RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab.
Developed by: Alexey M. Kozlov and Alexandros Stamatakis.
Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth.
Latest version: https://github.com/amkozlov/raxml-ng
Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml

System: Intel(R) Xeon(R) Gold 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM

RAxML-NG was called at 16-Jul-2021 23:43:27 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/2_msa/P19075_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/3_mltree/P19075 --seed 2 --threads 4 --tree rand{20} pars{20}

Analysis options:
  run mode: ML tree search
  start tree(s): random (20)
  random seed: 2
  tip-inner: OFF
  pattern compression: ON
  per-rate scalers: OFF
  site repeats: ON
  fast spr radius: AUTO
  spr subtree cutoff: 1.000000
  branch lengths: proportional (ML estimate, algorithm: NR-FAST)
  SIMD kernels: AVX2
  parallelization: coarse-grained (auto), PTHREADS (4 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/2_msa/P19075_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 184 sites

WARNING: Sequences sp_Q9DCK3_TSN4_MOUSE_10090 and tr_Q5BK80_Q5BK80_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q9DCK3_TSN4_MOUSE_10090 and tr_A0A3Q0CRK7_A0A3Q0CRK7_MESAU_10036 are exactly identical!
WARNING: Sequences tr_M3YD91_M3YD91_MUSPF_9669 and tr_E2R806_E2R806_CANLF_9615 are exactly identical!
WARNING: Sequences tr_M3YD91_M3YD91_MUSPF_9669 and tr_A0A2Y9KY28_A0A2Y9KY28_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_A0A2I2YK35_A0A2I2YK35_GORGO_9595 and sp_O75954_TSN9_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I2YK35_A0A2I2YK35_GORGO_9595 and tr_A0A1D5R977_A0A1D5R977_MACMU_9544 are exactly identical!
WARNING: Sequences tr_A0A2I2YK35_A0A2I2YK35_GORGO_9595 and tr_A0A2I3N2J3_A0A2I3N2J3_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A2I2YK35_A0A2I2YK35_GORGO_9595 and tr_A0A0D9RFQ2_A0A0D9RFQ2_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A2I2YK35_A0A2I2YK35_GORGO_9595 and tr_A0A2K5MS14_A0A2K5MS14_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I2YK35_A0A2I2YK35_GORGO_9595 and tr_A0A2K6CDY1_A0A2K6CDY1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G3QRU1_G3QRU1_GORGO_9595 and tr_H2PZM7_H2PZM7_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3QRU1_G3QRU1_GORGO_9595 and sp_P19397_CD53_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3QRU1_G3QRU1_GORGO_9595 and tr_A0A2K5YF89_A0A2K5YF89_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G3QRU1_G3QRU1_GORGO_9595 and tr_A0A2R9BVP1_A0A2R9BVP1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3S6W5_G3S6W5_GORGO_9595 and tr_H2NCC9_H2NCC9_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G3S6W5_G3S6W5_GORGO_9595 and tr_A0A2I3RNF5_A0A2I3RNF5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3S6W5_G3S6W5_GORGO_9595 and sp_O14817_TSN4_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3S6W5_G3S6W5_GORGO_9595 and tr_A0A0D9RDQ6_A0A0D9RDQ6_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G3S6W5_G3S6W5_GORGO_9595 and tr_A0A2K5P0S5_A0A2K5P0S5_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G3S6W5_G3S6W5_GORGO_9595 and tr_A0A2R9B5Q1_A0A2R9B5Q1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2I3RIG1_A0A2I3RIG1_PANTR_9598 and tr_A0A2R9AZD6_A0A2R9AZD6_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A2J8K4G8_A0A2J8K4G8_PANTR_9598 and tr_A0A2R9A5W4_A0A2R9A5W4_PANPA_9597 are exactly identical!
WARNING: Sequences sp_P60034_CD81_PANTR_9598 and sp_P60033_CD81_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_P21926_CD9_HUMAN_9606 and tr_A0A2R9A6U5_A0A2R9A6U5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A0H5SJC0_A0A0H5SJC0_BRUMA_6279 and tr_A0A0N4TK91_A0A0N4TK91_BRUPA_6280 are exactly identical!
