random:9471 79.8 16370898 205063 [PB Info 2022-Mar-21 09:27:58] chr2_KI270715v1_random:95877 80.0 16371978 204649 [PB Info 2022-Mar-21 09:28:08] chr3_GL000221v1_random:4795 80.2 16373221 204239 [PB Info 2022-Mar-21 09:28:18] chr4_GL000008v2_random:139014 80.3 16375027 203838 [PB Info 2022-Mar-21 09:28:28] chr14_GL000009v2_random:196712 80.5 16380145 203480 [PB Info 2022-Mar-21 09:28:38] chr14_KI270722v1_random:57562 80.7 16382430 203087 [PB Info 2022-Mar-21 09:28:48] chr14_KI270725v1_random:100781 80.8 16386201 202715 [PB Info 2022-Mar-21 09:28:58] chr16_KI270728v1_random:172602 81.0 16387096 202309 [PB Info 2022-Mar-21 09:29:08] chr17_KI270729v1_random:33594 81.2 16392773 201964 [PB Info 2022-Mar-21 09:29:18] chr22_KI270733v1_random:148773 81.3 16397200 201604 [PB Info 2022-Mar-21 09:29:28] chr22_KI270735v1_random:33383 81.5 16398487 201208 [PB Info 2022-Mar-21 09:29:38] chr22_KI270737v1_random:95969 81.7 16400433 200821 [PB Info 2022-Mar-21 09:29:48] chrUn_KI270442v1:23702 81.8 16402170 200433 [PB Info 2022-Mar-21 09:29:58] chrUn_KI270442v1:47956 82.0 16402328 200028 [PB Info 2022-Mar-21 09:30:08] chrUn_KI270442v1:321578 82.2 16404438 199648 [PB Info 2022-Mar-21 09:30:18] chrUn_KI270519v1:52786 82.3 16406748 199272 [PB Info 2022-Mar-21 09:30:28] chrUn_KI270538v1:86165 82.5 16408145 198886 [PB Info 2022-Mar-21 09:30:38] chrUn_GL000195v1:110152 82.7 16410260 198511 [PB Info 2022-Mar-21 09:30:48] chrUn_GL000219v1:38239 82.8 16410899 198119 [PB Info 2022-Mar-21 09:30:58] chrUn_GL000219v1:134282 83.0 16411771 197732 [PB Info 2022-Mar-21 09:31:08] chrUn_GL000219v1:143969 83.2 16411874 197337 [PB Info 2022-Mar-21 09:31:18] chrUn_GL000219v1:172797 83.3 16412129 196945 [PB Info 2022-Mar-21 09:31:28] chrUn_GL000220v1:138979 83.5 16413041 196563 [PB Info 2022-Mar-21 09:31:38] chrUn_KI270743v1:201520 83.7 16416647 196214 [PB Info 2022-Mar-21 09:31:48] chrUn_KI270749v1:38234 83.8 16420461 195870 [PB Info 2022-Mar-21 09:31:58] chrUn_KI270749v1:76791 84.0 16420792 195485 [PB Info 2022-Mar-21 09:32:08] chrUn_KI270753v1:43185 84.2 16423417 195129 [PB Info 2022-Mar-21 09:32:18] chrUn_KI270757v1:28757 84.3 16424541 194757 [PB Info 2022-Mar-21 09:32:28] chrUn_GL000218v1:76778 84.5 16428622 194421 [PB Info 2022-Mar-21 09:32:38] chr1_KI270765v1_alt:143924 84.7 16430780 194064 [PB Info 2022-Mar-21 09:32:48] chr4_GL000257v2_alt:273549 84.8 16438142 193769 [PB Info 2022-Mar-21 09:32:58] chrUn_KN707682v1_decoy:4158 85.0 16571311 194956 [PB Info 2022-Mar-21 09:33:08] chrUn_KN707905v1_decoy:2289 85.2 16575661 194626 [PB Info 2022-Mar-21 09:33:18] chrUn_KN707955v1_decoy:2145 85.3 16576313 194253 [PB Info 2022-Mar-21 09:33:28] chrUn_KN707957v1_decoy:9599 85.5 16576362 193875 [PB Info 2022-Mar-21 09:33:38] chrUn_KN707957v1_decoy:11448 85.7 16576384 193498 [PB Info 2022-Mar-21 09:33:48] chrUn_KN707959v1_decoy:2259 85.8 16576413 193123 [PB Info 2022-Mar-21 09:33:58] chrUn_KN707963v1_decoy:4610 86.0 16576468 192749 [PB Info 2022-Mar-21 