administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbduk.sh -Xmx230g in=./input/SUSPHIRE_1.fastq in2=./input/SUSPHIRE_2.fastq out=./input/SUSPHIRE_trimmed.fastq ktrim=r k=23 mink=11 hdist=1 ref=/DATA/m arkop/bbmap/resources/adapters.fa tbo tpe maxns=0 trimq=20 qtrim=r maq=12 java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBDuk -Xmx230g in=./input/SUSPHIRE_1.fastq in2=./input/SUSPHIRE_2.fastq out=./input/SUSPHIRE_trimmed.fastq ktrim=r k=23 mink=11 hdist=1 ref=/DATA/markop/bbmap/resour ces/adapters.fa tbo tpe maxns=0 trimq=20 qtrim=r maq=12 Executing jgi.BBDuk [-Xmx230g, in=./input/SUSPHIRE_1.fastq, in2=./input/SUSPHIRE_2.fastq, out=./input/SUSPHIRE_trimmed.fastq, ktrim=r, k=23, mink=11, hdist=1, ref=/DATA/markop/bbmap/resources/adapters.fa, tbo, tpe, maxns=0, trim q=20, qtrim=r, maq=12] Version 38.34 maskMiddle was disabled because useShortKmers=true 0.042 seconds. Initial: Memory: max=236670m, total=236670m, free=228027m, used=8643m Added 217045 kmers; time: 0.169 seconds. Memory: max=236670m, total=236670m, free=216913m, used=19757m Input is being processed as paired Started output streams: 0.034 seconds. Processing time: 5235.308 seconds. Input: 695202748 reads 104280412200 bases. QTrimmed: 123759759 reads (17.80%) 4453364269 bases (4.27%) KTrimmed: 109170582 reads (15.70%) 3716369054 bases (3.56%) Trimmed by overlap: 32875586 reads (4.73%) 193234434 bases (0.19%) Low quality discards: 30062466 reads (4.32%) 4005006752 bases (3.84%) Total Removed: 31815186 reads (4.58%) 12367974509 bases (11.86%) Result: 663387562 reads (95.42%) 91912437691 bases (88.14%) Time: 5235.518 seconds. Reads Processed: 695m 132.79k reads/sec Bases Processed: 104280m 19.92m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbduk.sh -Xmx230g in=./input/Edinburgh50_1.fastq in2=./input/Edinburgh50_2.fastq out=./input/Edinburgh50_trimmed.fastq ktrim=r k=23 mink=11 hdist=1 re f=/DATA/markop/bbmap/resources/adapters.fa tbo tpe maxns=0 trimq=20 qtrim=r maq=12 java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBDuk -Xmx230g in=./input/Edinburgh50_1.fastq in2=./input/Edinburgh50_2.fastq out=./input/Edinburgh50_trimmed.fastq ktrim=r k=23 mink=11 hdist=1 ref=/DATA/markop/bbm ap/resources/adapters.fa tbo tpe maxns=0 trimq=20 qtrim=r maq=12 Executing jgi.BBDuk [-Xmx230g, in=./input/Edinburgh50_1.fastq, in2=./input/Edinburgh50_2.fastq, out=./input/Edinburgh50_trimmed.fastq, ktrim=r, k=23, mink=11, hdist=1, ref=/DATA/markop/bbmap/resources/adapters.fa, tbo, tpe, maxn s=0, trimq=20, qtrim=r, maq=12] Version 38.34 maskMiddle was disabled because useShortKmers=true 0.049 seconds. Initial: Memory: max=236670m, total=236670m, free=229262m, used=7408m Added 217045 kmers; time: 0.166 seconds. Memory: max=236670m, total=236670m, free=216913m, used=19757m Input is being processed as paired Started output streams: 0.042 seconds. Processing time: 1472.406 seconds. Input: 315115950 reads 15755797500 bases. QTrimmed: 64349819 reads (20.42%) 1151035751 bases (7.31%) KTrimmed: 277964 reads (0.09%) 5268690 bases (0.03%) Trimmed by overlap: 33102 reads (0.01%) 152958 bases (0.00%) Low quality discards: 1013198 reads (0.32%) 46552569 bases (0.30%) Total Removed: 7001884 reads (2.22%) 1203009968 bases (7.64%) Result: 308114066 reads (97.78%) 14552787532 bases (92.36%) Time: 1472.621 seconds. Reads Processed: 315m 213.98k reads/sec Bases Processed: 15755m 10.70m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbduk.sh -Xmx230g in=./input/Edinburgh75_1.fastq in2=./input/Edinburgh75_2.fastq out=./input/Edinburgh75_trimmed.fastq ktrim=r k=23 mink=11 hdist=1 re f=/DATA/markop/bbmap/resources/adapters.fa tbo tpe maxns=0 trimq=20 qtrim=r maq=12 java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBDuk -Xmx230g in=./input/Edinburgh75_1.fastq in2=./input/Edinburgh75_2.fastq out=./input/Edinburgh75_trimmed.fastq ktrim=r k=23 mink=11 hdist=1 ref=/DATA/markop/bbm ap/resources/adapters.fa tbo tpe maxns=0 trimq=20 qtrim=r maq=12 Executing jgi.BBDuk [-Xmx230g, in=./input/Edinburgh75_1.fastq, in2=./input/Edinburgh75_2.fastq, out=./input/Edinburgh75_trimmed.fastq, ktrim=r, k=23, mink=11, hdist=1, ref=/DATA/markop/bbmap/resources/adapters.fa, tbo, tpe, maxn s=0, trimq=20, qtrim=r, maq=12] Version 38.34 maskMiddle was disabled because useShortKmers=true 0.043 seconds. Initial: Memory: max=236670m, total=236670m, free=229262m, used=7408m Added 217045 kmers; time: 0.156 seconds. Memory: max=236670m, total=236670m, free=215679m, used=20991m Input is being processed as paired Started output streams: 0.046 seconds. Processing time: 2292.027 seconds. Input: 413862014 reads 31039651050 bases. QTrimmed: 34224918 reads (8.27%) 747146144 bases (2.41%) KTrimmed: 5281312 reads (1.28%) 326923182 bases (1.05%) Trimmed by overlap: 1829354 reads (0.44%) 8825636 bases (0.03%) Low quality discards: 3994226 reads (0.97%) 275900382 bases (0.89%) Total Removed: 9462538 reads (2.29%) 1358795344 bases (4.38%) Result: 404399476 reads (97.71%) 29680855706 bases (95.62%) Time: 2292.235 seconds. Reads Processed: 413m 180.55k reads/sec Bases Processed: 31039m 13.54m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ #Remove small contaminants administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbduk.sh -Xmx230g in=./input/SUSPHIRE_trimmed.fastq out=./input/SUSPHIRE_filtered.fastq k=31 ref=/DATA/markop/bbmap/resources/sequencing_artifacts.fa. gz,/DATA/markop/bbmap/resources/phix174_ill.ref.fa.gz java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBDuk -Xmx230g in=./input/SUSPHIRE_trimmed.fastq out=./input/SUSPHIRE_filtered.fastq k=31 ref=/DATA/markop/bbmap/resources/sequencing_artifacts.fa.gz,/DATA/markop/bb map/resources/phix174_ill.ref.fa.gz Executing jgi.BBDuk [-Xmx230g, in=./input/SUSPHIRE_trimmed.fastq, out=./input/SUSPHIRE_filtered.fastq, k=31, ref=/DATA/markop/bbmap/resources/sequencing_artifacts.fa.gz,/DATA/markop/bbmap/resources/phix174_ill.ref.fa.gz] Version 38.34 0.039 seconds. Initial: Memory: max=236670m, total=236670m, free=228027m, used=8643m Added 92358 kmers; time: 0.190 seconds. Memory: max=236670m, total=236670m, free=216913m, used=19757m Input is being processed as paired Started output streams: 0.012 seconds. Processing time: 2946.316 seconds. Input: 663387562 reads 91912437691 bases. Contaminants: 752 reads (0.00%) 81986 bases (0.00%) Total Removed: 752 reads (0.00%) 81986 bases (0.00%) Result: 663386810 reads (100.00%) 91912355705 bases (100.00%) Time: 2946.524 seconds. Reads Processed: 663m 225.14k reads/sec Bases Processed: 91912m 31.19m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbduk.sh -Xmx230g in=./input/Edinburgh50_trimmed.fastq out=./input/Edinburgh50_filtered.fastq k=31 ref=/DATA/markop/bbmap/resources/sequencing_artifac ts.fa.gz,/DATA/markop/bbmap/resources/phix174_ill.ref.fa.gz java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBDuk -Xmx230g in=./input/Edinburgh50_trimmed.fastqout=./input/Edinburgh50_filtered.fastq k=31 ref=/DATA/markop/bbmap/resources/sequencing_artifacts.fa.gz,/DATA/mar kop/bbmap/resources/phix174_ill.ref.fa.gz Executing jgi.BBDuk [-Xmx230g, in=./input/Edinburgh50_trimmed.fastq, out=./input/Edinburgh50_filtered.fastq, k=31, ref=/DATA/markop/bbmap/resources/sequencing_artifacts.fa.gz,/DATA/markop/bbmap/resources/phix174_ill.ref.fa.gz] Version 38.34 0.036 seconds. Initial: Memory: max=236670m, total=236670m, free=230496m, used=6174m Added 92358 kmers; time: 0.196 seconds. Memory: max=236670m, total=236670m, free=220618m, used=16052m Input is being processed as paired Started output streams: 0.012 seconds. Processing time: 640.881 seconds. Input: 308114066 reads 14552787532 bases. Contaminants: 0 reads (0.00%) 0 bases (0.00%) Total Removed: 0 reads (0.00%) 0 bases (0.00%) Result: 308114066 reads (100.00%) 14552787532 bases (100.00%) Time: 641.093 seconds. Reads Processed: 308m 480.61k reads/sec Bases Processed: 14552m 22.70m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbduk.sh -Xmx230g in=./input/Edinburgh75_trimmed.fastq out=./input/Edinburgh75_filtered.fastq k=31 ref=/DATA/markop/bbmap/resources/sequencing_artifac ts.fa.gz,/DATA/markop/bbmap/resources/phix174_ill.ref.fa.gz java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBDuk -Xmx230g in=./input/Edinburgh75_trimmed.fastqout=./input/Edinburgh75_filtered.fastq k=31 ref=/DATA/markop/bbmap/resources/sequencing_artifacts.fa.gz,/DATA/mar kop/bbmap/resources/phix174_ill.ref.fa.gz Executing jgi.BBDuk [-Xmx230g, in=./input/Edinburgh75_trimmed.fastq, out=./input/Edinburgh75_filtered.fastq, k=31, ref=/DATA/markop/bbmap/resources/sequencing_artifacts.fa.gz,/DATA/markop/bbmap/resources/phix174_ill.ref.fa.gz] Version 38.34 0.038 seconds. Initial: Memory: max=236670m, total=236670m, free=229262m, used=7408m Added 92358 kmers; time: 0.207 seconds. Memory: max=236670m, total=236670m, free=216913m, used=19757m Input is being processed as paired Started output streams: 0.012 seconds. Processing time: 1322.411 seconds. Input: 404399476 reads 29680855706 bases. Contaminants: 92 reads (0.00%) 4785 bases (0.00%) Total Removed: 92 reads (0.00%) 4785 bases (0.00%) Result: 404399384 reads (100.00%) 29680850921 bases (100.00%) Time: 1322.633 seconds. Reads Processed: 404m 305.75k reads/sec Bases Processed: 29680m 22.44m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /home/administrator/Software/SPAdes-3.13.1-Linux/bin/spades.py \ > --only-error-correction \ > -m 230 \ > -t 32 \ > -o ./input \ > --pe1-fr --pe2-fr --pe3-fr \ > --pe1-12 ./input/SUSPHIRE_filtered.fastq \ > --pe2-12 ./input/Edinburgh50_filtered.fastq \ > --pe3-12 ./input/Edinburgh75_filtered.fastq Command line: /home/administrator/Software/SPAdes-3.13.1-Linux/bin/spades.py --only-error-correction -m 230 -t 32 -o /DATA/markop/Pcitri_rnaspades_alldata/input --pe1-fr --pe2-fr --pe3-fr --pe1-12 /DATA/markop/Pcitri_rnaspades_alldata/input/SUSPHIRE_filtered.fastq --pe2-12 /DATA/markop/Pcitri_rnaspades_alldata/input/Edinburgh50_filtered.fastq --pe3-12 /DATA/markop/Pcitri_rnaspades_alldata/input/Edinburgh75_filtered.fastq System information: SPAdes version: 3.13.1 Python version: 2.7.12 OS: Linux-4.13.0-41-generic-x86_64-with-LinuxMint-18.2-sonya Output dir: /DATA/markop/Pcitri_rnaspades_alldata/input Mode: ONLY read error correction (without assembling) Debug mode is turned OFF Dataset parameters: Multi-cell mode (you should set '--sc' flag if input data was obtained with MDA (single-cell) technology or --meta flag if processing metagenomic dataset) Reads: Library number: 1, library type: paired-end orientation: fr left reads: not specified right reads: not specified interlaced reads: ['/DATA/markop/Pcitri_rnaspades_alldata/input/SUSPHIRE_filtered.fastq'] single reads: not specified merged reads: not specified Library number: 2, library type: paired-end orientation: fr left reads: not specified right reads: not specified interlaced reads: ['/DATA/markop/Pcitri_rnaspades_alldata/input/Edinburgh50_filtered.fastq'] single reads: not specified merged reads: not specified Library number: 3, library type: paired-end orientation: fr left reads: not specified right reads: not specified interlaced reads: ['/DATA/markop/Pcitri_rnaspades_alldata/input/Edinburgh75_filtered.fastq'] single reads: not specified merged reads: not specified Read error correction parameters: Iterations: 1 PHRED offset will be auto-detected Corrected reads will be compressed Other parameters: Dir for temp files: /DATA/markop/Pcitri_rnaspades_alldata/input/tmp Threads: 32 Memory limit (in Gb): 230 ======= SPAdes pipeline started. Log can be found here: /DATA/markop/Pcitri_rnaspades_alldata/input/spades.log == Splitting /DATA/markop/Pcitri_rnaspades_alldata/input/SUSPHIRE_filtered.fastq into left and right reads (in /DATA/markop/Pcitri_rnaspades_alldata/input/split_input directory) == Splitting /DATA/markop/Pcitri_rnaspades_alldata/input/Edinburgh50_filtered.fastq into left and right reads (in /DATA/markop/Pcitri_rnaspades_alldata/input/split_input directory) == Splitting /DATA/markop/Pcitri_rnaspades_alldata/input/Edinburgh75_filtered.fastq into left and right reads (in /DATA/markop/Pcitri_rnaspades_alldata/input/split_input directory) ===== Read error correction started. == Running read error correction tool: /home/administrator/Software/SPAdes-3.13.1-Linux/bin/spades-hammer /DATA/markop/Pcitri_rnaspades_alldata/input/corrected/configs/config.info 0:00:00.000 4M / 4M INFO General (main.cpp : 75) Starting BayesHammer, built from refs/heads/spades_3.13.1, git revision 9a9d54db2ff9abaac718155bf74c12ec9464e8ca 0:00:00.000 4M / 4M INFO General (main.cpp : 76) Loading config from /DATA/markop/Pcitri_rnaspades_alldata/input/corrected/configs/config.info 0:00:00.002 4M / 4M INFO General (main.cpp : 78) Maximum # of threads to use (adjusted due to OMP capabilities): 32 0:00:00.002 4M / 4M INFO General (memory_limit.cpp : 49) Memory limit set to 230 Gb 0:00:00.002 4M / 4M INFO General (main.cpp : 86) Trying to determine PHRED offset 0:00:00.011 4M / 4M INFO General (main.cpp : 92) Determined value is 33 0:00:00.011 4M / 4M INFO General (hammer_tools.cpp : 36) Hamming graph threshold tau=1, k=21, subkmer positions = [ 0 10 ] 0:00:00.011 4M / 4M INFO General (main.cpp : 113) Size of aux. kmer data 24 bytes === ITERATION 0 begins === 0:00:00.012 4M / 4M INFO K-mer Index Building (kmer_index_builder.hpp : 301) Building kmer index 0:00:00.012 4M / 4M INFO General (kmer_index_builder.hpp : 117) Splitting kmer instances into 512 files using 32 threads. This might take a while. 