BCALM 2, git commit 890ea4a
setting storage type to hdf5

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[DSK: Pass 1/1, Step 1: partitioning     ]  39   %   elapsed: 118 min 52 sec   remaining: 185 min 55 sec   cpu: 896.1 %   mem: [12924, 12924, 12924] MB 
[DSK: Pass 1/1, Step 1: partitioning     ]  40   %   elapsed: 122 min 7  sec   remaining: 183 min 10 sec   cpu: 894.6 %   mem: [12924, 12924, 12924] MB 
[DSK: Pass 1/1, Step 1: partitioning     ]  41   %   elapsed: 125 min 20 sec   remaining: 180 min 22 sec   cpu: 893.2 %   mem: [12924, 12924, 12924] MB 
[DSK: Pass 1/1, Step 1: partitioning     ]  42   %   elapsed: 128 min 34 sec   remaining: 177 min 33 sec   cpu: 891.9 %   mem: [12924, 12924, 12924] MB 
[DSK: Pass 1/1, Step 1: partitioning     ]  43   %   elapsed: 131 min 50 sec   remaining: 174 min 45 sec   cpu: 890.4 %   mem: [12924, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  43.9 %   elapsed: 135 min 20 sec   remaining: 172 min 54 sec   cpu: 885.8 %   mem: [7492, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  44   %   elapsed: 135 min 46 sec   remaining: 172 min 46 sec   cpu: 892.7 %   mem: [7682, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  45   %   elapsed: 139 min 43 sec   remaining: 170 min 43 sec   cpu: 904.7 %   mem: [5980, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  46   %   elapsed: 143 min 43 sec   remaining: 168 min 38 sec   cpu: 915.7 %   mem: [6090, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  47   %   elapsed: 147 min 52 sec   remaining: 166 min 42 sec   cpu: 924.7 %   mem: [6237, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  48   %   elapsed: 151 min 51 sec   remaining: 164 min 26 sec   cpu: 934.5 %   mem: [6290, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  49   %   elapsed: 155 min 8  sec   remaining: 161 min 25 sec   cpu: 946.3 %   mem: [6411, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  50   %   elapsed: 159 min 4  sec   remaining: 159 min 1  sec   cpu: 955.9 %   mem: [6525, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  51   %   elapsed: 162 min 8  sec   remaining: 155 min 43 sec   cpu: 968.9 %   mem: [6593, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  52   %   elapsed: 165 min 43 sec   remaining: 152 min 55 sec   cpu: 979.3 %   mem: [6719, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  53   %   elapsed: 168 min 60 sec   remaining: 149 min 47 sec   cpu: 989.8 %   mem: [6782, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  54   %   elapsed: 172 min 39 sec   remaining: 147 min 2  sec   cpu: 1001.9 %   mem: [6914, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  55   %   elapsed: 175 min 36 sec   remaining: 143 min 39 sec   cpu: 1014.7 %   mem: [7026, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  56   %   elapsed: 178 min 28 sec   remaining: 140 min 12 sec   cpu: 1027.1 %   mem: [7121, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  57   %   elapsed: 181 min 22 sec   remaining: 136 min 49 sec   cpu: 1037.3 %   mem: [7259, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  58   %   elapsed: 184 min 12 sec   remaining: 133 min 22 sec   cpu: 1048.4 %   mem: [7323, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  59   %   elapsed: 187 min 2  sec   remaining: 129 min 58 sec   cpu: 1057.8 %   mem: [7464, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  60   %   elapsed: 190 min 12 sec   remaining: 126 min 46 sec   cpu: 1065.1 %   mem: [7575, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  61   %   elapsed: 193 min 12 sec   remaining: 123 min 31 sec   cpu: 1076.5 %   mem: [7709, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  62   %   elapsed: 195 min 40 sec   remaining: 119 min 55 sec   cpu: 1088.5 %   mem: [7846, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  63   %   elapsed: 198 min 1  sec   remaining: 116 min 16 sec   cpu: 1101.3 %   mem: [7940, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  64   %   elapsed: 200 min 25 sec   remaining: 112 min 43 sec   cpu: 1112.3 %   mem: [8082, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  65   %   elapsed: 202 min 38 sec   remaining: 109 min 6  sec   cpu: 1123.1 %   mem: [8218, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  66   %   elapsed: 204 min 56 sec   remaining: 105 min 33 sec   cpu: 1132.6 %   mem: [8360, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  67   %   elapsed: 207 min 12 sec   remaining: 102 min 3  sec   cpu: 1143.2 %   mem: [8531, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  68   %   elapsed: 209 min 26 sec   remaining:  98 min 32 sec   cpu: 1156.2 %   mem: [8623, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  69   %   elapsed: 211 min 22 sec   remaining:  94 min 57 sec   cpu: 1168.7 %   mem: [8763, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  70   %   elapsed: 213 min 18 sec   remaining:  91 min 23 sec   cpu: 1178.6 %   mem: [8890, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  71   %   elapsed: 215 min 10 sec   remaining:  87 min 51 sec   cpu: 1188.4 %   mem: [9061, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  72   %   elapsed: 217 min 18 sec   remaining:  84 min 30 sec   cpu: 1199.7 %   mem: [9264, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  73   %   elapsed: 219 min 1  sec   remaining:  80 min 59 sec   cpu: 1210.5 %   mem: [9419, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  74   %   elapsed: 220 min 42 sec   remaining:  77 min 32 sec   cpu: 1220.4 %   mem: [9553, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  75   %   elapsed: 222 min 20 sec   remaining:  74 min 6  sec   cpu: 1230.2 %   mem: [9756, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  76   %   elapsed: 224 min 24 sec   remaining:  70 min 51 sec   cpu: 1241.2 %   mem: [9942, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  77   %   elapsed: 225 min 59 sec   remaining:  67 min 30 sec   cpu: 1251.4 %   mem: [10086, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  78   %   elapsed: 227 min 28 sec   remaining:  64 min 9  sec   cpu: 1260.2 %   mem: [10270, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  79   %   elapsed: 229 min 15 sec   remaining:  60 min 56 sec   cpu: 1270.7 %   mem: [10523, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  80   %   elapsed: 230 min 32 sec   remaining:  57 min 38 sec   cpu: 1280.5 %   mem: [10692, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  81   %   elapsed: 231 min 49 sec   remaining:  54 min 21 sec   cpu: 1288.1 %   mem: [10903, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  82   %   elapsed: 232 min 56 sec   remaining:  51 min 7  sec   cpu: 1296.6 %   mem: [11136, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  83   %   elapsed: 233 min 48 sec   remaining:  47 min 53 sec   cpu: 1301.7 %   mem: [11307, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  84   %   elapsed: 234 min 28 sec   remaining:  44 min 39 sec   cpu: 1304.3 %   mem: [11473, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  85   %   elapsed: 235 min 25 sec   remaining:  41 min 31 sec   cpu: 1304.6 %   mem: [11724, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  86   %   elapsed: 236 min 52 sec   remaining:  38 min 33 sec   cpu: 1302.0 %   mem: [11814, 12924, 12924] MB 
[DSK: Pass 1/1, Step 2: counting kmers   ]  87   %   elapsed: 239 min 51 sec   remaining:  35 min 50 sec   cpu: 1292.3 %   mem: [11835, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  87.8 %   elapsed: 243 min 1  sec   remaining:  33 min 43 sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
[DSK: nb solid kmers found : 749954803...]  100  %   elapsed: 243 min 1  sec   remaining:   0 min 0  sec   cpu: 1279.8 %   mem: [7122, 12924, 12924] MB 
bcalm_algo params, prefix:MS-all-SRF-5-20.00/bcalm.MS-all-SRF-5-20.00.k31.unitigs.fa k:31 a:1 minsize:10 threads:80 mintype:1
DSK used 1 passes and 15440 partitions
prior to queues allocation                      20:05:08     memory [current, maxRSS]: [7017, 12924] MB 
Starting BCALM2                                 20:05:08     memory [current, maxRSS]: [7017, 12924] MB 