WARNING: Sequences tr_A0A1D5QSZ8_A0A1D5QSZ8_MACMU_9544 and tr_G7PQC8_G7PQC8_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7BM98_F7BM98_MACMU_9544 and tr_A0A2K6ED30_A0A2K6ED30_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G7N6M8_G7N6M8_MACMU_9544 and tr_G7PHJ9_G7PHJ9_MACFA_9541 are exactly identical!
WARNING: Sequences tr_G7N6M8_G7N6M8_MACMU_9544 and tr_A0A096NGJ5_A0A096NGJ5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G7N6M8_G7N6M8_MACMU_9544 and tr_A0A2K6E7P1_A0A2K6E7P1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_H9H2Y0_H9H2Y0_MACMU_9544 and tr_A0A2K6CRY1_A0A2K6CRY1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_H0ZG52_H0ZG52_TAEGU_59729 and tr_A0A218USR3_A0A218USR3_9PASE_299123 are exactly identical!
WARNING: Sequences tr_H0ZSG4_H0ZSG4_TAEGU_59729 and tr_A0A218VDD3_A0A218VDD3_9PASE_299123 are exactly identical!
WARNING: Sequences tr_A0A1B8XUI7_A0A1B8XUI7_XENTR_8364 and tr_B3DL95_B3DL95_XENTR_8364 are exactly identical!
WARNING: Sequences tr_M3W6S9_M3W6S9_FELCA_9685 and tr_A0A2Y9JMD1_A0A2Y9JMD1_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_A0A096N491_A0A096N491_PAPAN_9555 and tr_A0A0D9S6H0_A0A0D9S6H0_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_A0A096N491_A0A096N491_PAPAN_9555 and tr_A0A2K5LKT9_A0A2K5LKT9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_A0A2I3N3B9_A0A2I3N3B9_PAPAN_9555 and tr_A0A2K6APU1_A0A2K6APU1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A2I3N3B9_A0A2I3N3B9_PAPAN_9555 and tr_A0A2K5ZG73_A0A2K5ZG73_MANLE_9568 are exactly identical!
WARNING: Sequences tr_A0A151NLE2_A0A151NLE2_ALLMI_8496 and tr_A0A1U8D5Q0_A0A1U8D5Q0_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A151P6N4_A0A151P6N4_ALLMI_8496 and tr_A0A1U7S404_A0A1U7S404_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A087QNH8_A0A087QNH8_APTFO_9233 and tr_A0A091WDX2_A0A091WDX2_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_A0A2I0MHJ5_A0A2I0MHJ5_COLLI_8932 and tr_A0A1V4JNK0_A0A1V4JNK0_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A0V0RTR0_A0A0V0RTR0_9BILA_6336 and tr_A0A0V1AD99_A0A0V1AD99_9BILA_990121 are exactly identical!
WARNING: Sequences tr_A0A0V0RTR0_A0A0V0RTR0_9BILA_6336 and tr_A0A0V0TWP7_A0A0V0TWP7_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V1D7N0_A0A0V1D7N0_TRIBR_45882 and tr_A0A0V1LDL0_A0A0V1LDL0_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1D7N0_A0A0V1D7N0_TRIBR_45882 and tr_A0A0V1P522_A0A0V1P522_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1LNJ5_A0A0V1LNJ5_9BILA_6335 and tr_A0A0V1NRR1_A0A0V1NRR1_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V0YLV0_A0A0V0YLV0_TRIPS_6337 and tr_A0A0V1HQA1_A0A0V1HQA1_9BILA_268475 are exactly identical!
WARNING: Sequences tr_A0A151J2X1_A0A151J2X1_9HYME_471704 and tr_A0A151HYS5_A0A151HYS5_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A1S3N0H4_A0A1S3N0H4_SALSA_8030 and sp_B5X3I6_TSN9_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A226N7J4_A0A226N7J4_CALSU_9009 and tr_A0A226P2R8_A0A226P2R8_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2D0QT71_A0A2D0QT71_ICTPU_7998 and tr_A0A2D0QV65_A0A2D0QV65_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0T2K2_A0A2D0T2K2_ICTPU_7998 and tr_E3TF54_E3TF54_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_B6E459_B6E459_ICTPU_7998 and tr_E3TGE7_E3TGE7_ICTPU_7998 are exactly identical!
WARNING: Duplicate sequences found: 55

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/3_mltree/P19075.raxml.reduced.phy

