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michaelbarton/log.txt

Created March 3, 2015 00:33
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log.txt
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++ mktemp -d
+ TMP_DIR=/tmp/tmp.5CiDif8NjP
+ cd /tmp/tmp.5CiDif8NjP
+ PROC=default
++ cut -f 2 -d :
++ egrep '^default:' /Procfile
+ CMD=' gatb -p /inputs/reads.fq.gz --multik -o genome '
+ [[ -z gatb -p /inputs/reads.fq.gz --multik -o genome ]]
+ eval gatb -p /inputs/reads.fq.gz --multik -o genome
++ gatb -p /inputs/reads.fq.gz --multik -o genome
running kmergenie
running histogram estimation
| processing |
[------------------------------------------------------------------------------------------Total time Wallclock 927.514 s
File genome.list_reads starts with character "/", hence is interpreted as a list of file names
Reading 1 read files
Linear estimation: ~424 M distinct 71-mers are in the reads
K-mer sampling: 1/80
going to estimate histograms for values of k: 121 111 101 91 81 71 61 51 41 31 21
fitting model to histograms to estimate best k
table of predicted num. of genomic k-mers: ./histograms.dat
recommended coverage cut-off for best k: 18
best k: 51
best k from kmergenie: 51
approximate genome size: 4137689
min abundance: 18
Multi-k GATB-Pipeline, Minia assembling at k=21 min_abundance=28 genome_size=4137689
Execution of 'minia/minia'. Command line:
/usr/local/bin/tools/memused /usr/local/bin/minia/minia -in genome.list_reads -kmer-size 21 -abundance-min 28 -out genome_k21
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minia
-in : genome.list_reads
-kmer-size : 21
-abundance-min : 28
-out : genome_k21
-traversal : contig
-starter : best
-contig-max-len : 10000000
-bfs-max-depth : 500
-bfs-max-breadth : 20
-fasta-line : 0
-abundance-max : 4294967295
-histo-max : 10000
-solidity-kind : sum
-max-memory : 2000
-max-disk : 0
-out-dir : .
-minimizer-type : 0
-minimizer-size : 8
-bloom : neighbor
-debloom : cascading
-debloom-impl : minimizer
-branching-nodes : stored
-topology-stats : 0
-mphf : emphf
-nb-cores : 2
-verbose : 1
-integer-precision : 0
-verbose : 1
stats
traversal : contig
start_selector : best
nb_contigs : 3014
nb_small_contigs_discarded : 800
nt_assembled : 4154196
max_length : 27742
max_length_left : 18244
max_length_right : 19025
debugging traversal stats
couldn't validate consensuses : 37
large bubble breadth : 1
large bubble depth : 43
stopped at marked kmer : 2231
no kmer extension : 255
in-branchin large depth : 3225
in-branching large breadth : 103
in-branching other : 106
time : 39.041
assembly : 39.041
maximal memory used: 198744 KB
Multi-k GATB-Pipeline, Minia assembling at k=41 min_abundance=21 genome_size=4137689
Execution of 'minia/minia'. Command line:
/usr/local/bin/tools/memused /usr/local/bin/minia/minia -in genome.list_reads -kmer-size 41 -abundance-min 21 -out genome_k41
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[DSK: Pass 1/1, Step 1: partitioning ] 27 % elapsed: 0 min 22 sec estimated remaining: 0 min 59 sec cpu: 175.6 % mem: [ 26, 26, 26] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 30 % elapsed: 0 min 24 sec estimated remaining: 0 min 57 sec cpu: 175.9 % mem: [ 26, 26, 26] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 32 % elapsed: 0 min 27 sec estimated remaining: 0 min 57 sec cpu: 174.8 % mem: [ 32, 32, 39] MB