0:00:00.013 4M / 4M INFO General (file_limit.hpp : 32) Open file limit set to 10000 0:00:00.013 4M / 4M INFO General (kmer_splitters.hpp : 89) Memory available for splitting buffers: 2.39579 Gb 0:00:00.013 4M / 4M INFO General (kmer_splitters.hpp : 97) Using cell size of 131072 0:00:00.122 17G / 17G INFO K-mer Splitting (kmer_data.cpp : 97) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/SUSPHIRE_filtered_1.fastq 0:00:59.637 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 7551826 reads 0:01:57.064 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 15099419 reads 0:02:58.294 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 22632325 reads 0:03:58.434 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 30111488 reads 0:05:00.866 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 37626949 reads 0:06:04.349 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 45207512 reads 0:07:03.266 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 52764527 reads 0:08:04.166 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 60447827 reads 0:09:05.019 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 68064494 reads 0:10:06.500 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 75612315 reads 0:11:08.465 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 83161170 reads 0:12:09.625 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 90758682 reads 0:18:10.582 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 136365190 reads 0:36:45.438 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 275373560 reads 0:44:21.558 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 97) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/SUSPHIRE_filtered_2.fastq 1:11:44.448 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 537165579 reads 1:28:54.258 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 97) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh50_filtered_1.fastq 1:40:06.249 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 97) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh50_filtered_2.fastq 1:52:30.932 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 97) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh75_filtered_1.fastq 2:01:45.259 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 107) Processed 1078169479 reads 2:10:02.224 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 97) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh75_filtered_2.fastq 2:27:23.453 17G / 18G INFO K-mer Splitting (kmer_data.cpp : 112) Total 1375900260 reads processed 2:27:25.041 128M / 18G INFO General (kmer_index_builder.hpp : 120) Starting k-mer counting. 2:53:47.489 128M / 18G INFO General (kmer_index_builder.hpp : 127) K-mer counting done. There are 2665835484 kmers in total. 2:53:47.489 128M / 18G INFO General (kmer_index_builder.hpp : 133) Merging temporary buckets. 2:54:06.518 128M / 18G INFO K-mer Index Building (kmer_index_builder.hpp : 314) Building perfect hash indices 2:55:53.937 1G / 18G INFO General (kmer_index_builder.hpp : 150) Merging final buckets. 2:58:15.092 1G / 18G INFO K-mer Index Building (kmer_index_builder.hpp : 336) Index built. Total 1236163304 bytes occupied (3.70965 bits per kmer). 2:58:15.096 1G / 18G INFO K-mer Counting (kmer_data.cpp : 356) Arranging kmers in hash map order 3:00:14.669 41G / 41G INFO General (main.cpp : 148) Clustering Hamming graph. 4:01:51.554 41G / 41G INFO General (main.cpp : 155) Extracting clusters 4:46:10.114 41G / 97G INFO General (main.cpp : 167) Clustering done. Total clusters: 963678659 4:46:11.913 21G / 97G INFO K-mer Counting (kmer_data.cpp : 376) Collecting K-mer information, this takes a while. 4:46:45.852 80G / 97G INFO K-mer Counting (kmer_data.cpp : 382) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/SUSPHIRE_filtered_1.fastq 5:46:29.452 80G / 97G INFO K-mer Counting (kmer_data.cpp : 382) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/SUSPHIRE_filtered_2.fastq 6:43:49.562 80G / 97G INFO K-mer Counting (kmer_data.cpp : 382) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh50_filtered_1.fastq 6:51:27.922 80G / 97G INFO K-mer Counting (kmer_data.cpp : 382) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh50_filtered_2.fastq 6:58:38.802 80G / 97G INFO K-mer Counting (kmer_data.cpp : 382) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh75_filtered_1.fastq 7:15:33.108 80G / 97G INFO K-mer Counting (kmer_data.cpp : 382) Processing /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh75_filtered_2.fastq 7:32:09.314 80G / 97G INFO K-mer Counting (kmer_data.cpp : 389) Collection done, postprocessing. 7:32:21.272 80G / 97G INFO K-mer Counting (kmer_data.cpp : 403) There are 2665835484 kmers in total. Among them 1629294690 (61.1176%) are singletons. 7:32:21.272 80G / 97G INFO General (main.cpp : 173) Subclustering Hamming graph 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 649) Subclustering done. Total 105389 non-read kmers were generated. 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 650) Subclustering statistics: 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 651) Total singleton hamming clusters: 816331828. Among them 387596852 (47.4803%) are good 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 652) Total singleton subclusters: 11642560. Among them 11608386 (99.7065%) are good 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 653) Total non-singleton subcluster centers: 187925135. Among them 142141957 (75.6375%) are good 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 654) Average size of non-trivial subcluster: 9.84488 kmers 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 655) Average number of sub-clusters per non-singleton cluster: 1.35441 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 656) Total solid k-mers: 541347195 9:41:00.740 80G / 97G INFO Hamming Subclustering (kmer_cluster.cpp : 657) Substitution probabilities: [4,4]((0.910902,0.0286632,0.028672,0.031763),(0.0368107,0.908562,0.0195257,0.0351015),(0.0326911,0.0189579,0.909382,0.0389691),(0.0304214,0.0285475,0.0285302,0.912501)) 9:41:01.902 80G / 97G INFO General (main.cpp : 178) Finished clustering. 9:41:01.908 80G / 97G INFO General (main.cpp : 197) Starting solid k-mers expansion in 32 threads. 11:17:59.406 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 0 produced 262811718 new k-mers. 12:54:22.502 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 1 produced 22818263 new k-mers. 14:31:21.390 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 2 produced 1694115 new k-mers. 16:07:14.730 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 3 produced 227983 new k-mers. 17:42:51.650 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 4 produced 46172 new k-mers. 19:19:05.346 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 5 produced 14599 new k-mers. 20:55:46.246 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 6 produced 4875 new k-mers. 22:31:40.518 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 7 produced 1774 new k-mers. 24:07:36.254 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 8 produced 604 new k-mers. 25:43:22.014 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 9 produced 304 new k-mers. 27:19:10.398 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 10 produced 69 new k-mers. 28:54:48.186 80G / 97G INFO General (main.cpp : 218) Solid k-mers iteration 11 produced 0 new k-mers. 28:54:48.187 80G / 97G INFO General (main.cpp : 222) Solid k-mers finalized 28:54:48.192 80G / 97G INFO General (hammer_tools.cpp : 220) Starting read correction in 32 threads. 28:54:48.192 80G / 97G INFO General (hammer_tools.cpp : 233) Correcting pair of reads: /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/SUSPHIRE_filtered_1.fastq and /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/SUSPHIRE_filtered_2.fastq 28:55:10.793 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 0 of 3200000 reads. 28:55:36.575 84G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 0 28:55:42.569 84G / 97G INFO General (hammer_tools.cpp : 185) Written batch 0 28:56:18.435 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 1 of 3200000 reads. 28:56:44.274 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 1 28:56:50.497 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 1 28:57:28.314 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 2 of 3200000 reads. 28:57:54.855 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 2 28:58:01.125 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 2 28:58:38.756 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 3 of 3200000 reads. 28:59:05.046 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 3 28:59:11.188 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 3 28:59:48.221 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 4 of 3200000 reads. 29:00:13.602 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 4 29:00:19.733 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 4 29:00:57.508 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 5 of 3200000 reads. 29:01:22.922 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 5 29:01:29.234 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 5 29:02:05.940 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 6 of 3200000 reads. 29:02:31.851 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 6 29:02:38.208 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 6 29:03:16.627 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 7 of 3200000 reads. 29:03:42.662 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 7 29:03:49.189 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 7 29:04:27.173 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 8 of 3200000 reads. 29:04:53.458 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 8 29:05:00.697 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 8 29:05:39.014 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 9 of 3200000 reads. 29:06:05.972 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 9 29:06:13.590 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 9 29:06:51.540 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 10 of 3200000 reads. 29:07:16.424 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 10 29:07:22.618 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 10 29:08:00.868 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 11 of 3200000 reads. 29:08:25.835 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 11 29:08:31.793 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 11 29:09:10.536 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 12 of 3200000 reads. 29:09:37.151 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 12 29:09:43.147 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 12 29:10:20.554 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 13 of 3200000 reads. 29:10:45.796 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 13 29:10:51.814 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 13 29:11:30.390 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 14 of 3200000 reads. 29:11:55.591 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 14 29:12:01.791 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 14 29:12:40.207 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 15 of 3200000 reads. 29:13:05.683 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 15 29:13:11.835 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 15 29:13:50.770 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 16 of 3200000 reads. 29:14:16.032 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 16 29:14:22.720 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 16 29:15:00.455 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 17 of 3200000 reads. 29:15:25.174 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 17 29:15:32.452 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 17 29:16:10.469 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 18 of 3200000 reads. 29:16:35.203 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 18 29:16:41.280 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 18 29:17:17.932 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 19 of 3200000 reads. 29:17:42.327 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 19 29:17:48.294 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 19 29:18:27.265 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 20 of 3200000 reads. 29:18:53.770 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 20 29:18:59.725 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 20 29:19:37.563 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 21 of 3200000 reads. 29:20:03.130 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 21 29:20:09.178 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 21 29:20:47.678 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 22 of 3200000 reads. 29:21:14.034 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 22 29:21:20.211 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 22 29:21:57.870 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 23 of 3200000 reads. 29:22:25.069 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 23 29:22:31.163 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 23 29:23:09.370 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 24 of 3200000 reads. 29:23:34.520 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 24 29:23:40.571 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 24 29:24:18.230 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 25 of 3200000 reads. 29:24:43.172 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 25 29:24:49.202 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 25 29:25:27.810 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 26 of 3200000 reads. 29:25:53.870 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 26 29:25:59.959 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 26 29:26:39.022 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 27 of 3200000 reads. 29:27:04.675 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 27 29:27:11.230 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 27 29:27:48.412 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 28 of 3200000 reads. 29:28:13.243 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 28 29:28:20.324 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 28 29:28:57.766 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 29 of 3200000 reads. 29:29:22.226 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 29 29:29:28.200 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 29 29:30:06.280 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 30 of 3200000 reads. 29:30:31.194 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 30 29:30:37.113 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 30 29:31:16.460 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 31 of 3200000 reads. 29:31:42.743 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 31 29:31:48.682 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 31 29:32:26.710 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 32 of 3200000 reads. 29:32:52.021 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 32 29:32:57.950 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 32 29:33:37.421 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 33 of 3200000 reads. 29:34:02.719 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 33 29:34:08.672 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 33 29:34:46.662 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 34 of 3200000 reads. 29:35:11.878 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 34 29:35:17.999 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 34 29:35:57.628 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 35 of 3200000 reads. 