[Iterating DSK partitions                ]  0    %   elapsed:   0 min 0  sec   remaining:   0 min 0  sec
Iterated 13784077 kmers, among them 1250075 were doubled

In this superbucket (containing 5 active minimizers),
                  sum of time spent in lambda's: 138783.7 msecs
                                 longest lambda: 37371.6 msecs
         tot time of best scheduling of lambdas: 138783.7 msecs
                       best theoretical speedup: 3.7x
Done with partition 0                           20:05:56     memory [current, maxRSS]: [8977, 12924] MB 

[Iterating DSK partitions                ]  1.99 %   elapsed: 255 min 34 sec   remaining: 12556 min 10 sec
[Iterating DSK partitions                ]  2.99 %   elapsed: 370 min 30 sec   remaining: 12011 min 24 sec
[Iterating DSK partitions                ]  3.99 %   elapsed: 470 min 54 sec   remaining: 11332 min 1  sec
[Iterating DSK partitions                ]  4.99 %   elapsed: 570 min 42 sec   remaining: 10873 min 2  sec
[Iterating DSK partitions                ]  5.98 %   elapsed: 662 min 19 sec   remaining: 10404 min 58 sec
[Iterating DSK partitions                ]  6.98 %   elapsed: 758 min 3  sec   remaining: 10099 min 23 sec
[Iterating DSK partitions                ]  7.98 %   elapsed: 850 min 5  sec   remaining: 9803 min 38 sec
[Iterating DSK partitions                ]  8.98 %   elapsed: 936 min 10 sec   remaining: 9492 min 40 sec
[Iterating DSK partitions                ]  9.97 %   elapsed: 1024 min 11 sec   remaining: 9244 min 13 sec
Iterated 12591004 kmers, among them 1416056 were doubled
Loaded 1235592 doubled kmers for partition 1544

In this superbucket (containing 22 active minimizers),
                  sum of time spent in lambda's: 137424.4 msecs
                                 longest lambda: 18511.6 msecs
         tot time of best scheduling of lambdas: 137424.4 msecs
                       best theoretical speedup: 7.4x
Done with partition 1544                        13:11:44     memory [current, maxRSS]: [21063, 29827] MB 

[Iterating DSK partitions                ]  11   %   elapsed: 1120 min 12 sec   remaining: 9089 min 55 sec
[Iterating DSK partitions                ]  12   %   elapsed: 1203 min 41 sec   remaining: 8853 min 0  sec
[Iterating DSK partitions                ]  13   %   elapsed: 1278 min 48 sec   remaining: 8583 min 44 sec
[Iterating DSK partitions                ]  14   %   elapsed: 1352 min 2  sec   remaining: 8330 min 26 sec
[Iterating DSK partitions                ]  15   %   elapsed: 1426 min 17 sec   remaining: 8107 min 1  sec
[Iterating DSK partitions                ]  16   %   elapsed: 1494 min 6  sec   remaining: 7868 min 17 sec
[Iterating DSK partitions                ]  17   %   elapsed: 1561 min 19 sec   remaining: 7646 min 45 sec
[Iterating DSK partitions                ]  18   %   elapsed: 1627 min 7  sec   remaining: 7435 min 56 sec
[Iterating DSK partitions                ]  19   %   elapsed: 1690 min 6  sec   remaining: 7228 min 18 sec
[Iterating DSK partitions                ]  19.9 %   elapsed: 1753 min 21 sec   remaining: 7036 min 11 sec
Iterated 11965744 kmers, among them 1436134 were doubled
Loaded 1842668 doubled kmers for partition 3088