Alignment comprises 1 partitions and 184 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 184 / 184
Gaps: 3.45 %
Invariant sites: 0.54 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/3_mltree/P19075.raxml.rba

Parallelization scheme autoconfig: 4 worker(s) x 1 thread(s)

Parallel reduction/worker buffer size: 1 KB  / 0 KB

[00:00:00] Generating 20 random starting tree(s) with 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 184 / 14720
[00:00:00] Data distribution: max. searches per worker: 5

Starting ML tree search with 20 distinct starting trees

[00:00:00 -361129.644384] Initial branch length optimization
[00:00:06 -301459.344872] Model parameter optimization (eps = 10.000000)
[00:00:56 -300185.558072] AUTODETECT spr round 1 (radius: 5)
[00:04:03 -214547.875231] AUTODETECT spr round 2 (radius: 10)
[00:07:18 -160109.998424] AUTODETECT spr round 3 (radius: 15)
[00:10:51 -136381.942172] AUTODETECT spr round 4 (radius: 20)
[00:15:22 -126567.787026] AUTODETECT spr round 5 (radius: 25)
[00:20:23 -120534.491305] SPR radius for FAST iterations: 25 (autodetect)
[00:20:23 -120534.491305] Model parameter optimization (eps = 3.000000)
[00:20:51 -120244.578613] FAST spr round 1 (radius: 25)
[00:24:46 -103631.282435] FAST spr round 2 (radius: 25)
[00:27:40 -102862.395296] FAST spr round 3 (radius: 25)
[00:30:10 -102792.087650] FAST spr round 4 (radius: 25)
[00:32:28 -102775.937599] FAST spr round 5 (radius: 25)
[00:34:39 -102772.091742] FAST spr round 6 (radius: 25)
[00:36:46 -102772.090900] Model parameter optimization (eps = 1.000000)
[00:37:03 -102766.170589] SLOW spr round 1 (radius: 5)
[00:39:57 -102735.296412] SLOW spr round 2 (radius: 5)
[00:42:50 -102722.200793] SLOW spr round 3 (radius: 5)
[00:45:36 -102719.446192] SLOW spr round 4 (radius: 5)
[00:48:13 -102719.445858] SLOW spr round 5 (radius: 10)
[00:50:51 -102719.445852] SLOW spr round 6 (radius: 15)
[00:55:45 -102714.646460] SLOW spr round 7 (radius: 5)
[00:59:17 -102714.342237] SLOW spr round 8 (radius: 5)
[01:02:22 -102714.342139] SLOW spr round 9 (radius: 10)
[01:05:08 -102714.342134] SLOW spr round 10 (radius: 15)
[01:09:40 -102713.738891] SLOW spr round 11 (radius: 5)
[01:13:11 -102713.738696] SLOW spr round 12 (radius: 10)
[01:16:15 -102713.738688] SLOW spr round 13 (radius: 15)
[01:20:23] [worker #1] ML tree search #2, logLikelihood: -102724.360443
[01:20:35 -102713.738683] SLOW spr round 14 (radius: 20)
[01:22:21] [worker #2] ML tree search #3, logLikelihood: -102712.562011
[01:29:07 -102713.738679] SLOW spr round 15 (radius: 25)
[01:37:43] [worker #3] ML tree search #4, logLikelihood: -102724.342246
[01:39:50 -102713.738675] Model parameter optimization (eps = 0.100000)