29:36:22.571 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 35 29:36:28.980 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 35 29:37:07.207 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 36 of 3200000 reads. 29:37:34.022 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 36 29:37:40.600 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 36 29:38:20.724 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 37 of 3200000 reads. 29:38:45.843 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 37 29:38:52.520 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 37 29:39:30.826 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 38 of 3200000 reads. 29:39:57.297 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 38 29:40:04.057 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 38 29:40:45.119 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 39 of 3200000 reads. 29:41:12.089 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 39 29:41:19.186 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 39 29:41:57.440 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 40 of 3200000 reads. 29:42:22.120 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 40 29:42:28.234 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 40 29:43:08.355 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 41 of 3200000 reads. 29:43:33.292 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 41 29:43:39.247 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 41 29:44:17.070 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 42 of 3200000 reads. 29:44:43.065 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 42 29:44:49.017 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 42 29:45:29.083 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 43 of 3200000 reads. 29:45:55.375 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 43 29:46:01.334 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 43 29:46:40.190 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 44 of 3200000 reads. 29:47:04.678 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 44 29:47:10.721 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 44 29:47:51.399 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 45 of 3200000 reads. 29:48:16.553 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 45 29:48:22.623 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 45 29:49:01.598 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 46 of 3200000 reads. 29:49:27.263 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 46 29:49:33.366 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 46 29:50:13.417 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 47 of 3200000 reads. 29:50:38.026 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 47 29:50:44.331 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 47 29:51:23.777 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 48 of 3200000 reads. 29:51:48.387 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 48 29:51:55.434 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 48 29:52:35.357 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 49 of 3200000 reads. 29:53:00.543 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 49 29:53:06.521 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 49 29:53:44.876 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 50 of 3200000 reads. 29:54:10.807 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 50 29:54:16.754 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 50 29:54:56.784 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 51 of 3200000 reads. 29:55:23.341 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 51 29:55:29.388 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 51 29:56:10.072 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 52 of 3200000 reads. 29:56:37.273 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 52 29:56:43.331 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 52 29:57:23.380 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 53 of 3200000 reads. 29:57:48.311 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 53 29:57:54.283 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 53 29:58:34.985 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 54 of 3200000 reads. 29:59:00.495 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 54 29:59:06.457 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 54 29:59:47.184 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 55 of 3200000 reads. 30:00:12.946 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 55 30:00:19.127 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 55 30:00:58.322 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 56 of 3200000 reads. 30:01:23.691 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 56 30:01:29.870 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 56 30:02:10.271 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 57 of 3200000 reads. 30:02:35.634 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 57 30:02:42.315 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 57 30:03:21.159 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 58 of 3200000 reads. 30:03:47.426 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 58 30:03:54.682 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 58 30:04:33.644 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 59 of 3200000 reads. 30:04:58.799 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 59 30:05:04.794 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 59 30:05:44.837 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 60 of 3200000 reads. 30:06:10.099 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 60 30:06:16.001 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 60 30:06:54.842 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 61 of 3200000 reads. 30:07:20.389 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 61 30:07:26.289 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 61 30:08:06.726 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 62 of 3200000 reads. 30:08:32.933 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 62 30:08:38.991 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 62 30:09:18.468 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 63 of 3200000 reads. 30:09:45.490 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 63 30:09:51.512 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 63 30:10:32.413 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 64 of 3200000 reads. 30:11:00.105 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 64 30:11:06.184 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 64 30:11:44.054 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 65 of 3200000 reads. 30:12:09.803 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 65 30:12:15.940 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 65 30:12:57.247 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 66 of 3200000 reads. 30:13:24.485 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 66 30:13:30.847 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 66 30:14:09.024 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 67 of 3200000 reads. 30:14:35.593 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 67 30:14:42.045 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 67 30:15:23.103 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 68 of 3200000 reads. 30:15:48.614 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 68 30:15:55.504 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 68 30:16:34.213 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 69 of 3200000 reads. 30:17:00.654 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 69 30:17:07.849 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 69 30:17:49.140 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 70 of 3200000 reads. 30:18:15.525 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 70 30:18:21.601 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 70 30:18:59.805 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 71 of 3200000 reads. 30:19:25.915 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 71 30:19:31.870 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 71 30:20:12.699 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 72 of 3200000 reads. 30:20:38.467 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 72 30:20:44.439 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 72 30:21:23.950 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 73 of 3200000 reads. 30:21:51.502 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 73 30:21:57.469 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 73 30:22:37.851 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 74 of 3200000 reads. 30:23:04.371 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 74 30:23:10.419 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 74 30:23:50.619 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 75 of 3200000 reads. 30:24:18.413 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 75 30:24:24.595 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 75 30:25:05.442 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 76 of 3200000 reads. 30:25:30.686 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 76 30:25:37.306 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 76 30:26:17.642 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 77 of 3200000 reads. 30:26:44.438 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 77 30:26:51.331 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 77 30:27:32.426 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 78 of 3200000 reads. 30:27:58.684 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 78 30:28:05.925 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 78 30:28:46.153 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 79 of 3200000 reads. 30:29:11.885 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 79 30:29:17.927 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 79 30:29:59.083 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 80 of 3200000 reads. 30:30:25.125 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 80 30:30:31.317 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 80 30:31:12.327 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 81 of 3200000 reads. 30:31:39.592 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 81 30:31:45.736 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 81 30:32:26.763 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 82 of 3200000 reads. 30:32:52.350 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 82 30:32:58.319 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 82 30:33:39.755 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 83 of 3200000 reads. 30:34:05.778 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 83 30:34:11.758 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 83 30:34:52.431 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 84 of 3200000 reads. 30:35:19.278 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 84 30:35:25.423 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 84 30:36:05.566 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 85 of 3200000 reads. 30:36:32.644 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 85 30:36:38.795 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 85 30:37:20.660 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 86 of 3200000 reads. 30:37:46.912 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 86 30:37:53.119 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 86 30:38:33.211 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 87 of 3200000 reads. 30:39:00.862 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 87 30:39:07.198 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 87 30:39:48.978 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 88 of 3200000 reads. 30:40:14.197 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 88 30:40:20.912 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 88 30:41:01.565 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 89 of 3200000 reads. 30:41:27.921 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 89 30:41:35.276 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 89 30:42:18.065 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 90 of 3200000 reads. 30:42:45.540 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 90 30:42:51.767 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 90 30:43:31.632 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 91 of 3200000 reads. 30:43:57.436 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 91 30:44:03.479 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 91 30:44:45.188 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 92 of 3200000 reads. 30:45:11.105 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 92 30:45:17.024 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 92 30:45:57.143 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 93 of 3200000 reads. 30:46:23.520 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 93 30:46:29.560 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 93 30:47:10.308 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 94 of 3200000 reads. 30:47:36.767 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 94 30:47:42.841 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 94 30:48:23.384 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 95 of 3200000 reads. 30:48:49.022 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 95 30:48:55.257 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 95 30:49:36.209 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 96 of 3200000 reads. 30:50:02.168 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 96 30:50:08.417 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 96 30:50:48.793 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 97 of 3200000 reads. 30:51:15.002 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 97 30:51:21.586 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 97 30:52:03.229 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 98 of 3200000 reads. 30:52:29.672 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 98 30:52:36.871 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 98 30:53:17.670 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 99 of 3200000 reads. 30:53:44.521 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 99 30:53:51.432 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 99 30:54:33.130 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 100 of 3200000 reads. 