In this superbucket (containing 42 active minimizers),
                  sum of time spent in lambda's: 128024.7 msecs
                                 longest lambda: 24062.5 msecs
         tot time of best scheduling of lambdas: 128024.7 msecs
                       best theoretical speedup: 5.3x
Done with partition 3088                        01:21:29     memory [current, maxRSS]: [21438, 29827] MB 

[Iterating DSK partitions                ]  20.9 %   elapsed: 1811 min 23 sec   remaining: 6836 min 38 sec
[Iterating DSK partitions                ]  21.9 %   elapsed: 1868 min 55 sec   remaining: 6648 min 14 sec
[Iterating DSK partitions                ]  22.9 %   elapsed: 1925 min 22 sec   remaining: 6467 min 32 sec
[Iterating DSK partitions                ]  23.9 %   elapsed: 1980 min 31 sec   remaining: 6293 min 3  sec
[Iterating DSK partitions                ]  24.9 %   elapsed: 2036 min 5  sec   remaining: 6129 min 23 sec
[Iterating DSK partitions                ]  25.9 %   elapsed: 2083 min 55 sec   remaining: 5951 min 57 sec
[Iterating DSK partitions                ]  26.9 %   elapsed: 2131 min 23 sec   remaining: 5783 min 9  sec
[Iterating DSK partitions                ]  27.9 %   elapsed: 2181 min 49 sec   remaining: 5630 min 39 sec
[Iterating DSK partitions                ]  28.9 %   elapsed: 2230 min 41 sec   remaining: 5481 min 18 sec
[Iterating DSK partitions                ]  29.9 %   elapsed: 2280 min 6  sec   remaining: 5339 min 59 sec
Iterated 14132425 kmers, among them 2144428 were doubled
Loaded 3813145 doubled kmers for partition 4632

In this superbucket (containing 246 active minimizers),
                  sum of time spent in lambda's: 169302.9 msecs
                                 longest lambda: 13756.3 msecs
         tot time of best scheduling of lambdas: 169302.9 msecs
                       best theoretical speedup: 12.3x
Done with partition 4632                        10:08:28     memory [current, maxRSS]: [21450, 29827] MB 

[Iterating DSK partitions                ]  30.9 %   elapsed: 2325 min 4  sec   remaining: 5194 min 37 sec
[Iterating DSK partitions                ]  31.9 %   elapsed: 2366 min 29 sec   remaining: 5047 min 60 sec
[Iterating DSK partitions                ]  32.9 %   elapsed: 2402 min 20 sec   remaining: 4896 min 22 sec
[Iterating DSK partitions                ]  33.9 %   elapsed: 2436 min 56 sec   remaining: 4749 min 9  sec
[Iterating DSK partitions                ]  34.9 %   elapsed: 2468 min 41 sec   remaining: 4603 min 0  sec
[Iterating DSK partitions                ]  35.9 %   elapsed: 2494 min 42 sec   remaining: 4453 min 1  sec
[Iterating DSK partitions                ]  36.9 %   elapsed: 2516 min 53 sec   remaining: 4303 min 11 sec
[Iterating DSK partitions                ]  37.9 %   elapsed: 2529 min 40 sec   remaining: 4144 min 39 sec
[Iterating DSK partitions                ]  38.9 %   elapsed: 2534 min 18 sec   remaining: 3980 min 48 sec
[Iterating DSK partitions                ]  39.9 %   elapsed: 2535 min 58 sec   remaining: 3820 min 25 sec
Iterated 38598 kmers, among them 12127 were doubled
Loaded 36756 doubled kmers for partition 6176

In this superbucket (containing 156 active minimizers),
                  sum of time spent in lambda's: 549.9 msecs
                                 longest lambda: 91.9 msecs
         tot time of best scheduling of lambdas: 549.9 msecs
                       best theoretical speedup: 6.0x
Done with partition 6176                        14:21:14     memory [current, maxRSS]: [21404, 29827] MB 