[01:39:57] [worker #0] ML tree search #1, logLikelihood: -102713.706849

[01:39:57 -362927.331569] Initial branch length optimization
[01:40:03 -303386.214203] Model parameter optimization (eps = 10.000000)
[01:41:02 -302134.558685] AUTODETECT spr round 1 (radius: 5)
[01:44:06 -211522.016591] AUTODETECT spr round 2 (radius: 10)
[01:47:23 -157151.234512] AUTODETECT spr round 3 (radius: 15)
[01:50:55 -134261.619391] AUTODETECT spr round 4 (radius: 20)
[01:55:36 -120156.377662] AUTODETECT spr round 5 (radius: 25)
[02:01:41 -118441.956389] SPR radius for FAST iterations: 25 (autodetect)
[02:01:41 -118441.956389] Model parameter optimization (eps = 3.000000)
[02:02:13 -118013.970591] FAST spr round 1 (radius: 25)
[02:06:04 -103426.501144] FAST spr round 2 (radius: 25)
[02:08:50 -102844.544202] FAST spr round 3 (radius: 25)
[02:11:16 -102776.199507] FAST spr round 4 (radius: 25)
[02:13:32 -102765.328320] FAST spr round 5 (radius: 25)
[02:15:43 -102755.186877] FAST spr round 6 (radius: 25)
[02:17:46 -102755.185051] Model parameter optimization (eps = 1.000000)
[02:18:04 -102753.250042] SLOW spr round 1 (radius: 5)
[02:20:56 -102733.777018] SLOW spr round 2 (radius: 5)
[02:23:43 -102731.971558] SLOW spr round 3 (radius: 5)
[02:26:28 -102731.971291] SLOW spr round 4 (radius: 10)
[02:29:13 -102728.246013] SLOW spr round 5 (radius: 5)
[02:32:42 -102723.550929] SLOW spr round 6 (radius: 5)
[02:35:45 -102723.550557] SLOW spr round 7 (radius: 10)
[02:38:33 -102723.550551] SLOW spr round 8 (radius: 15)
[02:43:08 -102723.550545] SLOW spr round 9 (radius: 20)
[02:49:32] [worker #1] ML tree search #6, logLikelihood: -102702.323704
[02:51:23 -102723.550539] SLOW spr round 10 (radius: 25)
[03:02:24 -102723.550533] Model parameter optimization (eps = 0.100000)

[03:02:35] [worker #0] ML tree search #5, logLikelihood: -102723.241758

[03:02:35 -361091.120478] Initial branch length optimization
[03:02:40 -302229.852990] Model parameter optimization (eps = 10.000000)
[03:03:32 -301085.857143] AUTODETECT spr round 1 (radius: 5)
[03:06:32 -214476.032490] AUTODETECT spr round 2 (radius: 10)
[03:09:52 -156711.081274] AUTODETECT spr round 3 (radius: 15)
[03:13:06] [worker #3] ML tree search #8, logLikelihood: -102747.440779
[03:13:40 -127494.857905] AUTODETECT spr round 4 (radius: 20)
[03:17:22] [worker #2] ML tree search #7, logLikelihood: -102721.965880
[03:18:58 -116853.747482] AUTODETECT spr round 5 (radius: 25)
[03:24:02 -115188.383395] SPR radius for FAST iterations: 25 (autodetect)
[03:24:02 -115188.383395] Model parameter optimization (eps = 3.000000)
[03:24:30 -114678.218744] FAST spr round 1 (radius: 25)
[03:28:14 -103282.969828] FAST spr round 2 (radius: 25)
[03:30:48 -102849.362224] FAST spr round 3 (radius: 25)
[03:33:12 -102810.144284] FAST spr round 4 (radius: 25)
[03:35:22 -102804.139433] FAST spr round 5 (radius: 25)
[03:37:28 -102804.139377] Model parameter optimization (eps = 1.000000)
[03:37:46 -102792.945602] SLOW spr round 1 (radius: 5)
[03:40:40 -102762.531290] SLOW spr round 2 (radius: 5)
[03:43:28 -102748.423739] SLOW spr round 3 (radius: 5)
[03:46:08 -102748.362167] SLOW spr round 4 (radius: 10)
[03:48:51 -102745.499781] SLOW spr round 5 (radius: 5)
[03:52:13 -102745.499770] SLOW spr round 6 (radius: 10)
[03:55:12 -102745.499761] SLOW spr round 7 (radius: 15)
[03:59:41 -102745.499751] SLOW spr round 8 (radius: 20)
[04:08:44 -102745.499742] SLOW spr round 9 (radius: 25)
[04:19:32 -102745.499732] Model parameter optimization (eps = 0.100000)