30:55:01.026 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 100 30:55:07.431 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 100 30:55:46.316 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 101 of 3200000 reads. 30:56:11.942 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 101 30:56:17.888 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 101 30:56:57.976 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 102 of 3200000 reads. 30:57:25.071 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 102 30:57:31.063 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 102 30:58:07.248 85G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 103 of 2093405 reads. 30:58:25.665 85G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 103 30:58:29.554 85G / 97G INFO General (hammer_tools.cpp : 185) Written batch 103 30:58:32.596 80G / 97G INFO General (hammer_tools.cpp : 233) Correcting pair of reads: /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh50_filtered_1.fastq and /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh50_filtered_2.fastq 30:58:55.574 82G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 0 of 3200000 reads. 30:59:02.054 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 0 30:59:05.756 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 0 30:59:19.788 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 1 of 3200000 reads. 30:59:26.454 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 1 30:59:30.534 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 1 30:59:50.103 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 2 of 3200000 reads. 30:59:56.669 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 2 31:00:00.643 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 2 31:00:10.730 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 3 of 3200000 reads. 31:00:17.324 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 3 31:00:21.183 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 3 31:00:57.275 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 4 of 3200000 reads. 31:01:03.875 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 4 31:01:07.823 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 4 31:01:18.393 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 5 of 3200000 reads. 31:01:24.702 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 5 31:01:28.669 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 5 31:02:02.429 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 6 of 3200000 reads. 31:02:08.876 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 6 31:02:12.745 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 6 31:02:22.158 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 7 of 3200000 reads. 31:02:28.900 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 7 31:02:33.190 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 7 31:03:06.389 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 8 of 3200000 reads. 31:03:12.607 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 8 31:03:16.426 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 8 31:03:26.268 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 9 of 3200000 reads. 31:03:32.521 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 9 31:03:36.497 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 9 31:04:10.088 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 10 of 3200000 reads. 31:04:16.664 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 10 31:04:21.233 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 10 31:04:30.839 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 11 of 3200000 reads. 31:04:37.164 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 11 31:04:41.142 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 11 31:05:10.331 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 12 of 3200000 reads. 31:05:16.789 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 12 31:05:20.637 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 12 31:05:30.234 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 13 of 3200000 reads. 31:05:37.122 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 13 31:05:41.094 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 13 31:06:12.333 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 14 of 3200000 reads. 31:06:18.754 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 14 31:06:22.603 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 14 31:06:32.063 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 15 of 3200000 reads. 31:06:38.484 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 15 31:06:42.385 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 15 31:07:11.166 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 16 of 3200000 reads. 31:07:17.882 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 16 31:07:21.718 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 16 31:07:31.584 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 17 of 3200000 reads. 31:07:37.982 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 17 31:07:42.206 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 17 31:08:14.556 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 18 of 3200000 reads. 31:08:20.856 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 18 31:08:24.665 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 18 31:08:34.348 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 19 of 3200000 reads. 31:08:40.730 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 19 31:08:44.893 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 19 31:09:15.123 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 20 of 3200000 reads. 31:09:22.052 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 20 31:09:26.027 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 20 31:09:35.740 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 21 of 3200000 reads. 31:09:42.101 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 21 31:09:45.933 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 21 31:10:21.821 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 22 of 3200000 reads. 31:10:28.048 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 22 31:10:31.849 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 22 31:10:42.922 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 23 of 3200000 reads. 31:10:49.488 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 23 31:10:53.340 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 23 31:11:20.111 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 24 of 3200000 reads. 31:11:26.697 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 24 31:11:30.526 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 24 31:11:40.559 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 25 of 3200000 reads. 31:11:47.137 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 25 31:11:51.413 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 25 31:12:25.322 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 26 of 3200000 reads. 31:12:31.762 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 26 31:12:35.599 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 26 31:12:45.656 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 27 of 3200000 reads. 31:12:52.125 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 27 31:12:55.987 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 27 31:13:25.983 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 28 of 3200000 reads. 31:13:32.662 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 28 31:13:36.669 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 28 31:13:46.214 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 29 of 3200000 reads. 31:13:52.755 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 29 31:13:56.679 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 29 31:14:32.473 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 30 of 3200000 reads. 31:14:39.135 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 30 31:14:42.983 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 30 31:14:53.792 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 31 of 3200000 reads. 31:15:00.428 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 31 31:15:04.350 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 31 31:15:27.518 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 32 of 3200000 reads. 31:15:34.236 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 32 31:15:38.101 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 32 31:15:47.681 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 33 of 3200000 reads. 31:15:54.106 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 33 31:15:57.926 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 33 31:16:33.590 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 34 of 3200000 reads. 31:16:40.170 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 34 31:16:44.000 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 34 31:16:54.864 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 35 of 3200000 reads. 31:17:01.297 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 35 31:17:05.484 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 35 31:17:30.147 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 36 of 3200000 reads. 31:17:36.637 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 36 31:17:40.572 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 36 31:17:50.269 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 37 of 3200000 reads. 31:17:56.742 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 37 31:18:00.554 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 37 31:18:38.338 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 38 of 3200000 reads. 31:18:44.653 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 38 31:18:48.519 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 38 31:18:57.909 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 39 of 3200000 reads. 31:19:04.779 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 39 31:19:09.657 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 39 31:19:38.772 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 40 of 3200000 reads. 31:19:45.205 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 40 31:19:49.041 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 40 31:19:58.648 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 41 of 3200000 reads. 31:20:05.289 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 41 31:20:09.166 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 41 31:20:46.445 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 42 of 3200000 reads. 31:20:53.078 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 42 31:20:56.964 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 42 31:21:08.251 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 43 of 3200000 reads. 31:21:14.581 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 43 31:21:18.430 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 43 31:21:45.278 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 44 of 3200000 reads. 31:21:51.798 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 44 31:21:55.830 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 44 31:22:05.757 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 45 of 3200000 reads. 31:22:12.529 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 45 31:22:16.429 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 45 31:22:48.622 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 46 of 3200000 reads. 31:22:55.363 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 46 31:22:59.195 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 46 31:23:08.839 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 47 of 3200000 reads. 31:23:15.490 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 47 31:23:19.501 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 47 31:23:31.357 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 48 of 457033 reads. 31:23:32.359 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 48 31:23:32.929 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 48 31:23:35.051 80G / 97G INFO General (hammer_tools.cpp : 233) Correcting pair of reads: /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh75_filtered_1.fastq and /DATA/markop/Pcitri_rnaspades_alldata/input/split_input/Edinburgh75_filtered_2.fastq 31:24:00.759 82G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 0 of 3200000 reads. 31:24:12.210 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 0 31:24:17.043 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 0 31:24:46.474 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 1 of 3200000 reads. 31:24:58.080 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 1 31:25:02.314 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 1 31:25:30.614 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 2 of 3200000 reads. 31:25:42.669 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 2 31:25:47.753 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 2 31:26:18.015 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 3 of 3200000 reads. 31:26:29.692 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 3 31:26:34.011 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 3 31:27:03.431 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 4 of 3200000 reads. 31:27:15.117 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 4 31:27:19.787 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 4 31:27:50.234 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 5 of 3200000 reads. 31:28:01.766 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 5 31:28:06.029 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 5 31:28:34.664 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 6 of 3200000 reads. 31:28:46.422 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 6 31:28:51.115 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 6 31:29:21.711 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 7 of 3200000 reads. 31:29:33.108 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 7 31:29:37.312 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 7 31:29:58.508 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 8 of 3200000 reads. 31:30:10.143 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 8 31:30:14.392 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 8 31:30:27.192 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 9 of 3200000 reads. 