[DSK: Pass 1/1, Step 1: partitioning ] 33 % elapsed: 0 min 28 sec estimated remaining: 0 min 57 sec cpu: 173.4 % mem: [ 36, 36, 42] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 36 % elapsed: 0 min 32 sec estimated remaining: 0 min 57 sec cpu: 166.6 % mem: [ 33, 36, 42] MB
[DSK: Pass 1/1, Step 1: partitioning ] 37 % elapsed: 0 min 34 sec estimated remaining: 0 min 57 sec cpu: 165.6 % mem: [ 33, 36, 42] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 37.1 % elapsed: 0 min 34 sec estimated remaining: 0 min 57 sec cpu: 165.1 % mem: [ 20, 36, 42] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 38.1 % elapsed: 0 min 36 sec estimated remaining: 0 min 58 sec cpu: 165.1 % mem: [ 253, 253, 269] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 39.1 % elapsed: 0 min 36 sec estimated remaining: 0 min 56 sec cpu: 164.9 % mem: [ 248, 253, 269] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 40.2 % elapsed: 0 min 38 sec estimated remaining: 0 min 56 sec cpu: 165.5 % mem: [ 259, 259, 274] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 44.2 % elapsed: 0 min 42 sec estimated remaining: 0 min 53 sec cpu: 166.2 % mem: [ 263, 263, 275] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 46.2 % elapsed: 0 min 44 sec estimated remaining: 0 min 51 sec cpu: 166.2 % mem: [ 269, 269, 282] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 47.3 % elapsed: 0 min 44 sec estimated remaining: 0 min 49 sec cpu: 166.0 % mem: [ 270, 270, 282] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 50.3 % elapsed: 0 min 48 sec estimated remaining: 0 min 47 sec cpu: 166.8 % mem: [ 272, 272, 286] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 51.4 % elapsed: 0 min 48 sec estimated remaining: 0 min 45 sec cpu: 166.7 % mem: [ 273, 273, 286] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 52.4 % elapsed: 0 min 50 sec estimated remaining: 0 min 45 sec cpu: 167.1 % mem: [ 274, 274, 288] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 54.4 % elapsed: 0 min 53 sec estimated remaining: 0 min 44 sec cpu: 166.7 % mem: [ 276, 276, 291] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 62.4 % elapsed: 1 min 1 sec estimated remaining: 0 min 37 sec cpu: 167.6 % mem: [ 284, 284, 295] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 63.4 % elapsed: 1 min 1 sec estimated remaining: 0 min 35 sec cpu: 167.6 % mem: [ 285, 285, 295] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 64.5 % elapsed: 1 min 3 sec estimated remaining: 0 min 35 sec cpu: 167.9 % mem: [ 288, 288, 296] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 66.5 % elapsed: 1 min 5 sec estimated remaining: 0 min 33 sec cpu: 168.2 % mem: [ 289, 289, 305] MB
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[MPHF: initialization ] 0 % elapsed: 0 min 0 sec estimated remaining: 0 min 0 sec cpu: -1.0 % mem: [ 115, 115, 330] MB
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[MPHF: initialization ] 66.7 % elapsed: 0 min 1 sec estimated remaining: 0 min 0 sec cpu: 96.1 % mem: [ 126, 126, 330] MB
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minia
-in : genome.list_reads
-kmer-size : 41
-abundance-min : 21
-out : genome_k41
-traversal : contig
-starter : best
-contig-max-len : 10000000
-bfs-max-depth : 500
-bfs-max-breadth : 20
-fasta-line : 0
-abundance-max : 4294967295
-histo-max : 10000
-solidity-kind : sum
-max-memory : 2000
-max-disk : 0
-out-dir : .