[04:19:41] [worker #0] ML tree search #9, logLikelihood: -102745.383045

[04:19:41 -360951.551873] Initial branch length optimization
[04:19:46 -302178.955467] Model parameter optimization (eps = 10.000000)
[04:20:32 -301079.992441] AUTODETECT spr round 1 (radius: 5)
[04:20:41] [worker #1] ML tree search #10, logLikelihood: -102714.092862
[04:23:37 -208903.507766] AUTODETECT spr round 2 (radius: 10)
[04:25:26] [worker #2] ML tree search #11, logLikelihood: -102752.332245
[04:26:50 -161717.557387] AUTODETECT spr round 3 (radius: 15)
[04:30:29 -139111.008427] AUTODETECT spr round 4 (radius: 20)
[04:35:28 -126623.044151] AUTODETECT spr round 5 (radius: 25)
[04:35:28] [worker #3] ML tree search #12, logLikelihood: -102718.686024
[04:41:26 -122042.782964] SPR radius for FAST iterations: 25 (autodetect)
[04:41:26 -122042.782964] Model parameter optimization (eps = 3.000000)
[04:41:34 -122041.099340] FAST spr round 1 (radius: 25)
[04:45:33 -104046.928888] FAST spr round 2 (radius: 25)
[04:48:12 -103117.698336] FAST spr round 3 (radius: 25)
[04:50:34 -103023.935453] FAST spr round 4 (radius: 25)
[04:52:47 -103013.660994] FAST spr round 5 (radius: 25)
[04:54:56 -103010.404294] FAST spr round 6 (radius: 25)
[04:57:02 -103006.024226] FAST spr round 7 (radius: 25)
[04:59:06 -103006.024160] Model parameter optimization (eps = 1.000000)
[04:59:15 -103004.768599] SLOW spr round 1 (radius: 5)
[05:02:04 -102984.866248] SLOW spr round 2 (radius: 5)
[05:04:50 -102978.276843] SLOW spr round 3 (radius: 5)
[05:07:33 -102977.743421] SLOW spr round 4 (radius: 5)
[05:10:10 -102977.743279] SLOW spr round 5 (radius: 10)
[05:12:50 -102974.425676] SLOW spr round 6 (radius: 5)
[05:16:13 -102973.764120] SLOW spr round 7 (radius: 5)
[05:19:11 -102973.764063] SLOW spr round 8 (radius: 10)
[05:21:53 -102973.764060] SLOW spr round 9 (radius: 15)
[05:26:24 -102973.764058] SLOW spr round 10 (radius: 20)
[05:34:16 -102973.764056] SLOW spr round 11 (radius: 25)
[05:44:27 -102973.764054] Model parameter optimization (eps = 0.100000)

[05:44:32] [worker #0] ML tree search #13, logLikelihood: -102973.747868

[05:44:32 -361583.672582] Initial branch length optimization
[05:44:38 -301672.403235] Model parameter optimization (eps = 10.000000)
[05:44:43] [worker #1] ML tree search #14, logLikelihood: -102713.022547
[05:45:27 -300443.811520] AUTODETECT spr round 1 (radius: 5)
[05:48:33 -212059.228485] AUTODETECT spr round 2 (radius: 10)
[05:51:50 -158278.187736] AUTODETECT spr round 3 (radius: 15)
[05:52:06] [worker #3] ML tree search #16, logLikelihood: -102708.454682
[05:55:31 -129519.054903] AUTODETECT spr round 4 (radius: 20)
[05:59:49 -122429.607771] AUTODETECT spr round 5 (radius: 25)
[06:00:57] [worker #2] ML tree search #15, logLikelihood: -102704.126787
[06:05:29 -118633.868225] SPR radius for FAST iterations: 25 (autodetect)
[06:05:29 -118633.868225] Model parameter optimization (eps = 3.000000)
[06:06:01 -118349.816769] FAST spr round 1 (radius: 25)
[06:09:46 -103666.264646] FAST spr round 2 (radius: 25)
[06:12:37 -102876.681051] FAST spr round 3 (radius: 25)
[06:15:09 -102777.841348] FAST spr round 4 (radius: 25)
[06:17:26 -102766.621981] FAST spr round 5 (radius: 25)
[06:19:33 -102766.621876] Model parameter optimization (eps = 1.000000)
[06:19:46 -102763.906808] SLOW spr round 1 (radius: 5)
[06:22:43 -102745.071338] SLOW spr round 2 (radius: 5)
[06:25:31 -102743.693286] SLOW spr round 3 (radius: 5)
[06:28:14 -102742.980266] SLOW spr round 4 (radius: 5)
[06:30:54 -102742.813963] SLOW spr round 5 (radius: 5)
[06:33:31 -102742.813952] SLOW spr round 6 (radius: 10)
[06:36:15 -102737.556689] SLOW spr round 7 (radius: 5)
[06:39:41 -102737.546013] SLOW spr round 8 (radius: 10)
[06:42:38 -102737.545868] SLOW spr round 9 (radius: 15)
[06:46:50 -102736.570648] SLOW spr round 10 (radius: 5)
[06:50:24 -102736.570498] SLOW spr round 11 (radius: 10)
[06:53:30 -102736.152806] SLOW spr round 12 (radius: 5)
[06:56:46 -102736.152795] SLOW spr round 13 (radius: 10)
[06:59:40 -102736.152785] SLOW spr round 14 (radius: 15)
[07:03:52 -102735.205878] SLOW spr round 15 (radius: 5)
[07:07:25 -102735.205869] SLOW spr round 16 (radius: 10)
[07:09:59] [worker #1] ML tree search #18, logLikelihood: -102707.498779
[07:10:30 -102735.205860] SLOW spr round 17 (radius: 15)
[07:12:18] [worker #3] ML tree search #20, logLikelihood: -102716.869069
[07:14:37 -102735.205851] SLOW spr round 18 (radius: 20)
[07:22:19 -102735.205842] SLOW spr round 19 (radius: 25)
[07:26:05] [worker #2] ML tree search #19, logLikelihood: -102710.223459
[07:32:08 -102735.205833] Model parameter optimization (eps = 0.100000)