31:30:39.017 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 9 31:30:43.950 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 9 31:31:20.482 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 10 of 3200000 reads. 31:31:34.527 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 10 31:31:38.812 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 10 31:32:09.922 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 11 of 3200000 reads. 31:32:24.602 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 11 31:32:28.863 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 11 31:32:57.608 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 12 of 3200000 reads. 31:33:13.370 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 12 31:33:18.168 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 12 31:33:48.675 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 13 of 3200000 reads. 31:34:01.041 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 13 31:34:05.240 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 13 31:34:36.423 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 14 of 3200000 reads. 31:34:49.164 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 14 31:34:54.187 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 14 31:35:24.114 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 15 of 3200000 reads. 31:35:35.620 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 15 31:35:39.870 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 15 31:36:09.748 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 16 of 3200000 reads. 31:36:21.561 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 16 31:36:26.131 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 16 31:36:58.078 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 17 of 3200000 reads. 31:37:09.947 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 17 31:37:14.165 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 17 31:37:42.966 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 18 of 3200000 reads. 31:37:55.051 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 18 31:37:59.298 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 18 31:38:13.712 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 19 of 3200000 reads. 31:38:25.494 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 19 31:38:29.814 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 19 31:38:58.082 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 20 of 3200000 reads. 31:39:09.578 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 20 31:39:13.772 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 20 31:39:44.538 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 21 of 3200000 reads. 31:39:55.862 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 21 31:40:00.253 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 21 31:40:30.195 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 22 of 3200000 reads. 31:40:41.497 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 22 31:40:45.755 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 22 31:41:17.257 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 23 of 3200000 reads. 31:41:28.659 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 23 31:41:32.867 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 23 31:42:01.125 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 24 of 3200000 reads. 31:42:12.485 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 24 31:42:16.714 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 24 31:42:30.838 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 25 of 3200000 reads. 31:42:42.088 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 25 31:42:46.486 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 25 31:43:18.513 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 26 of 3200000 reads. 31:43:29.741 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 26 31:43:33.998 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 26 31:44:03.745 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 27 of 3200000 reads. 31:44:15.323 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 27 31:44:19.663 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 27 31:44:51.783 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 28 of 3200000 reads. 31:45:02.890 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 28 31:45:07.153 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 28 31:45:37.611 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 29 of 3200000 reads. 31:45:49.219 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 29 31:45:53.871 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 29 31:46:19.516 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 30 of 3200000 reads. 31:46:31.400 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 30 31:46:35.673 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 30 31:46:50.608 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 31 of 3200000 reads. 31:47:04.586 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 31 31:47:09.448 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 31 31:47:38.437 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 32 of 3200000 reads. 31:47:52.117 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 32 31:47:56.420 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 32 31:48:26.194 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 33 of 3200000 reads. 31:48:41.022 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 33 31:48:45.417 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 33 31:49:17.148 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 34 of 3200000 reads. 31:49:28.448 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 34 31:49:32.677 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 34 31:50:04.702 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 35 of 3200000 reads. 31:50:16.951 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 35 31:50:21.551 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 35 31:50:53.527 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 36 of 3200000 reads. 31:51:05.134 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 36 31:51:09.615 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 36 31:51:40.283 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 37 of 3200000 reads. 31:51:51.831 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 37 31:51:56.555 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 37 31:52:26.309 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 38 of 3200000 reads. 31:52:37.199 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 38 31:52:41.422 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 38 31:52:58.805 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 39 of 3200000 reads. 31:53:10.366 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 39 31:53:14.611 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 39 31:53:28.170 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 40 of 3200000 reads. 31:53:39.414 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 40 31:53:43.671 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 40 31:54:27.571 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 41 of 3200000 reads. 31:54:39.461 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 41 31:54:43.705 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 41 31:55:13.844 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 42 of 3200000 reads. 31:55:25.078 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 42 31:55:29.327 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 42 31:56:00.063 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 43 of 3200000 reads. 31:56:11.488 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 43 31:56:15.718 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 43 31:56:47.035 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 44 of 3200000 reads. 31:56:58.221 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 44 31:57:02.480 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 44 31:57:17.861 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 45 of 3200000 reads. 31:57:29.728 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 45 31:57:34.017 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 45 31:58:03.960 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 46 of 3200000 reads. 31:58:15.457 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 46 31:58:19.972 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 46 31:58:52.334 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 47 of 3200000 reads. 31:59:03.730 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 47 31:59:07.978 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 47 31:59:41.603 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 48 of 3200000 reads. 31:59:52.926 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 48 31:59:57.146 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 48 32:00:29.781 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 49 of 3200000 reads. 32:00:41.396 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 49 32:00:45.669 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 49 32:01:18.199 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 50 of 3200000 reads. 32:01:29.382 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 50 32:01:33.661 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 50 32:02:06.738 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 51 of 3200000 reads. 32:02:18.034 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 51 32:02:22.307 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 51 32:02:54.329 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 52 of 3200000 reads. 32:03:07.034 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 52 32:03:11.258 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 52 32:03:43.519 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 53 of 3200000 reads. 32:03:59.291 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 53 32:04:03.915 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 53 32:04:36.182 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 54 of 3200000 reads. 32:04:50.314 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 54 32:04:54.554 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 54 32:05:26.425 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 55 of 3200000 reads. 32:05:41.173 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 55 32:05:46.162 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 55 32:06:17.388 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 56 of 3200000 reads. 32:06:29.640 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 56 32:06:33.879 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 56 32:07:06.549 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 57 of 3200000 reads. 32:07:18.920 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 57 32:07:23.742 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 57 32:07:56.167 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 58 of 3200000 reads. 32:08:07.315 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 58 32:08:11.497 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 58 32:08:43.137 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 59 of 3200000 reads. 32:08:54.868 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 59 32:08:59.480 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 59 32:09:32.495 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 60 of 3200000 reads. 32:09:43.894 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 60 32:09:48.162 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 60 32:10:21.908 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 61 of 3200000 reads. 32:10:33.466 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 61 32:10:37.698 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 61 32:11:10.993 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 62 of 3200000 reads. 32:11:22.514 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 62 32:11:26.773 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 62 32:11:30.215 83G / 97G INFO General (hammer_tools.cpp : 168) Prepared batch 63 of 599692 reads. 32:11:32.565 83G / 97G INFO General (hammer_tools.cpp : 175) Processed batch 63 32:11:33.371 83G / 97G INFO General (hammer_tools.cpp : 185) Written batch 63 32:11:35.359 80G / 97G INFO General (hammer_tools.cpp : 274) Correction done. Changed 74689591 bases in 55263781 reads. 32:11:35.359 80G / 97G INFO General (hammer_tools.cpp : 275) Failed to correct 0 bases out of 135963462477. 