-minimizer-type : 0
-minimizer-size : 8
-bloom : neighbor
-debloom : cascading
-debloom-impl : minimizer
-branching-nodes : stored
-topology-stats : 0
-mphf : emphf
-nb-cores : 2
-verbose : 1
-integer-precision : 0
-verbose : 1
stats
traversal : contig
start_selector : best
nb_contigs : 668
nb_small_contigs_discarded : 234
nt_assembled : 4140908
max_length : 98905
max_length_left : 91715
max_length_right : 71849
debugging traversal stats
couldn't validate consensuses : 1
large bubble breadth : 0
large bubble depth : 28
stopped at marked kmer : 400
no kmer extension : 243
in-branchin large depth : 621
in-branching large breadth : 2
in-branching other : 28
time : 33.143
assembly : 33.143
maximal memory used: 338212 KB
Multi-k GATB-Pipeline, Minia assembling at k=61 min_abundance=16 genome_size=4137689
Execution of 'minia/minia'. Command line:
/usr/local/bin/tools/memused /usr/local/bin/minia/minia -in genome.list_reads -kmer-size 61 -abundance-min 16 -out genome_k61
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[DSK: Pass 1/1, Step 1: partitioning ] 0 % elapsed: 0 min 0 sec estimated remaining: 0 min 0 sec cpu: -1.0 % mem: [ 15, 15, 16] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 59.7 % elapsed: 0 min 50 sec estimated remaining: 0 min 34 sec cpu: 159.5 % mem: [ 251, 251, 266] MB
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[MPHF: initialization ] 0 % elapsed: 0 min 0 sec estimated remaining: 0 min 0 sec cpu: -1.0 % mem: [ 106, 106, 288] MB
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minia
-in : genome.list_reads
-kmer-size : 61
-abundance-min : 16
-out : genome_k61
-traversal : contig
-starter : best
-contig-max-len : 10000000
-bfs-max-depth : 500
-bfs-max-breadth : 20
-fasta-line : 0
-abundance-max : 4294967295
-histo-max : 10000
-solidity-kind : sum
-max-memory : 2000
-max-disk : 0
-out-dir : .
-minimizer-type : 0
-minimizer-size : 8
-bloom : neighbor
-debloom : cascading
-debloom-impl : minimizer
-branching-nodes : stored
-topology-stats : 0
-mphf : emphf
-nb-cores : 2
-verbose : 1
-integer-precision : 0
-verbose : 1
stats
traversal : contig
start_selector : best
nb_contigs : 535
nb_small_contigs_discarded : 213
nt_assembled : 4149930
max_length : 98925
max_length_left : 80399
max_length_right : 63113
debugging traversal stats
couldn't validate consensuses : 0
large bubble breadth : 0
large bubble depth : 17
stopped at marked kmer : 322
no kmer extension : 226
in-branchin large depth : 445
in-branching large breadth : 0
in-branching other : 40
time : 31.780
assembly : 31.780
cat: status: No such process
maximal memory used: 294964 KB
Multi-k GATB-Pipeline, Minia assembling at k=81 min_abundance=11 genome_size=4137689
Execution of 'minia/minia'. Command line:
/usr/local/bin/tools/memused /usr/local/bin/minia/minia -in genome.list_reads -kmer-size 81 -abundance-min 11 -out genome_k81
[counting kmers] 0 % elapsed: 0 min 0 sec estimated remaining: 0 min 0 sec cpu: -1.0 % mem: [ 4, 4, 4] MB
[DSK: Collecting stats on read sample ] 0 % elapsed: 0 min 0 sec estimated remaining: 0 min 0 sec cpu: -1.0 % mem: [ 9, 9, 9] MB
[DSK: Collecting stats on read sample ] 1 % elapsed: 0 min 0 sec estimated remaining: 0 min 6 sec cpu: 171.4 % mem: [ 10, 10, 11] MB
[DSK: Collecting stats on read sample ] 2 % elapsed: 0 min 0 sec estimated remaining: 0 min 6 sec cpu: 191.7 % mem: [ 11, 11, 11] MB
[DSK: Collecting stats on read sample ] 3 % elapsed: 0 min 0 sec estimated remaining: 0 min 6 sec cpu: 173.7 % mem: [ 11, 11, 11] MB
[DSK: Collecting stats on read sample ] 4 % elapsed: 0 min 0 sec estimated remaining: 0 min 6 sec cpu: 179.2 % mem: [ 11, 11, 11] MB
[DSK: Collecting stats on read sample ] 5 % elapsed: 0 min 0 sec estimated remaining: 0 min 6 sec cpu: 174.2 % mem: [ 11, 11, 11] MB