[07:32:20] [worker #0] ML tree search #17, logLikelihood: -102734.979475


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.211706,0.578650) (0.314372,0.651098) (0.294455,0.958589) (0.179467,2.176157) 
   Base frequencies (model): 
M0: 0.147383 0.017579 0.058208 0.017707 0.026331 0.041582 0.017494 0.027859 0.011849 0.076971 0.147823 0.019535 0.037132 0.029940 0.008059 0.088179 0.089653 0.006477 0.032308 0.097931 
M1: 0.063139 0.066357 0.011586 0.066571 0.010800 0.009276 0.053984 0.146986 0.034214 0.088822 0.098196 0.032390 0.021263 0.072697 0.016761 0.020711 0.020797 0.025463 0.045615 0.094372 
M2: 0.062457 0.066826 0.049332 0.065270 0.006513 0.041231 0.058965 0.080852 0.028024 0.037024 0.075925 0.064131 0.019620 0.028710 0.104579 0.056388 0.062027 0.008241 0.033124 0.050760 
M3: 0.106471 0.074171 0.044513 0.096390 0.002148 0.066733 0.158908 0.037625 0.020691 0.014608 0.028797 0.105352 0.007864 0.007477 0.083595 0.055726 0.047711 0.003975 0.010088 0.027159 
   Substitution rates (model): 
M 0: 0.295719 0.067388 0.253712 1.029289 0.107964 0.514644 10.868848 0.380498 0.084223 0.086976 0.188789 0.286389 0.155567 1.671061 2.132922 0.529591 0.115551 0.102453 0.916683 0.448317 0.457483 0.576016 1.741924 0.736017 0.704334 5.658311 0.123387 0.221777 93.433377 0.382175 0.235965 6.535048 0.525521 0.303537 0.641259 0.289466 0.102065 2.358429 0.251987 0.216561 0.503084 0.435271 4.873453 0.090748 0.033310 0.746537 0.128905 0.127321 0.904011 0.939733 0.435450 0.046646 0.262076 0.043986 0.189008 0.599450 109.901504 1.070052 5.229858 0.052764 0.021407 0.621146 0.081091 0.205164 5.164456 0.747330 0.308078 0.260889 0.185083 0.080708 0.029955 0.084794 1.862626 0.553477 0.151733 0.230320 0.096955 0.352526 0.590018 0.386853 1.559564 0.606648 0.587531 0.592318 0.885230 4.117654 0.246260 6.508329 0.054187 0.195703 1.669092 0.810168 0.066081 2.437439 0.165666 0.106333 0.093417 0.035149 0.072549 1.202023 1.634845 0.060194 0.069359 2.448827 0.232297 0.064822 3.537387 0.435384 0.290413 0.280695 0.105999 0.206603 0.404968 0.048984 0.069963 0.256662 0.228519 0.241077 4.320442 3.656545 0.290216 0.307466 0.096556 0.306067 0.204296 0.504221 1.991533 0.655465 6.799829 11.291065 0.961142 0.448965 6.227274 20.304886 0.205944 1.495537 0.091940 1.994320 0.754940 0.170343 0.050315 0.372166 0.206332 0.097050 5.381403 0.122332 3.256485 2.261319 0.848067 0.064441 0.102493 0.459041 0.133091 0.561215 0.457430 0.163849 5.260446 0.360946 0.389413 0.033291 0.115301 0.112593 1.559944 0.426508 0.132547 0.498634 0.559069 0.264728 0.693307 0.438856 0.306683 0.109129 18.392863 66.647302 0.400021 4.586081 2.099355 0.411347 0.476350 0.584622 3.634276 0.101797 0.148995 0.089177 0.034710 0.063603 0.755865 20.561407 0.133790 0.154902 