32:11:43.933 128M / 97G INFO General (main.cpp : 255) Saving corrected dataset description to /DATA/markop/Pcitri_rnaspades_alldata/input/corrected/corrected.yaml 32:11:43.939 128M / 97G INFO General (main.cpp : 262) All done. Exiting. == Compressing corrected reads (with pigz) == Dataset description file was created: /DATA/markop/Pcitri_rnaspades_alldata/input/corrected/corrected.yaml ===== Read error correction finished. * Corrected reads are in /DATA/markop/Pcitri_rnaspades_alldata/input/corrected/ ======= SPAdes pipeline finished. SPAdes log can be found here: /DATA/markop/Pcitri_rnaspades_alldata/input/spades.log Thank you for using SPAdes! administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx230g in1=./input/corrected/SUSPHIRE_filtered_1.00.0_0.cor.fastq.gz in2=./input/corrected/SUSPHIRE_filtered_2.00.0_0.cor.fastq.gz out=./input/SUSPHIRE_ecco_PE.fastq ecco mix vstrict adapters=default java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx230g in1=./input/corrected/SUSPHIRE_filtered_1.00.0_0.cor.fastq.gz in2=./input/corrected/SUSPHIRE_filtered_2.00.0_0.cor.fastq.gz out=./input/SUSPHIRE_ecco_PE.fastq ecco mix vstrict adapters=default Executing jgi.BBMerge [-Xmx230g, in1=./input/corrected/SUSPHIRE_filtered_1.00.0_0.cor.fastq.gz, in2=./input/corrected/SUSPHIRE_filtered_2.00.0_0.cor.fastq.gz, out=./input/SUSPHIRE_ecco_PE.fastq, ecco, mix, vstrict, adapters=default] Version 38.34 Revised arguments: [maxbad=4, margin=3, minqo=8, qualiters=2, ratiomode=t, flatmode=f, minentropy=52, minoverlap=12, minoverlap0=4, maxratio=0.05, ratiomargin=12, ratiooffset=0.5, ratiominoverlapreduction=4, efilter=2, pfilter=0.008, minsecondratio=0.16, minapproxoverlap=22, in1=./input/corrected/SUSPHIRE_filtered_1.00.0_0.cor.fastq.gz, in2=./input/corrected/SUSPHIRE_filtered_2.00.0_0.cor.fastq.gz, out=./input/SUSPHIRE_ecco_PE.fastq, ecco, mix, adapters=default] Writing mergable reads interleaved. Started output threads. Total time: 2574.617 seconds. Pairs: 328795403 Joined: 228323343 69.442% Ambiguous: 100385153 30.531% No Solution: 86907 0.026% Too Short: 0 0.000% Adapters Expected: 79124 0.012% Adapters Found: 64843 0.010% Errors Corrected: 8880345 Avg Insert: 184.1 Standard Deviation: 49.8 Mode: 167 Insert range: 35 - 289 90th percentile: 255 75th percentile: 222 50th percentile: 182 25th percentile: 145 10th percentile: 119 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx230g in=./input/corrected/SUSPHIRE_filtered__unpaired.00.0_0.cor.fastq.gz out=./input/SUSPHIRE_ecco_SE.fastq ecco mix vstrict adapters=default java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx230g in=./input/corrected/SUSPHIRE_filtered__unpaired.00.0_0.cor.fastq.gz out=./input/SUSPHIRE_ecco_SE.fastq ecco mix vstrict adapters=default Executing jgi.BBMerge [-Xmx230g, in=./input/corrected/SUSPHIRE_filtered__unpaired.00.0_0.cor.fastq.gz, out=./input/SUSPHIRE_ecco_SE.fastq, ecco, mix, vstrict, adapters=default] Version 38.34 Revised arguments: [maxbad=4, margin=3, minqo=8, qualiters=2, ratiomode=t, flatmode=f, minentropy=52, minoverlap=12, minoverlap0=4, maxratio=0.05, ratiomargin=12, ratiooffset=0.5, ratiominoverlapreduction=4, efilter=2, pfilter=0.008, minsecondratio=0.16, minapproxoverlap=22, in=./input/corrected/SUSPHIRE_filtered__unpaired.00.0_0.cor.fastq.gz, out=./input/SUSPHIRE_ecco_SE.fastq, ecco, mix, adapters=default] Writing mergable reads interleaved. Started output threads. Total time: 7.126 seconds. Pairs: 1418786 Joined: 24 0.002% Ambiguous: 1418746 99.997% No Solution: 16 0.001% Too Short: 0 0.000% Adapters Expected: 23 0.001% Adapters Found: 0 0.000% Errors Corrected: 8 Avg Insert: 189.8 Standard Deviation: 37.2 Mode: 195 Insert range: 131 - 277 90th percentile: 243 75th percentile: 200 50th percentile: 179 25th percentile: 163 10th percentile: 136 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx230g in1=./input/corrected/Edinburgh50_filtered_1.00.1_0.cor.fastq.gz in2=./input/corrected/Edinburgh50_filtered_2.00.1_0.cor.fastq.gz out=./input/Edinburgh50_ecco_PE.fastq ecco mix vstrict adapters=default java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx230g in1=./input/corrected/Edinburgh50_filtered_1.00.1_0.cor.fastq.gz in2=./input/corrected/Edinburgh50_filtered_2.00.1_0.cor.fastq.gz out=./input/Edinburgh50_ecco_PE.fastq ecco mix vstrict adapters=default Executing jgi.BBMerge [-Xmx230g, in1=./input/corrected/Edinburgh50_filtered_1.00.1_0.cor.fastq.gz, in2=./input/corrected/Edinburgh50_filtered_2.00.1_0.cor.fastq.gz, out=./input/Edinburgh50_ecco_PE.fastq, ecco, mix, vstrict, adapters=default] Version 38.34 Revised arguments: [maxbad=4, margin=3, minqo=8, qualiters=2, ratiomode=t, flatmode=f, minentropy=52, minoverlap=12, minoverlap0=4, maxratio=0.05, ratiomargin=12, ratiooffset=0.5, ratiominoverlapreduction=4, efilter=2, pfilter=0.008, minsecondratio=0.16, minapproxoverlap=22, in1=./input/corrected/Edinburgh50_filtered_1.00.1_0.cor.fastq.gz, in2=./input/corrected/Edinburgh50_filtered_2.00.1_0.cor.fastq.gz, out=./input/Edinburgh50_ecco_PE.fastq, ecco, mix, adapters=default] Writing mergable reads interleaved. Started output threads. Total time: 561.432 seconds. Pairs: 141794014 Joined: 1204313 0.849% Ambiguous: 140587795 99.149% No Solution: 1906 0.001% Too Short: 0 0.000% Adapters Expected: 4227 0.001% Adapters Found: 565 0.000% Errors Corrected: 1743 Avg Insert: 77.5 Standard Deviation: 8.8 Mode: 83 Insert range: 35 - 89 90th percentile: 86 75th percentile: 84 50th percentile: 80 25th percentile: 73 10th percentile: 65 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx230g in=./input/corrected/Edinburgh50_filtered__unpaired.00.1_0.cor.fastq.gz out=./input/Edinburgh50_ecco_SE.fastq ecco mix vstrict adapters=default java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx230g in=./input/corrected/Edinburgh50_filtered__unpaired.00.1_0.cor.fastq.gz out=./input/Edinburgh50_ecco_SE.fastq ecco mix vstrict adapters=default Executing jgi.BBMerge [-Xmx230g, in=./input/corrected/Edinburgh50_filtered__unpaired.00.1_0.cor.fastq.gz, out=./input/Edinburgh50_ecco_SE.fastq, ecco, mix, vstrict, adapters=default] Version 38.34 Revised arguments: [maxbad=4, margin=3, minqo=8, qualiters=2, ratiomode=t, flatmode=f, minentropy=52, minoverlap=12, minoverlap0=4, maxratio=0.05, ratiomargin=12, ratiooffset=0.5, ratiominoverlapreduction=4, efilter=2, pfilter=0.008, minsecondratio=0.16, minapproxoverlap=22, in=./input/corrected/Edinburgh50_filtered__unpaired.00.1_0.cor.fastq.gz, out=./input/Edinburgh50_ecco_SE.fastq, ecco, mix, adapters=default] Writing mergable reads interleaved. Started output threads. Total time: 12.628 seconds. Pairs: 5811999 Joined: 23 0.000% Ambiguous: 5811975 100.000% No Solution: 1 0.000% Too Short: 0 0.000% Adapters Expected: 4 0.000% Adapters Found: 2 0.000% Errors Corrected: 3 Avg Insert: 64.7 Standard Deviation: 11.7 Mode: 64 Insert range: 45 - 88 90th percentile: 77 75th percentile: 73 50th percentile: 64 25th percentile: 52 10th percentile: 45 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx230g in1=./input/corrected/Edinburgh75_filtered_1.00.2_0.cor.fastq.gz in2=./input/corrected/Edinburgh75_filtered_2.00.2_0.cor.fastq.gz out=./input/Edinburgh75_ecco_PE.fastq ecco mix vstrict adapters=default java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx230g in1=./input/corrected/Edinburgh75_filtered_1.00.2_0.cor.fastq.gz in2=./input/corrected/Edinburgh75_filtered_2.00.2_0.cor.fastq.gz out=./input/Edinburgh75_ecco_PE.fastq ecco mix vstrict adapters=default Executing jgi.BBMerge [-Xmx230g, in1=./input/corrected/Edinburgh75_filtered_1.00.2_0.cor.fastq.gz, in2=./input/corrected/Edinburgh75_filtered_2.00.2_0.cor.fastq.gz, out=./input/Edinburgh75_ecco_PE.fastq, ecco, mix, vstrict, adapters=default] Version 38.34 Revised arguments: [maxbad=4, margin=3, minqo=8, qualiters=2, ratiomode=t, flatmode=f, minentropy=52, minoverlap=12, minoverlap0=4, maxratio=0.05, ratiomargin=12, ratiooffset=0.5, ratiominoverlapreduction=4, efilter=2, pfilter=0.008, minsecondratio=0.16, minapproxoverlap=22, in1=./input/corrected/Edinburgh75_filtered_1.00.2_0.cor.fastq.gz, in2=./input/corrected/Edinburgh75_filtered_2.00.2_0.cor.fastq.gz, out=./input/Edinburgh75_ecco_PE.fastq, ecco, mix, adapters=default] Writing mergable reads interleaved. Started output threads. Total time: 1082.559 seconds. Pairs: 198900577 Joined: 71356663 35.876% Ambiguous: 127540144 64.123% No Solution: 3770 0.002% Too Short: 0 0.000% Adapters Expected: 8293 0.002% Adapters Found: 2366 0.001% Errors Corrected: 616171 Avg Insert: 113.2 Standard Deviation: 15.7 Mode: 125 Insert range: 35 - 139 90th percentile: 132 75th percentile: 126 50th percentile: 115 25th percentile: 103 10th percentile: 92 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx230g in=./input/corrected/Edinburgh75_filtered__unpaired.00.2_0.cor.fastq.gz out=./input/Edinburgh75_ecco_SE.fastq ecco mix vstrict adapters=default java -ea -Xmx230g -Xms230g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx230g in=./input/corrected/Edinburgh75_filtered__unpaired.00.2_0.cor.fastq.gz out=./input/Edinburgh75_ecco_SE.fastq ecco mix vstrict adapters=default Executing jgi.BBMerge [-Xmx230g, in=./input/corrected/Edinburgh75_filtered__unpaired.00.2_0.cor.fastq.gz, out=./input/Edinburgh75_ecco_SE.fastq, ecco, mix, vstrict, adapters=default] Version 38.34 Revised arguments: [maxbad=4, margin=3, minqo=8, qualiters=2, ratiomode=t, flatmode=f, minentropy=52, minoverlap=12, minoverlap0=4, maxratio=0.05, ratiomargin=12, ratiooffset=0.5, ratiominoverlapreduction=4, efilter=2, pfilter=0.008, minsecondratio=0.16, minapproxoverlap=22, in=./input/corrected/Edinburgh75_filtered__unpaired.00.2_0.cor.fastq.gz, out=./input/Edinburgh75_ecco_SE.fastq, ecco, mix, adapters=default] Writing mergable reads interleaved. Started output threads. Total time: 4.751 seconds. Pairs: 1627008 Joined: 16 0.001% Ambiguous: 1626984 99.999% No Solution: 8 0.000% Too Short: 0 0.000% Adapters Expected: 12 0.000% Adapters Found: 0 0.000% Errors Corrected: 1 Avg Insert: 103.1 Standard Deviation: 16.1 Mode: 84 Insert range: 75 - 126 90th percentile: 125 75th percentile: 113 50th percentile: 101 25th percentile: 84 10th percentile: 75 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ Split time: 1.473 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13582756 reads: 4.665 seconds. Making clumps. Clump time: 0.617 seconds. Correcting. Correct time: 1.847 seconds. Seed: 1 Reads: 13582756 Clumps: 372041 Corrections: 213846 Made a comparator with k=31, seed=2, border=0, hashes=4 Splitting. Split time: 1.065 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13253038 reads: 138.990 seconds. Making clumps. Clump time: 0.942 seconds. Correcting. Correct time: 2.775 seconds. Seed: 1 Reads: 13253038 Clumps: 371721 Corrections: 202658 Made a comparator with k=31, seed=2, border=0, hashes=4 Splitting. Split time: 1.074 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13130857 reads: 0.000 seconds. Making clumps. Clump time: 0.561 seconds. Correcting. Correct time: 3.725 seconds. Seed: 1 Reads: 13130857 Clumps: 370710 Corrections: 198039 Made a comparator with k=31, seed=2, border=0, hashes=4 Splitting. Split time: 1.006 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12810756 reads: 148.317 seconds. Making clumps. Clump time: 0.545 seconds. Correcting. Correct time: 2.194 seconds. Seed: 1 Reads: 12810756 Clumps: 372008 Corrections: 195874 Made a comparator with k=31, seed=2, border=0, hashes=4 Splitting. Split time: 1.777 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13344427 reads: 0.000 seconds. Making clumps. Clump time: 0.579 seconds. Correcting. Correct time: 2.474 seconds. Seed: 1 Reads: 13344427 Clumps: 372386 Corrections: 201296 Made a comparator with k=31, seed=2, border=0, hashes=4 Splitting. Split time: 1.016 seconds. Writing. Sent writable reads. Fetching reads. No more reads to fetch. Adding poison. Fetched 13444456 reads: 155.045 seconds. Making clumps. Clump time: 0.534 seconds. Correcting. Correct time: 2.404 seconds. Seed: 1 Reads: 13444456 Clumps: 372679 Corrections: 205781 Made a comparator with k=31, seed=2, border=0, hashes=4 Splitting. Split time: 1.587 seconds. Writing. Sent writable reads. Fetching reads. Encountered poison; count=1 A fetch thread finished. No more reads to fetch. Adding poison. Fetched 13282704 reads: 3.134 seconds. Making clumps. Clump time: 0.596 seconds. Correcting. Correct time: 1.809 seconds. Seed: 1 Reads: 13282704 Clumps: 370887 Corrections: 208181 Made a comparator with k=31, seed=2, border=0, hashes=4 Splitting. Split time: 1.097 seconds. Writing. Sent writable reads. Closing fetch threads. A fetch thread finished. Closed fetch threads. Waiting for writing to complete. Write time: 15.022 seconds. Time: 971.598 seconds. Reads Processed: 397m 409.43k reads/sec Bases Processed: 29358m 30.22m bases/sec Reads In: 397801154 Clumps Formed: 5577364 Errors Corrected: 3043143 Executing clump.KmerSort3 [in1=./input/Edinburgh75_eccc_PE_clumpify_p2_temp%_3c90d5d4353a9cc9.fastq, in2=, out=./input/Edinburgh75_eccc_PE_clumpify_p3_temp%_633a47e7bb4a8a87.fastq, out2=, groups=15, ecco=f, addname=false, shortname=f, unpair=f, repair=false, namesort=false, ow=true, ecc, passes=6] Making comparator. Made a comparator with k=31, seed=2, border=0, hashes=4 Making 2 fetch threads. Starting threads. Fetching reads. Fetched 13091180 reads: 129.062 seconds. Making clumps. Clump time: 0.510 seconds. Correcting. Correct time: 1.605 seconds. Seed: 2 Reads: 13091180 Clumps: 358703 Corrections: 71321 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.038 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13119819 reads: 0.000 seconds. Making clumps. Clump time: 0.392 seconds. Correcting. Correct time: 2.380 seconds. Seed: 2 Reads: 13119819 Clumps: 358929 Corrections: 70737 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 0.902 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12992765 reads: 139.304 seconds. Making clumps. Clump time: 0.361 seconds. Correcting. Correct time: 2.196 seconds. Seed: 2 Reads: 12992765 Clumps: 358946 Corrections: 71299 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.037 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12934479 reads: 0.000 seconds. Making clumps. Clump time: 0.419 seconds. Correcting. Correct time: 2.430 seconds. Seed: 2 Reads: 12934479 Clumps: 357726 Corrections: 72451 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 0.905 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13088392 reads: 144.552 seconds. Making clumps. Clump time: 0.387 seconds. Correcting. Correct time: 2.003 seconds. Seed: 2 Reads: 13088392 Clumps: 358241 Corrections: 72448 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.275 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13314848 reads: 1.664 seconds. Making clumps. Clump time: 0.429 seconds. Correcting. Correct time: 1.876 seconds. Seed: 2 Reads: 13314848 Clumps: 357647 Corrections: 71829 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 0.928 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13361142 reads: 155.052 seconds. Making clumps. Clump time: 0.404 seconds. Correcting. Correct time: 2.070 seconds. Seed: 2 Reads: 13361142 Clumps: 358597 Corrections: 70596 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.093 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13064664 reads: 0.000 seconds. Making clumps. Clump time: 0.446 seconds. Correcting. Correct time: 2.406 seconds. Seed: 2 Reads: 13064664 Clumps: 359587 Corrections: 68348 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 0.936 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13480153 reads: 158.798 seconds. Making clumps. Clump time: 0.387 seconds. Correcting. Correct time: 1.987 seconds. Seed: 2 Reads: 13480153 Clumps: 358583 Corrections: 72481 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.613 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13381331 reads: 3.395 seconds. Making clumps. Clump time: 0.440 seconds. Correcting. Correct time: 1.716 seconds. Seed: 2 Reads: 13381331 Clumps: 358344 Corrections: 72828 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.139 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13227015 reads: 154.415 seconds. Making clumps. Clump time: 0.380 seconds. Correcting. Correct time: 1.702 seconds. Seed: 2 Reads: 13227015 Clumps: 358387 Corrections: 68926 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.451 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13154705 reads: 4.745 seconds. Making clumps. Clump time: 0.359 seconds. Correcting. Correct time: 1.514 seconds. Seed: 2 Reads: 13154705 Clumps: 359890 Corrections: 73568 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.243 