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[DSK: Collecting stats on read sample ] 20 % elapsed: 0 min 1 sec estimated remaining: 0 min 5 sec cpu: 171.8 % mem: [ 14, 14, 14] MB
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[DSK: Collecting stats on read sample ] 43 % elapsed: 0 min 3 sec estimated remaining: 0 min 4 sec cpu: 168.6 % mem: [ 14, 14, 14] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 0 % elapsed: 0 min 0 sec estimated remaining: 0 min 0 sec cpu: -1.0 % mem: [ 15, 15, 16] MB
[DSK: Pass 1/1, Step 1: partitioning ] 1.03 % elapsed: 0 min 2 sec estimated remaining: 2 min 27 sec cpu: 169.3 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 2.01 % elapsed: 0 min 3 sec estimated remaining: 2 min 2 sec cpu: 172.5 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 3.04 % elapsed: 0 min 4 sec estimated remaining: 1 min 53 sec cpu: 173.2 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 4.02 % elapsed: 0 min 5 sec estimated remaining: 1 min 48 sec cpu: 174.3 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 5.05 % elapsed: 0 min 6 sec estimated remaining: 1 min 47 sec cpu: 173.9 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 6.02 % elapsed: 0 min 7 sec estimated remaining: 1 min 43 sec cpu: 174.2 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 7.06 % elapsed: 0 min 8 sec estimated remaining: 1 min 40 sec cpu: 174.7 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 8.03 % elapsed: 0 min 8 sec estimated remaining: 1 min 37 sec cpu: 175.1 % mem: [ 27, 27, 27] MB
[DSK: Pass 1/1, Step 1: partitioning ] 9.01 % elapsed: 0 min 9 sec estimated remaining: 1 min 35 sec cpu: 175.3 % mem: [ 27, 27, 27] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 14.1 % elapsed: 0 min 14 sec estimated remaining: 1 min 27 sec cpu: 176.3 % mem: [ 27, 27, 27] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 17 % elapsed: 0 min 17 sec estimated remaining: 1 min 22 sec cpu: 176.7 % mem: [ 27, 27, 27] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 28.1 % elapsed: 0 min 28 sec estimated remaining: 1 min 11 sec cpu: 176.8 % mem: [ 27, 27, 27] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 30 % elapsed: 0 min 29 sec estimated remaining: 1 min 9 sec cpu: 176.8 % mem: [ 27, 27, 27] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 36 % elapsed: 0 min 37 sec estimated remaining: 1 min 6 sec cpu: 163.5 % mem: [ 57, 57, 57] MB
[DSK: Pass 1/1, Step 1: partitioning ] 37 % elapsed: 0 min 38 sec estimated remaining: 1 min 5 sec cpu: 161.1 % mem: [ 57, 57, 57] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 37.7 % elapsed: 0 min 39 sec estimated remaining: 1 min 5 sec cpu: 159.6 % mem: [ 30, 57, 57] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 38.8 % elapsed: 0 min 41 sec estimated remaining: 1 min 5 sec cpu: 160.2 % mem: [ 242, 242, 248] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 39.9 % elapsed: 0 min 41 sec estimated remaining: 1 min 2 sec cpu: 160.0 % mem: [ 243, 243, 248] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 40.9 % elapsed: 0 min 43 sec estimated remaining: 1 min 1 sec cpu: 160.8 % mem: [ 252, 252, 259] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 42.1 % elapsed: 0 min 43 sec estimated remaining: 0 min 59 sec cpu: 160.6 % mem: [ 253, 253, 259] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 60.4 % elapsed: 0 min 58 sec estimated remaining: 0 min 38 sec cpu: 163.5 % mem: [ 277, 277, 286] MB
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minia
-in : genome.list_reads
-kmer-size : 81
-abundance-min : 11
-out : genome_k81
-traversal : contig
-starter : best
-contig-max-len : 10000000
-bfs-max-depth : 500
-bfs-max-breadth : 20
-fasta-line : 0
-abundance-max : 4294967295
-histo-max : 10000
-solidity-kind : sum
-max-memory : 2000
-max-disk : 0
-out-dir : .