M 1: 0.066142 0.590377 0.069930 9.850951 1.101363 0.150375 0.568586 0.051668 0.127170 0.292429 0.071458 1.218562 0.075144 7.169085 30.139501 13.461692 0.021372 0.045779 4.270235 0.468325 0.013688 0.302287 1.353957 0.028386 0.037750 0.262130 0.016923 0.064289 0.855973 0.079621 0.011169 0.161937 0.276530 0.161053 0.081472 0.036742 0.030342 2.851667 3.932151 8.159169 0.219934 0.421974 2.468752 0.344765 0.210724 1.172204 0.763553 0.082464 0.726566 11.149790 4.782635 0.058046 0.498072 0.258487 0.146882 0.249672 0.560142 0.046719 0.106259 0.003656 0.004200 0.014189 0.009876 0.002656 0.040244 0.267322 0.053740 0.006597 0.027639 0.012745 0.582670 0.005035 0.275844 0.098208 0.445038 1.217010 0.033969 1.988516 0.681161 0.825960 18.762977 11.949233 0.286794 0.534219 4.336817 3.054085 0.129551 4.210126 0.165753 1.088704 1.889645 3.344809 0.111063 2.067758 3.547017 2.466507 0.188236 0.203493 0.281953 0.037250 0.029788 0.008541 0.014768 0.125869 0.056702 0.004186 0.110993 0.201148 0.139705 0.009201 0.012095 0.043812 0.013513 0.002533 0.005848 0.031390 0.021612 0.004854 0.129497 0.976631 0.053397 0.019475 0.004964 0.015539 0.031779 0.064558 0.065585 0.079927 0.095591 0.196886 0.408834 0.126088 0.037226 0.452302 0.016212 7.278994 0.029917 7.918203 0.450964 0.169797 0.104288 1.578530 0.015909 0.094365 16.179952 0.042762 14.799537 1.506485 0.637893 0.123793 0.641351 0.154810 0.140750 3.416059 0.259400 0.009457 0.090576 0.292108 0.297913 0.017172 0.021976 0.032578 1.375871 0.457399 0.598048 4.418398 0.239749 0.168432 2.950318 0.143327 0.328689 0.125011 0.562720 1.414883 0.227807 3.478333 2.984862 0.061299 0.077470 1.050562 13.974326 0.154326 0.224675 0.112000 0.060703 0.123480 5.294490 0.447011 0.033381 0.045528 
M 2: 0.733336 0.558955 0.503360 4.149599 1.415369 1.367574 1.263002 0.994098 0.517204 0.775054 0.763094 1.890137 0.540460 0.200122 4.972745 1.825593 0.450842 0.526135 3.839269 0.597671 0.058964 2.863355 2.872594 0.258365 0.366868 2.578946 0.358350 0.672023 5.349861 0.691594 0.063347 0.032875 0.821562 0.580847 0.661866 0.265730 0.395134 5.581680 1.279881 1.335650 0.397108 1.840061 5.739035 0.284730 0.109781 1.612642 0.466979 0.141582 0.019509 4.670980 1.967383 0.088064 0.581928 0.145401 0.225860 0.434096 2.292917 1.024707 0.821921 0.027824 0.021443 0.088850 0.060820 0.018288 0.042687 1.199607 0.420710 0.037642 0.141233 0.090101 1.043232 0.209978 0.823594 3.039380 1.463390 1.983693 0.397640 2.831098 4.102068 0.059723 5.901348 2.034980 2.600668 5.413080 4.193725 4.534772 0.377181 4.877840 0.370939 1.298542 3.509873 2.646440 0.087872 0.072299 1.139018 0.864479 0.390688 0.322761 0.625409 0.496780 0.532488 0.232460 0.169219 0.755219 0.379926 0.020447 0.023282 0.503875 0.577513 0.109318 0.153776 0.696533 0.398817 0.008940 0.043707 0.436013 0.087640 0.064863 0.036426 1.673207 0.124068 0.218118 0.039217 0.104335 0.349195 0.838324 0.888693 0.488389 1.385133 0.050226 0.962470 0.502294 