[Iterating DSK partitions                ]  40.9 %   elapsed: 2537 min 3  sec   remaining: 3666 min 56 sec
[Iterating DSK partitions                ]  41.9 %   elapsed: 2537 min 43 sec   remaining: 3520 min 9  sec
[Iterating DSK partitions                ]  42.9 %   elapsed: 2538 min 20 sec   remaining: 3380 min 6  sec
[Iterating DSK partitions                ]  43.9 %   elapsed: 2538 min 55 sec   remaining: 3246 min 20 sec
[Iterating DSK partitions                ]  44.9 %   elapsed: 2539 min 31 sec   remaining: 3118 min 31 sec
[Iterating DSK partitions                ]  45.9 %   elapsed: 2540 min 7  sec   remaining: 2996 min 13 sec
[Iterating DSK partitions                ]  46.9 %   elapsed: 2540 min 43 sec   remaining: 2879 min 6  sec
[Iterating DSK partitions                ]  47.9 %   elapsed: 2541 min 18 sec   remaining: 2766 min 49 sec
[Iterating DSK partitions                ]  48.9 %   elapsed: 2541 min 54 sec   remaining: 2659 min 8  sec
[Iterating DSK partitions                ]  49.9 %   elapsed: 2542 min 29 sec   remaining: 2555 min 41 sec
Iterated 0 kmers, among them 0 were doubled

[Iterating DSK partitions                ]  50.9 %   elapsed: 2543 min 5  sec   remaining: 2456 min 19 sec
[Iterating DSK partitions                ]  51.9 %   elapsed: 2543 min 41 sec   remaining: 2360 min 43 sec
[Iterating DSK partitions                ]  52.9 %   elapsed: 2544 min 17 sec   remaining: 2268 min 43 sec
[Iterating DSK partitions                ]  53.9 %   elapsed: 2544 min 53 sec   remaining: 2180 min 6  sec
[Iterating DSK partitions                ]  54.9 %   elapsed: 2545 min 29 sec   remaining: 2094 min 41 sec
[Iterating DSK partitions                ]  55.9 %   elapsed: 2546 min 3  sec   remaining: 2012 min 17 sec
[Iterating DSK partitions                ]  56.9 %   elapsed: 2546 min 39 sec   remaining: 1932 min 46 sec
[Iterating DSK partitions                ]  57.8 %   elapsed: 2547 min 15 sec   remaining: 1855 min 58 sec
[Iterating DSK partitions                ]  58.8 %   elapsed: 2547 min 50 sec   remaining: 1781 min 44 sec
[Iterating DSK partitions                ]  59.8 %   elapsed: 2548 min 24 sec   remaining: 1709 min 58 sec
Iterated 0 kmers, among them 0 were doubled

[Iterating DSK partitions                ]  60.8 %   elapsed: 2548 min 60 sec   remaining: 1640 min 32 sec
[Iterating DSK partitions                ]  61.8 %   elapsed: 2549 min 35 sec   remaining: 1573 min 20 sec
[Iterating DSK partitions                ]  62.8 %   elapsed: 2550 min 11 sec   remaining: 1508 min 14 sec
[Iterating DSK partitions                ]  63.8 %   elapsed: 2550 min 46 sec   remaining: 1445 min 10 sec
[Iterating DSK partitions                ]  64.8 %   elapsed: 2551 min 22 sec   remaining: 1384 min 1  sec
[Iterating DSK partitions                ]  65.8 %   elapsed: 2551 min 58 sec   remaining: 1324 min 42 sec
[Iterating DSK partitions                ]  66.8 %   elapsed: 2552 min 33 sec   remaining: 1267 min 8  sec
[Iterating DSK partitions                ]  67.8 %   elapsed: 2553 min 9  sec   remaining: 1211 min 14 sec
[Iterating DSK partitions                ]  68.8 %   elapsed: 2553 min 45 sec   remaining: 1156 min 57 sec
[Iterating DSK partitions                ]  69.8 %   elapsed: 2554 min 21 sec   remaining: 1104 min 12 sec
Iterated 0 kmers, among them 0 were doubled