-minimizer-type : 0
-minimizer-size : 8
-bloom : neighbor
-debloom : cascading
-debloom-impl : minimizer
-branching-nodes : stored
-topology-stats : 0
-mphf : emphf
-nb-cores : 2
-verbose : 1
-integer-precision : 0
-verbose : 1
stats
traversal : contig
start_selector : best
nb_contigs : 489
nb_small_contigs_discarded : 187
nt_assembled : 4165810
max_length : 98945
max_length_left : 80399
max_length_right : 92957
debugging traversal stats
couldn't validate consensuses : 0
large bubble breadth : 0
large bubble depth : 17
stopped at marked kmer : 305
no kmer extension : 219
in-branchin large depth : 378
in-branching large breadth : 0
in-branching other : 37
time : 36.919
assembly : 36.919
cat: status: No such process
maximal memory used: 313436 KB
Multi-k GATB-Pipeline, Minia assembling at k=101 min_abundance=8 genome_size=4137689
Execution of 'minia/minia'. Command line:
/usr/local/bin/tools/memused /usr/local/bin/minia/minia -in genome.list_reads -kmer-size 101 -abundance-min 8 -out genome_k101
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[DSK: Pass 1/1, Step 1: partitioning ] 11 % elapsed: 0 min 11 sec estimated remaining: 1 min 30 sec cpu: 175.4 % mem: [ 33, 33, 33] MB
[DSK: Pass 1/1, Step 1: partitioning ] 12.1 % elapsed: 0 min 12 sec estimated remaining: 1 min 28 sec cpu: 175.4 % mem: [ 33, 33, 33] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 29.1 % elapsed: 0 min 28 sec estimated remaining: 1 min 10 sec cpu: 176.2 % mem: [ 33, 33, 33] MB
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[DSK: Pass 1/1, Step 1: partitioning ] 32 % elapsed: 0 min 32 sec estimated remaining: 1 min 7 sec cpu: 175.5 % mem: [ 49, 49, 62] MB
[DSK: Pass 1/1, Step 1: partitioning ] 33.1 % elapsed: 0 min 33 sec estimated remaining: 1 min 7 sec cpu: 172.1 % mem: [ 65, 65, 65] MB
[DSK: Pass 1/1, Step 1: partitioning ] 34 % elapsed: 0 min 34 sec estimated remaining: 1 min 6 sec cpu: 169.2 % mem: [ 65, 65, 65] MB
[DSK: Pass 1/1, Step 1: partitioning ] 35 % elapsed: 0 min 36 sec estimated remaining: 1 min 6 sec cpu: 166.5 % mem: [ 65, 65, 66] MB
[DSK: Pass 1/1, Step 1: partitioning ] 36 % elapsed: 0 min 37 sec estimated remaining: 1 min 5 sec cpu: 164.1 % mem: [ 66, 66, 66] MB
[DSK: Pass 1/1, Step 1: partitioning ] 37.1 % elapsed: 0 min 38 sec estimated remaining: 1 min 5 sec cpu: 160.8 % mem: [ 62, 66, 66] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 37.6 % elapsed: 0 min 39 sec estimated remaining: 1 min 5 sec cpu: 159.6 % mem: [ 32, 66, 66] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 38.7 % elapsed: 0 min 40 sec estimated remaining: 1 min 4 sec cpu: 159.9 % mem: [ 228, 228, 233] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 40.9 % elapsed: 0 min 42 sec estimated remaining: 1 min 1 sec cpu: 160.0 % mem: [ 242, 242, 249] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 42 % elapsed: 0 min 42 sec estimated remaining: 0 min 58 sec cpu: 159.9 % mem: [ 243, 243, 249] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 45.3 % elapsed: 0 min 45 sec estimated remaining: 0 min 55 sec cpu: 160.7 % mem: [ 250, 250, 257] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 46.4 % elapsed: 0 min 45 sec estimated remaining: 0 min 52 sec cpu: 160.7 % mem: [ 250, 250, 257] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 47.5 % elapsed: 0 min 47 sec estimated remaining: 0 min 52 sec cpu: 161.1 % mem: [ 251, 251, 258] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 