09:34:08] chrUn_JTFH01000018v1_decoy:4780 86.2 16578558 192401 [PB Info 2022-Mar-21 09:34:18] chrUn_JTFH01000046v1_decoy:4769 86.3 16579145 192036 [PB Info 2022-Mar-21 09:34:28] chrUn_JTFH01000126v1_decoy:2998 86.5 16580420 191681 [PB Info 2022-Mar-21 09:34:38] chrUn_JTFH01000128v1_decoy:3001 86.7 16580448 191312 [PB Info 2022-Mar-21 09:34:48] chrUn_JTFH01000128v1_decoy:3001 86.8 16580448 190945 [PB Info 2022-Mar-21 09:34:58] chrUn_JTFH01000130v1_decoy:2964 87.0 16580479 190580 [PB Info 2022-Mar-21 09:35:08] chrUn_JTFH01000133v1_decoy:2879 87.2 16580526 190216 [PB Info 2022-Mar-21 09:35:18] chrUn_JTFH01000133v1_decoy:2879 87.3 16580526 189853 [PB Info 2022-Mar-21 09:35:28] chrUn_JTFH01000134v1_decoy:3079 87.5 16580550 189492 [PB Info 2022-Mar-21 09:35:38] chrUn_JTFH01000135v1_decoy:3056 87.7 16580581 189132 [PB Info 2022-Mar-21 09:35:48] chrUn_JTFH01000139v1_decoy:3001 87.8 16580626 188773 [PB Info 2022-Mar-21 09:35:58] chrUn_JTFH01000140v1_decoy:2888 88.0 16580647 188416 [PB Info 2022-Mar-21 09:36:08] chrUn_JTFH01000141v1_decoy:2962 88.2 16580671 188060 [PB Info 2022-Mar-21 09:36:18] chrUn_JTFH01000159v1_decoy:2828 88.3 16580955 187708 [PB Info 2022-Mar-21 09:36:28] chrUn_JTFH01000260v1_decoy:2289 88.5 16582067 187367 [PB Info 2022-Mar-21 09:36:38] chrUn_JTFH01000411v1_decoy:1729 88.7 16583469 187031 [PB Info 2022-Mar-21 09:36:48] chrUn_JTFH01001061v1_decoy:1486 88.8 16588145 186733 [PB Info 2022-Mar-21 09:36:58] chrUn_JTFH01001675v1_decoy:1016 89.0 16592581 186433 [PB Info 2022-Mar-21 09:37:08] chrUn_JTFH01001908v1_decoy:2405 89.2 16596982 186134 [PB Info 2022-Mar-21 09:37:18] HLA-DRB1*15:02:01:10276 89.3 16598422 185803 [PB Info 2022-Mar-21 09:37:30] Total time taken: 5372.039528 [PB Info 2022-Mar-21 09:37:30] ------------------------------------------------------------------------------ [PB Info 2022-Mar-21 09:37:30] || Program: GPU-GATK4 HaplotypeCaller || [PB Info 2022-Mar-21 09:37:30] || Version: 3.7.0-1 || [PB Info 2022-Mar-21 09:37:30] || Start Time: Mon Mar 21 08:07:30 2022 || [PB Info 2022-Mar-21 09:37:30] || End Time: Mon Mar 21 09:37:30 2022 || [PB Info 2022-Mar-21 09:37:30] || Total Time: 90 minutes 0 seconds || [PB Info 2022-Mar-21 09:37:30] ------------------------------------------------------------------------------ exit code: Done! Mon Mar 21 09:37:30 UTC 2022 end_time: 1647855450 Total time: 7h 58m 13s [1]+ Done sh germline.sh 2>&1 | tee germline.sh.log ``` - monitor: program3 - CPU [![](https://i.imgur.com/yWspv7Y.png)](https://i.imgur.com/yWspv7Y.png) > CPU 使用 8/8 - RAM ``` $ free -g; free -m total used free shared buff/cache available Mem: 30 23 0 0 7 7 Swap: 0 0 0 total used free shared buff/cache available Mem: 31653 23925 228 12 7498 7262 Swap: 0 0 0 ``` 非常吃記憶體，total 30GB 用掉 25GB ![](https://i.imgur.com/vIzEIFK.png) - monitor: program4 - CPU [![](https://i.imgur.com/iBoPk1W.png)](https://i.imgur.com/iBoPk1W.png) - nct 應該是用在某個 vCPU 之中，看上面這張圖 - 一般 1vcpu 通常最多就 2 條執行緒， 太多的執行緒可能造成過多的 context 切換，不見得有效益