[Iterating DSK partitions                ]  70.8 %   elapsed: 2554 min 57 sec   remaining: 1052 min 55 sec
[Iterating DSK partitions                ]  71.8 %   elapsed: 2555 min 32 sec   remaining: 1003 min 2  sec
[Iterating DSK partitions                ]  72.8 %   elapsed: 2556 min 8  sec   remaining: 954 min 31 sec
[Iterating DSK partitions                ]  73.8 %   elapsed: 2556 min 43 sec   remaining: 907 min 17 sec
[Iterating DSK partitions                ]  74.8 %   elapsed: 2557 min 19 sec   remaining: 861 min 18 sec
[Iterating DSK partitions                ]  75.8 %   elapsed: 2557 min 54 sec   remaining: 816 min 30 sec
[Iterating DSK partitions                ]  76.8 %   elapsed: 2558 min 30 sec   remaining: 772 min 52 sec
[Iterating DSK partitions                ]  77.8 %   elapsed: 2559 min 6  sec   remaining: 730 min 19 sec
[Iterating DSK partitions                ]  78.8 %   elapsed: 2559 min 40 sec   remaining: 688 min 50 sec
[Iterating DSK partitions                ]  79.8 %   elapsed: 2560 min 15 sec   remaining: 648 min 22 sec
Iterated 0 kmers, among them 0 were doubled

[Iterating DSK partitions                ]  80.8 %   elapsed: 2560 min 50 sec   remaining: 608 min 54 sec
[Iterating DSK partitions                ]  81.8 %   elapsed: 2561 min 25 sec   remaining: 570 min 23 sec
[Iterating DSK partitions                ]  82.8 %   elapsed: 2562 min 1  sec   remaining: 532 min 46 sec
[Iterating DSK partitions                ]  83.8 %   elapsed: 2562 min 36 sec   remaining: 496 min 2  sec
[Iterating DSK partitions                ]  84.8 %   elapsed: 2563 min 12 sec   remaining: 460 min 10 sec
[Iterating DSK partitions                ]  85.8 %   elapsed: 2563 min 47 sec   remaining: 425 min 6  sec
[Iterating DSK partitions                ]  86.8 %   elapsed: 2564 min 21 sec   remaining: 390 min 50 sec
[Iterating DSK partitions                ]  87.8 %   elapsed: 2564 min 56 sec   remaining: 357 min 20 sec
[Iterating DSK partitions                ]  88.8 %   elapsed: 2565 min 32 sec   remaining: 324 min 35 sec
[Iterating DSK partitions                ]  89.8 %   elapsed: 2566 min 7  sec   remaining: 292 min 32 sec
Iterated 0 kmers, among them 0 were doubled

[Iterating DSK partitions                ]  90.8 %   elapsed: 2566 min 42 sec   remaining: 261 min 11 sec
[Iterating DSK partitions                ]  91.8 %   elapsed: 2567 min 17 sec   remaining: 230 min 29 sec
[Iterating DSK partitions                ]  92.8 %   elapsed: 2567 min 51 sec   remaining: 200 min 27 sec
[Iterating DSK partitions                ]  93.8 %   elapsed: 2568 min 25 sec   remaining: 171 min 2  sec
[Iterating DSK partitions                ]  94.8 %   elapsed: 2569 min 1  sec   remaining: 142 min 14 sec
[Iterating DSK partitions                ]  95.8 %   elapsed: 2569 min 37 sec   remaining: 114 min 1  sec
[Iterating DSK partitions                ]  96.7 %   elapsed: 2570 min 12 sec   remaining:  86 min 22 sec
[Iterating DSK partitions                ]  97.7 %   elapsed: 2570 min 48 sec   remaining:  59 min 17 sec
[Iterating DSK partitions                ]  98.7 %   elapsed: 2571 min 23 sec   remaining:  32 min 43 sec
[Iterating DSK partitions                ]  99.7 %   elapsed: 2571 min 58 sec   remaining:   6 min 41 sec
[Iterating DSK partitions                ]  100  %   elapsed: 2572 min 7  sec   remaining:   0 min 0  sec
Number of sequences in glue: 11412278586
Number of pre-tips removed : 0
Buckets compaction and gluing           : 154327.1 secs
Within that, 
                                 creating buckets from superbuckets: 46295.8 secs
                      bucket compaction (wall-clock during threads): 107939.8 secs