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13281439 reads: 152.299 seconds. Making clumps. Clump time: 0.443 seconds. Correcting. Correct time: 1.987 seconds. Seed: 2 Reads: 13281439 Clumps: 357759 Corrections: 73843 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.345 seconds. Writing. Sent writable reads. Fetching reads. No more reads to fetch. Adding poison. Fetched 13965547 reads: 3.242 seconds. Making clumps. Clump time: 0.373 seconds. Correcting. Correct time: 2.745 seconds. Seed: 2 Reads: 13965547 Clumps: 357435 Corrections: 77075 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.229 seconds. Writing. Sent writable reads. Fetching reads. A fetch thread finished. Encountered poison; count=1 No more reads to fetch. Adding poison. Fetched 13443098 reads: 112.889 seconds. Making clumps. Clump time: 0.342 seconds. Correcting. Correct time: 1.727 seconds. Seed: 2 Reads: 13443098 Clumps: 358175 Corrections: 75716 Made a comparator with k=31, seed=3, border=0, hashes=4 Splitting. Split time: 1.082 seconds. Writing. Sent writable reads. Closing fetch threads. A fetch thread finished. Closed fetch threads. Waiting for writing to complete. Write time: 2.204 seconds. Time: 1239.652 seconds. Reads Processed: 397m 320.90k reads/sec Bases Processed: 29358m 23.68m bases/sec Reads In: 397801154 Clumps Formed: 5376949 Errors Corrected: 4126609 Executing clump.KmerSort3 [in1=./input/Edinburgh75_eccc_PE_clumpify_p3_temp%_633a47e7bb4a8a87.fastq, in2=, out=./input/Edinburgh75_eccc_PE_clumpify_p4_temp%_3edb2d95d2f22e59.fastq, out2=, groups=15, ecco=f, addname=false, shortname=f, unpair=f, repair=false, namesort=false, ow=true, ecc, passes=6] Making comparator. Made a comparator with k=31, seed=3, border=0, hashes=4 Making 2 fetch threads. Starting threads. Fetching reads. Fetched 13266893 reads: 102.272 seconds. Making clumps. Clump time: 0.826 seconds. Correcting. Correct time: 1.990 seconds. Seed: 3 Reads: 13266893 Clumps: 354554 Corrections: 35907 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.030 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13358539 reads: 0.000 seconds. Making clumps. Clump time: 0.391 seconds. Correcting. Correct time: 2.416 seconds. Seed: 3 Reads: 13358539 Clumps: 355271 Corrections: 36904 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.087 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13476379 reads: 139.452 seconds. Making clumps. Clump time: 0.399 seconds. Correcting. Correct time: 2.306 seconds. Seed: 3 Reads: 13476379 Clumps: 354923 Corrections: 36733 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.054 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13229294 reads: 0.000 seconds. Making clumps. Clump time: 0.517 seconds. Correcting. Correct time: 2.413 seconds. Seed: 3 Reads: 13229294 Clumps: 354965 Corrections: 37245 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 0.946 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13186116 reads: 151.775 seconds. Making clumps. Clump time: 0.390 seconds. Correcting. Correct time: 1.971 seconds. Seed: 3 Reads: 13186116 Clumps: 355423 Corrections: 39407 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.207 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13461725 reads: 0.000 seconds. Making clumps. Clump time: 0.439 seconds. Correcting. Correct time: 2.383 seconds. Seed: 3 Reads: 13461725 Clumps: 353747 Corrections: 38012 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 24.959 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12886206 reads: 131.126 seconds. Making clumps. Clump time: 0.354 seconds. Correcting. Correct time: 1.779 seconds. Seed: 3 Reads: 12886206 Clumps: 354069 Corrections: 34898 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.111 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13761776 reads: 6.859 seconds. Making clumps. Clump time: 0.394 seconds. Correcting. Correct time: 1.959 seconds. Seed: 3 Reads: 13761776 Clumps: 352696 Corrections: 36584 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 6.185 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13209716 reads: 149.606 seconds. Making clumps. Clump time: 0.375 seconds. Correcting. Correct time: 1.828 seconds. Seed: 3 Reads: 13209716 Clumps: 354583 Corrections: 35063 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.274 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13026274 reads: 4.557 seconds. Making clumps. Clump time: 0.361 seconds. Correcting. Correct time: 2.168 seconds. Seed: 3 Reads: 13026274 Clumps: 354094 Corrections: 36172 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.137 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12878620 reads: 158.898 seconds. Making clumps. Clump time: 0.364 seconds. Correcting. Correct time: 1.810 seconds. Seed: 3 Reads: 12878620 Clumps: 355017 Corrections: 36304 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.023 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13340482 reads: 13.602 seconds. Making clumps. Clump time: 0.349 seconds. Correcting. Correct time: 1.652 seconds. Seed: 3 Reads: 13340482 Clumps: 355291 Corrections: 37192 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 0.937 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13624291 reads: 153.962 seconds. Making clumps. Clump time: 0.381 seconds. Correcting. Correct time: 1.693 seconds. Seed: 3 Reads: 13624291 Clumps: 354169 Corrections: 38559 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.122 seconds. Writing. Sent writable reads. Fetching reads. No more reads to fetch. Adding poison. Fetched 13361996 reads: 5.118 seconds. Making clumps. Clump time: 0.337 seconds. Correcting. Correct time: 1.641 seconds. Seed: 3 Reads: 13361996 Clumps: 354637 Corrections: 38260 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 0.966 seconds. Writing. Sent writable reads. Fetching reads. A fetch thread finished. Encountered poison; count=1 No more reads to fetch. Adding poison. Fetched 12832270 reads: 121.822 seconds. Making clumps. Clump time: 0.325 seconds. Correcting. Correct time: 1.995 seconds. Seed: 3 Reads: 12832270 Clumps: 353944 Corrections: 36669 Made a comparator with k=31, seed=4, border=0, hashes=4 Splitting. Split time: 1.036 seconds. Writing. Sent writable reads. Closing fetch threads. A fetch thread finished. Closed fetch threads. Waiting for writing to complete. Write time: 2.180 seconds. Time: 1246.275 seconds. Reads Processed: 397m 319.19k reads/sec Bases Processed: 29358m 23.56m bases/sec Reads In: 397801154 Clumps Formed: 5317383 Errors Corrected: 4680518 Executing clump.KmerSort3 [in1=./input/Edinburgh75_eccc_PE_clumpify_p4_temp%_3edb2d95d2f22e59.fastq, in2=, out=./input/Edinburgh75_eccc_PE_clumpify_p5_temp%_1d4e3de8ea94d25f.fastq, out2=, groups=15, ecco=f, addname=false, shortname=f, unpair=f, repair=false, namesort=false, ow=true, ecc, passes=6] Making comparator. Made a comparator with k=31, seed=4, border=0, hashes=4 Making 2 fetch threads. Starting threads. Fetching reads. Fetched 12908021 reads: 107.499 seconds. Making clumps. Clump time: 0.767 seconds. Correcting. Correct time: 1.820 seconds. Seed: 4 Reads: 12908021 Clumps: 352696 Corrections: 144647 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.219 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13339736 reads: 0.000 seconds. Making clumps. Clump time: 0.418 seconds. Correcting. Correct time: 2.587 seconds. Seed: 4 Reads: 13339736 Clumps: 351988 Corrections: 145705 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.047 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13101797 reads: 143.415 seconds. Making clumps. Clump time: 0.379 seconds. Correcting. Correct time: 1.980 seconds. Seed: 4 Reads: 13101797 Clumps: 352319 Corrections: 143556 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.485 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13609673 reads: 6.896 seconds. Making clumps. Clump time: 0.396 seconds. Correcting. Correct time: 1.756 seconds. Seed: 4 Reads: 13609673 Clumps: 352680 Corrections: 146743 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 6.187 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13179639 reads: 143.183 seconds. Making clumps. Clump time: 0.371 seconds. Correcting. Correct time: 2.540 seconds. Seed: 4 Reads: 13179639 Clumps: 351751 Corrections: 151862 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.510 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12674107 reads: 4.606 seconds. Making clumps. Clump time: 0.344 seconds. Correcting. Correct time: 1.562 seconds. Seed: 4 Reads: 12674107 Clumps: 351764 Corrections: 140333 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.005 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13287355 reads: 158.640 seconds. Making clumps. Clump time: 0.402 seconds. Correcting. Correct time: 1.779 seconds. Seed: 4 Reads: 13287355 Clumps: 352078 Corrections: 147406 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.112 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13266547 reads: 7.866 seconds. Making clumps. Clump time: 0.366 seconds. Correcting. Correct time: 1.717 seconds. Seed: 4 Reads: 13266547 Clumps: 352395 Corrections: 149987 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.101 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13311421 reads: 168.659 seconds. Making clumps. Clump time: 0.577 seconds. Correcting. Correct time: 1.929 seconds. Seed: 4 Reads: 13311421 Clumps: 352605 Corrections: 143960 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.298 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13066372 reads: 0.000 seconds. Making clumps. Clump time: 0.548 seconds. Correcting. Correct time: 2.365 seconds. Seed: 4 Reads: 13066372 Clumps: 352271 Corrections: 146525 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.058 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13283749 reads: 172.587 seconds. Making clumps. Clump time: 0.373 seconds. Correcting. Correct time: 1.644 seconds. Seed: 4 Reads: 13283749 Clumps: 350940 Corrections: 148933 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.146 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13940611 reads: 9.958 seconds. Making clumps. Clump time: 0.359 seconds. Correcting. Correct time: 2.384 seconds. Seed: 4 Reads: 13940611 Clumps: 352708 Corrections: 155542 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 6.620 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13269341 reads: 159.853 seconds. Making clumps. Clump time: 0.399 seconds. Correcting. Correct time: 1.834 seconds. Seed: 4 Reads: 13269341 Clumps: 352406 Corrections: 148099 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.545 seconds. Writing. Sent writable reads. Fetching reads. No more reads to fetch. Adding poison. Fetched 13263146 reads: 4.610 seconds. Making clumps. Clump time: 0.382 seconds. Correcting. Correct time: 1.644 seconds. Seed: 4 Reads: 13263146 Clumps: 351165 Corrections: 149244 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.253 seconds. Writing. Sent writable reads. Fetching reads. Encountered poison; count=1 A fetch thread finished. No more reads to fetch. Adding poison. Fetched 13399062 reads: 128.520 seconds. Making clumps. Clump time: 0.360 seconds. Correcting. Correct time: 1.640 seconds. Seed: 4 Reads: 13399062 Clumps: 350953 Corrections: 146735 Made a comparator with k=31, seed=5, border=0, hashes=4 Splitting. Split time: 1.038 seconds. Writing. Sent writable reads. Closing fetch threads. A fetch thread finished. Closed fetch threads. Waiting for writing to complete. Write time: 2.028 seconds. Time: 1305.051 seconds. Reads Processed: 397m 304.82k reads/sec Bases Processed: 29358m 22.50m bases/sec Reads In: 397801154 Clumps Formed: 5280719 Errors Corrected: 6889795 Executing clump.KmerSort3 [in1=./input/Edinburgh75_eccc_PE_clumpify_p5_temp%_1d4e3de8ea94d25f.fastq, in2=, out=./input/Edinburgh75_eccc_PE_clumpify_p6_temp%_6de24786a524afa0.fastq, out2=, groups=15, ecco=f, addname=false, shortname=f, unpair=f, repair=false, namesort=false, ow=true, ecc, passes=6] Making comparator. Made a comparator with k=31, seed=5, border=0, hashes=4 Making 2 fetch threads. Starting threads. Fetching reads. Fetched 12657830 reads: 104.461 seconds. Making clumps. Clump time: 0.368 seconds. Correcting. Correct time: 3.674 seconds. Seed: 5 Reads: 12657830 Clumps: 340521 Corrections: 49970 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.022 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12996890 reads: 0.000 seconds. Making clumps. Clump time: 0.406 seconds. Correcting. Correct time: 2.379 seconds. Seed: 5 Reads: 12996890 Clumps: 339522 Corrections: 50676 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 0.932 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13575035 reads: 157.075 seconds. Making clumps. Clump time: 0.396 seconds. Correcting. Correct time: 2.449 seconds. Seed: 5 Reads: 13575035 Clumps: 339201 Corrections: 54975 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.497 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13209343 reads: 0.000 seconds. Making clumps. Clump time: 0.547 seconds. Correcting. Correct time: 2.470 seconds. Seed: 5 Reads: 13209343 Clumps: 340150 Corrections: 50021 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 0.961 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13292584 reads: 166.203 seconds. Making clumps. Clump time: 0.678 seconds. Correcting. Correct time: 2.486 seconds. Seed: 5 Reads: 13292584 Clumps: 340600 Corrections: 52463 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.071 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13460064 reads: 0.000 seconds. Making clumps. Clump time: 0.485 seconds. Correcting. Correct time: 2.506 seconds. Seed: 5 Reads: 13460064 Clumps: 340363 Corrections: 54713 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.098 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13075002 reads: 173.184 seconds. Making clumps. Clump time: 0.358 seconds. Correcting. Correct time: 2.291 seconds. Seed: 5 Reads: 13075002 Clumps: 340097 Corrections: 50919 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.475 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13571328 reads: 2.791 seconds. Making clumps. Clump time: 0.376 seconds. Correcting. Correct time: 1.948 seconds. Seed: 5 Reads: 13571328 Clumps: 340854 Corrections: 54444 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 6.551 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13150319 reads: 170.310 seconds. Making clumps. Clump time: 0.361 seconds. Correcting. Correct time: 1.918 seconds. Seed: 5 Reads: 13150319 Clumps: 340414 Corrections: 52545 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.565 seconds. Writing. Sent writable