1.065585 8.351808 0.377304 5.102837 0.561690 7.010411 3.054968 0.039318 0.204155 2.653232 0.564368 0.854294 15.559906 0.401070 8.929538 5.525874 0.067505 0.273372 0.437116 1.927515 0.940458 2.508169 1.357738 0.043394 0.023126 0.567639 1.048288 0.120994 0.180650 0.449074 3.135353 0.012695 0.570771 2.319555 1.856122 0.975427 3.404087 0.015631 0.458799 0.151684 4.154750 11.429924 1.457957 0.233109 0.077004 0.011074 0.026268 0.052132 8.113282 0.377578 0.429221 0.260296 0.222293 0.273138 2.903836 4.731579 0.564762 0.681215 
M 3: 0.658412 0.566269 0.854111 0.884454 1.309554 1.272639 1.874713 0.552007 0.227683 0.581512 0.695190 0.967985 0.344015 0.978992 3.427163 2.333253 0.154701 0.221089 2.088785 0.540749 0.058015 5.851132 2.294145 0.182966 0.684164 3.192521 0.528161 1.128882 3.010922 1.012866 0.227296 0.156635 0.878405 0.802754 0.830884 0.431617 0.456530 3.060574 1.279257 1.438430 0.431464 2.075952 4.840271 0.644656 0.266076 2.084975 0.720060 0.291854 0.028961 4.071574 2.258357 0.073037 1.238426 0.199728 0.160296 0.482619 2.992763 1.296206 0.841829 0.031467 0.048542 0.132774 0.133055 0.056045 0.209188 0.925172 0.360522 0.094591 0.313945 0.118104 0.992259 0.086318 2.149634 5.103188 3.775817 3.954021 0.190734 1.776095 4.495841 0.264277 7.063879 2.221150 3.017954 8.558815 4.310199 2.130054 0.571406 4.137385 0.437589 2.071689 2.498630 1.763546 0.116381 0.296578 1.033710 1.283423 0.312579 0.305772 0.681277 0.507160 0.351381 0.189152 0.217780 0.767361 0.278392 0.092075 0.177263 0.451893 0.653836 0.074620 0.181992 0.752277 0.679853 0.025780 0.082005 0.326441 0.343977 0.195877 0.217424 3.057583 0.377558 0.401252 0.072258 0.241015 0.665865 1.266791 0.680174 0.717301 4.001286 0.362942 1.189259 0.964545 1.350568 12.869737 0.531100 8.904999 0.652629 10.091413 2.671718 0.086367 0.359932 4.797423 0.336801 1.021885 23.029406 0.440178 14.013035 5.069337 0.539010 0.742569 0.780580 1.331875 1.531589 4.414850 1.082703 0.091278 0.172734 0.693405 1.422571 0.068958 0.163829 0.481711 4.643214 0.121821 0.584083 4.216178 1.677263 1.575754 5.046403 0.161015 1.531223 0.599244 5.832025 33.873091 1.914768 1.287474 0.444362 0.076328 0.079916 0.466823 5.231362 0.548763 0.831890 0.382271 0.208791 0.307846 3.717971 5.910440 0.282540 0.964421 


Final LogLikelihood: -102702.323704

AIC score: 209414.647408 / AICc score: 8253474.647408 / BIC score: 215860.593602
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=184).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/3_mltree/P19075.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/3_mltree/P19075.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/3_mltree/P19075.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P19075/3_mltree/P19075.raxml.log

Analysis started: 16-Jul-2021 23:43:27 / finished: 17-Jul-2021 07:15:48

Elapsed time: 27141.033 seconds