                within all bucket compaction threads,
                       adding nodes to subgraphs: 237678.2 secs
         subgraphs constructions and compactions: 446204.6 secs
                  compacted nodes redistribution: 143070.9 secs
Sum of CPU times for bucket compactions: 873249.5 secs
BCALM total wallclock (excl kmer counting): 154327.8 secs
Maximum number of kmers in a subgraph: 18544385
Performance of compaction step:

                 Wallclock time spent in parallel section : 107939.8 secs
             Best theoretical speedup in parallel section : 7.8x
Best theor. speedup in parallel section using 1 threads : 1.0x
             Sum of longest bucket compaction for each sb : 106156.7 secs
                       Sum of best scheduling for each sb : 826954.6 secs
Done with all compactions                       14:57:16     memory [current, maxRSS]: [18077, 29827] MB 
bglue_algo params, prefix:MS-all-SRF-5-20.00/bcalm.MS-all-SRF-5-20.00.k31.unitigs.fa k:31 threads:80
Starting bglue with 80 threads                  14:57:16     memory [current, maxRSS]: [14377, 29827] MB 
number of sequences to be glued: 11412278586        14:57:19     memory [current, maxRSS]: [14377, 29827] MB 
5703276638 marked kmers, 5714463836 unmarked kmers        16:25:40     memory [current, maxRSS]: [58021, 58022] MB 
created vector of hashes, size approx 43512 MB)        16:25:40     memory [current, maxRSS]: [58021, 58022] MB 
pass 1/3, 2851638319 unique hashes written to disk, size 21756 MB        18:31:07     memory [current, maxRSS]: [14377, 58022] MB 
5703453228 marked kmers, 5714463836 unmarked kmers        19:57:54     memory [current, maxRSS]: [58012, 58022] MB 
created vector of hashes, size approx 43513 MB)        19:57:54     memory [current, maxRSS]: [58012, 58022] MB 
pass 2/3, 2851726614 unique hashes written to disk, size 21756 MB        22:03:11     memory [current, maxRSS]: [14381, 58022] MB 
5703363470 marked kmers, 5714463836 unmarked kmers        23:29:52     memory [current, maxRSS]: [58031, 58032] MB 
created vector of hashes, size approx 43513 MB)        23:29:52     memory [current, maxRSS]: [58031, 58032] MB 
pass 3/3, 2851681735 unique hashes written to disk, size 21756 MB        01:35:14     memory [current, maxRSS]: [14381, 58034] MB 
loaded all unique UF elements (8555046668) into a single vector of size 65269 MB        01:38:53     memory [current, maxRSS]: [79651, 79651] MB 

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[Building BooPHF]  100  %   elapsed:  13 min 45 sec   remaining:   0 min 0  sec
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Bitarray     40295928000  bits (100.00 %)   (array + ranks )
final hash             0  bits (0.00 %) (nb in final hash 0)
UF MPHF constructed (4803 MB)                   01:52:39     memory [current, maxRSS]: [19184, 88111] MB 
cannot create a union-find data structure, too many elements. This should in fact not even happen. Please contact a BCALM developer