48.6 % elapsed: 0 min 47 sec estimated remaining: 0 min 49 sec cpu: 160.9 % mem: [ 254, 254, 258] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 49.7 % elapsed: 0 min 48 sec estimated remaining: 0 min 49 sec cpu: 161.5 % mem: [ 254, 254, 262] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 50.8 % elapsed: 0 min 48 sec estimated remaining: 0 min 47 sec cpu: 161.5 % mem: [ 255, 255, 262] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 51.9 % elapsed: 0 min 50 sec estimated remaining: 0 min 46 sec cpu: 162.0 % mem: [ 255, 255, 262] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 53.9 % elapsed: 0 min 51 sec estimated remaining: 0 min 44 sec cpu: 162.3 % mem: [ 257, 257, 264] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 55 % elapsed: 0 min 51 sec estimated remaining: 0 min 42 sec cpu: 162.2 % mem: [ 258, 258, 264] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 55 % elapsed: 0 min 51 sec estimated remaining: 0 min 42 sec cpu: 162.2 % mem: [ 258, 258, 264] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 56.1 % elapsed: 0 min 53 sec estimated remaining: 0 min 41 sec cpu: 162.5 % mem: [ 259, 259, 267] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 58.3 % elapsed: 0 min 55 sec estimated remaining: 0 min 39 sec cpu: 162.9 % mem: [ 278, 278, 288] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 59.5 % elapsed: 0 min 55 sec estimated remaining: 0 min 37 sec cpu: 162.9 % mem: [ 278, 278, 288] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 60.6 % elapsed: 0 min 56 sec estimated remaining: 0 min 37 sec cpu: 163.3 % mem: [ 279, 279, 288] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 61.6 % elapsed: 0 min 56 sec estimated remaining: 0 min 35 sec cpu: 163.3 % mem: [ 281, 281, 288] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 62.7 % elapsed: 0 min 58 sec estimated remaining: 0 min 34 sec cpu: 163.6 % mem: [ 282, 282, 289] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 63.8 % elapsed: 0 min 58 sec estimated remaining: 0 min 33 sec cpu: 163.5 % mem: [ 282, 282, 289] MB
[DSK: Pass 1/1, Step 2: counting kmers ] 64.8 % elapsed: 0 min 59 sec estimated remaining: 0 min 32 sec cpu: 163.9 % mem: [ 283, 283, 291] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 67 % elapsed: 1 min 1 sec estimated remaining: 0 min 30 sec cpu: 164.3 % mem: [ 286, 286, 295] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 69.1 % elapsed: 1 min 3 sec estimated remaining: 0 min 28 sec cpu: 164.6 % mem: [ 287, 287, 295] MB
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[DSK: Pass 1/1, Step 2: counting kmers ] 100 % elapsed: 1 min 8 sec estimated remaining: 0 min 0 sec cpu: 163.7 % mem: [ 65, 292, 300] MB
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[MPHF: initialization ] 0 % elapsed: 0 min 0 sec estimated remaining: 0 min 0 sec cpu: -1.0 % mem: [ 102, 102, 300] MB
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[MPHF: initialization ] 66.7 % elapsed: 0 min 1 sec estimated remaining: 0 min 0 sec cpu: 94.7 % mem: [ 112, 112, 300] MB
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[MPHF: initialization ] 100 % elapsed: 0 min 2 sec estimated remaining: 0 min 0 sec cpu: 92.8 % mem: [ 122, 122, 300] MB
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[MPHF: initialization ] 100 % elapsed: 0 min 2 sec estimated remaining:
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