reads. Fetching reads. Fetched 12894462 reads: 2.750 seconds. Making clumps. Clump time: 0.360 seconds. Correcting. Correct time: 1.611 seconds. Seed: 5 Reads: 12894462 Clumps: 339738 Corrections: 50892 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.075 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13316006 reads: 183.449 seconds. Making clumps. Clump time: 0.446 seconds. Correcting. Correct time: 2.545 seconds. Seed: 5 Reads: 13316006 Clumps: 339969 Corrections: 53477 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.191 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13391897 reads: 0.000 seconds. Making clumps. Clump time: 0.417 seconds. Correcting. Correct time: 2.571 seconds. Seed: 5 Reads: 13391897 Clumps: 340476 Corrections: 50805 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 3.606 seconds. Writing. Sent writable reads. Fetching reads. Fetched 13606644 reads: 171.811 seconds. Making clumps. Clump time: 0.370 seconds. Correcting. Correct time: 2.176 seconds. Seed: 5 Reads: 13606644 Clumps: 339032 Corrections: 52432 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.227 seconds. Writing. Sent writable reads. Fetching reads. No more reads to fetch. Adding poison. Fetched 13362745 reads: 6.161 seconds. Making clumps. Clump time: 0.362 seconds. Correcting. Correct time: 1.793 seconds. Seed: 5 Reads: 13362745 Clumps: 340320 Corrections: 53027 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 6.361 seconds. Writing. Sent writable reads. Fetching reads. Encountered poison; count=1 A fetch thread finished. No more reads to fetch. Adding poison. Fetched 13340428 reads: 133.387 seconds. Making clumps. Clump time: 0.366 seconds. Correcting. Correct time: 1.855 seconds. Seed: 5 Reads: 13340428 Clumps: 341238 Corrections: 52846 Made a comparator with k=31, seed=6, border=0, hashes=4 Splitting. Split time: 1.037 seconds. Writing. Sent writable reads. Closing fetch threads. A fetch thread finished. Closed fetch threads. Waiting for writing to complete. Write time: 1.994 seconds. Time: 1368.887 seconds. Reads Processed: 397m 290.60k reads/sec Bases Processed: 29358m 21.45m bases/sec Reads In: 397801154 Clumps Formed: 5102495 Errors Corrected: 7674000 Executing clump.KmerSort3 [in1=./input/Edinburgh75_eccc_PE_clumpify_p6_temp%_6de24786a524afa0.fastq, in2=, out=./input/Edinburgh75_eccc_PE.fastq, out2=, groups=15, ecco=f, addname=false, shortname=f, unpair=f, repair=false, namesort=false, ow=true, ecc, passes=6] Making comparator. Made a comparator with k=31, seed=6, border=0, hashes=4 Making 2 fetch threads. Starting threads. Fetching reads. Fetched 13018466 reads: 110.766 seconds. Making clumps. Clump time: 0.458 seconds. Correcting. Correct time: 2.709 seconds. Seed: 6 Reads: 13018466 Clumps: 333657 Corrections: 26820 Writing. Fetching reads. Fetched 13128606 reads: 0.000 seconds. Making clumps. Clump time: 0.361 seconds. Correcting. Correct time: 1.933 seconds. Seed: 6 Reads: 13128606 Clumps: 334379 Corrections: 25072 Writing. Fetching reads. Fetched 13148859 reads: 163.027 seconds. Making clumps. Clump time: 0.398 seconds. Correcting. Correct time: 2.502 seconds. Seed: 6 Reads: 13148859 Clumps: 334540 Corrections: 25705 Writing. Fetching reads. Fetched 13100261 reads: 0.000 seconds. Making clumps. Clump time: 0.334 seconds. Correcting. Correct time: 1.777 seconds. Seed: 6 Reads: 13100261 Clumps: 334068 Corrections: 25217 Writing. Fetching reads. Fetched 13573439 reads: 177.294 seconds. Making clumps. Clump time: 0.730 seconds. Correcting. Correct time: 2.322 seconds. Seed: 6 Reads: 13573439 Clumps: 333814 Corrections: 29745 Writing. Fetching reads. Fetched 13061500 reads: 0.000 seconds. Making clumps. Clump time: 0.372 seconds. Correcting. Correct time: 1.903 seconds. Seed: 6 Reads: 13061500 Clumps: 333970 Corrections: 27682 Writing. Fetching reads. Fetched 13199144 reads: 185.552 seconds. Making clumps. Clump time: 0.392 seconds. Correcting. Correct time: 2.361 seconds. Seed: 6 Reads: 13199144 Clumps: 334778 Corrections: 26163 Writing. Fetching reads. Fetched 13658367 reads: 2.032 seconds. Making clumps. Clump time: 0.373 seconds. Correcting. Correct time: 1.766 seconds. Seed: 6 Reads: 13658367 Clumps: 334685 Corrections: 29337 Writing. Fetching reads. Fetched 13464957 reads: 188.354 seconds. Making clumps. Clump time: 0.357 seconds. Correcting. Correct time: 1.997 seconds. Seed: 6 Reads: 13464957 Clumps: 333773 Corrections: 27275 Writing. Fetching reads. Fetched 13293233 reads: 4.876 seconds. Making clumps. Clump time: 0.353 seconds. Correcting. Correct time: 1.782 seconds. Seed: 6 Reads: 13293233 Clumps: 333820 Corrections: 25819 Writing. Fetching reads. Fetched 13650432 reads: 186.349 seconds. Making clumps. Clump time: 0.459 seconds. Correcting. Correct time: 2.891 seconds. Seed: 6 Reads: 13650432 Clumps: 333355 Corrections: 27159 Writing. Fetching reads. Fetched 13045723 reads: 0.000 seconds. Making clumps. Clump time: 0.377 seconds. Correcting. Correct time: 1.799 seconds. Seed: 6 Reads: 13045723 Clumps: 334100 Corrections: 27195 Writing. Fetching reads. Fetched 12594195 reads: 195.588 seconds. Making clumps. Clump time: 0.424 seconds. Correcting. Correct time: 3.392 seconds. Seed: 6 Reads: 12594195 Clumps: 334347 Corrections: 24327 Writing. Fetching reads. No more reads to fetch. Adding poison. Fetched 13708864 reads: 0.000 seconds. Making clumps. Clump time: 0.392 seconds. Correcting. Correct time: 2.105 seconds. Seed: 6 Reads: 13708864 Clumps: 333907 Corrections: 27962 Writing. Fetching reads. Encountered poison; count=1 A fetch thread finished. No more reads to fetch. Adding poison. Fetched 13254531 reads: 143.106 seconds. Making clumps. Clump time: 0.349 seconds. Correcting. Correct time: 1.746 seconds. Seed: 6 Reads: 13254531 Clumps: 332372 Corrections: 27151 Writing. Closing fetch threads. A fetch thread finished. Closed fetch threads. Waiting for writing to complete. Write time: 17.502 seconds. Done! Time: 1434.846 seconds. Reads Processed: 397m 277.24k reads/sec Bases Processed: 29358m 20.46m bases/sec Reads In: 397801154 Clumps Formed: 5009565 Errors Corrected: 8076629 Total time: 8694.633 seconds. administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/clumpify.sh -Xmx200g in=./input/Edinburgh75_ecco_SE.fastq out=./input/Edinburgh75_eccc_SE.fastq ecc passes=6 minid=0.98 java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ clump.Clumpify -Xmx200g in=./input/Edinburgh75_ecco_SE.fastq out=./input/Edinburgh75_eccc_SE.fastq ecc passes=6 minid=0.98 Executing clump.Clumpify [-Xmx200g, in=./input/Edinburgh75_ecco_SE.fastq, out=./input/Edinburgh75_eccc_SE.fastq, ecc, passes=6, minid=0.98] Version 38.34 Read Estimate: 6962194 Memory Estimate: 5311 MB Memory Available: 160900 MB Set groups to 1 Executing clump.KmerSort1 [in1=./input/Edinburgh75_ecco_SE.fastq, in2=, out1=./input/Edinburgh75_eccc_SE.fastq, out2=, groups=1, ecco=false, rename=false, shortname=f, unpair=false, repair=false, namesort=false, ow=true, ecc, passes=6] Making comparator. Made a comparator with k=31, seed=1, border=1, hashes=4 Starting cris 0. Fetching reads. Making fetch threads. Starting threads. Waiting for threads. Fetch time: 6.804 seconds. Closing input stream. Combining thread output. Combine time: 0.038 seconds. Sorting. Sort time: 1.040 seconds. Making clumps. Clump time: 0.707 seconds. Correcting. Correct time: 1.376 seconds. Seed: 1 Pass 1. Reads: 3254016 Clumps: 1010148 Corrections: 26784 Made a comparator with k=31, seed=2, border=0, hashes=4 Hashing. Hash time: 0.477 seconds. Sorting. Sort time: 0.627 seconds. Making clumps. Clump time: 0.178 seconds. Correcting. Correct time: 0.519 seconds. Seed: 2 Pass 2. Reads: 3254016 Clumps: 987055 Corrections: 11505 Made a comparator with k=31, seed=3, border=0, hashes=4 Hashing. Hash time: 0.338 seconds. Sorting. Sort time: 0.497 seconds. Making clumps. Clump time: 0.144 seconds. Correcting. Correct time: 0.386 seconds. Seed: 3 Pass 3. Reads: 3254016 Clumps: 985175 Corrections: 6456 Made a comparator with k=31, seed=4, border=0, hashes=4 Hashing. Hash time: 0.269 seconds. Sorting. Sort time: 0.490 seconds. Making clumps. Clump time: 0.139 seconds. Correcting. Correct time: 0.420 seconds. Seed: 4 Pass 4. Reads: 3254016 Clumps: 983817 Corrections: 26754 Made a comparator with k=31, seed=5, border=0, hashes=4 Hashing. Hash time: 0.277 seconds. Sorting. Sort time: 0.479 seconds. Making clumps. Clump time: 0.150 seconds. Correcting. Correct time: 0.417 seconds. Seed: 5 Pass 5. Reads: 3254016 Clumps: 977792 Corrections: 12622 Made a comparator with k=31, seed=6, border=0, hashes=4 Hashing. Hash time: 0.254 seconds. Sorting. Sort time: 0.471 seconds. Making clumps. Clump time: 0.132 seconds. Correcting. Correct time: 0.403 seconds. Seed: 6 Pass 6. Reads: 3254016 Clumps: 974804 Corrections: 7721 Writing. Waiting for writing to complete. Write time: 3.184 seconds. Done! Time: 20.372 seconds. Reads Processed: 3254k 159.73k reads/sec Bases Processed: 226m 11.11m bases/sec Reads In: 3254016 Clumps Formed: 974804 Errors Corrected: 91842 Total time: 21.472 seconds. administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ #Error-correct 3 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/tadpole.sh -Xmx200g in=./input/SUSPHIRE_eccc_PE.fastq out=./input/SUSPHIRE_ecct_PE.fastq ecc java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ assemble.Tadpole -Xmx200g in=./input/SUSPHIRE_eccc_PE.fastq out=./input/SUSPHIRE_ecct_PE.fastq ecc Executing assemble.Tadpole1 [-Xmx200g, in=./input/SUSPHIRE_eccc_PE.fastq, out=./input/SUSPHIRE_ecct_PE.fastq, ecc] Version 38.34 Switching to correct mode because ecc=t. Using 32 threads. Executing kmer.KmerTableSet [-Xmx200g, in=./input/SUSPHIRE_eccc_PE.fastq, out=./input/SUSPHIRE_ecct_PE.fastq, ecc] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=201505m, used=4295m Initialization Time: 0.106 seconds. Loading kmers. Estimated kmer capacity: 9967382606 0.106 seconds. After table allocation: Memory: max=205800m, total=205800m, free=199358m, used=6442m After loading: Memory: max=202321m, total=202321m, free=171393m, used=30928m Input: 657590806 reads 91484444833 bases. Unique Kmers: 552172950 Load Time: 1663.494 seconds. Reads Processed: 657m 395.31k reads/sec Bases Processed: 91484m 55.00m bases/sec Extending/error-correcting/discarding. After extending reads: Memory: max=207874m, total=207874m, free=158381m, used=49493m Input: 657590806 reads 91484444833 bases. Output: 657590806 reads 91484444833 bases. Errors detected: 196974975 Errors corrected: 47494332 (47494332 reassemble) Reads with errors detected: 51850915 (7.88%) Reads fully corrected: 39562025 (76.30% of detected) Reads partly corrected: 954140 (1.84% of detected) Rollbacks: 1296461 (2.50% of detected) Extend/error-correct time: 3656.093 seconds. Total Time: 5319.712 seconds. Reads Processed: 657m 123.61k reads/sec Bases Processed: 91484m 17.20m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/tadpole.sh -Xmx200g in=./input/SUSPHIRE_eccc_SE.fastq out=./input/SUSPHIRE_ecct_SE.fastq ecc java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ assemble.Tadpole -Xmx200g in=./input/SUSPHIRE_eccc_SE.fastq out=./input/SUSPHIRE_ecct_SE.fastq ecc Executing assemble.Tadpole1 [-Xmx200g, in=./input/SUSPHIRE_eccc_SE.fastq, out=./input/SUSPHIRE_ecct_SE.fastq, ecc] Version 38.34 Switching to correct mode because ecc=t. Using 32 threads. Executing kmer.KmerTableSet [-Xmx200g, in=./input/SUSPHIRE_eccc_SE.fastq, out=./input/SUSPHIRE_ecct_SE.fastq, ecc] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=201505m, used=4295m Initialization Time: 0.108 seconds. Loading kmers. Estimated kmer capacity: 9967382606 0.100 seconds. After table allocation: Memory: max=205800m, total=205800m, free=199358m, used=6442m After loading: Memory: max=205800m, total=205800m, free=160703m, used=45097m Input: 2837572 reads 328381653 bases. Unique Kmers: 40402852 Load Time: 6.577 seconds. Reads Processed: 2837k 431.42k reads/sec Bases Processed: 328m 49.93m bases/sec Extending/error-correcting/discarding. After extending reads: Memory: max=205800m, total=205800m, free=186062m, used=19738m Input: 2837572 reads 328381653 bases. Output: 2837572 reads 328381653 bases. Errors detected: 881943 Errors corrected: 241196 (241196 reassemble) Reads with errors detected: 221954 (7.82%) Reads fully corrected: 163196 (73.53% of detected) Reads partly corrected: 8445 (3.80% of detected) Rollbacks: 4390 (1.98% of detected) Extend/error-correct time: 5.241 seconds. Total Time: 11.942 seconds. Reads Processed: 2837k 237.62k reads/sec Bases Processed: 328m 27.50m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/tadpole.sh -Xmx200g in=./input/Edinburgh50_eccc_PE.fastq out=./input/Edinburgh50_ecct_PE.fastq ecc java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ assemble.Tadpole -Xmx200g in=./input/Edinburgh50_eccc_PE.fastq out=./input/Edinburgh50_ecct_PE.fastq ecc Executing assemble.Tadpole1 [-Xmx200g, in=./input/Edinburgh50_eccc_PE.fastq, out=./input/Edinburgh50_ecct_PE.fastq, ecc] Version 38.34 Switching to correct mode because ecc=t. Using 32 threads. Executing kmer.KmerTableSet [-Xmx200g, in=./input/Edinburgh50_eccc_PE.fastq, out=./input/Edinburgh50_ecct_PE.fastq, ecc] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=200432m, used=5368m Initialization Time: 0.051 seconds. Loading kmers. Estimated kmer capacity: 9967382606 0.075 seconds. After table allocation: Memory: max=205800m, total=205800m, free=198284m, used=7516m After loading: Memory: max=205800m, total=205800m, free=156139m, used=49661m Input: 283588028 reads 13727921131 bases. Unique Kmers: 125298285 Load Time: 279.276 seconds. Reads Processed: 283m 1015.44k reads/sec Bases Processed: 13727m 49.16m bases/sec Extending/error-correcting/discarding. After extending reads: Memory: max=210014m, total=210014m, free=196488m, used=13526m Input: 283588028 reads 13727921131 bases. Output: 283588028 reads 13727921131 bases. Errors detected: 23182982 Errors corrected: 9704110 (9704110 reassemble) Reads with errors detected: 10259616 (3.62%) Reads fully corrected: 8640642 (84.22% of detected) Reads partly corrected: 22311 (0.22% of detected) Rollbacks: 185096 (1.80% of detected) Extend/error-correct time: 236.059 seconds. Total Time: 515.401 seconds. Reads Processed: 283m 550.23k reads/sec Bases Processed: 13727m 26.64m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/tadpole.sh -Xmx200g in=./input/Edinburgh50_eccc_SE.fastq out=./input/Edinburgh50_ecct_SE.fastq ecc java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ assemble.Tadpole -Xmx200g in=./input/Edinburgh50_eccc_SE.fastq out=./input/Edinburgh50_ecct_SE.fastq ecc Executing assemble.Tadpole1 [-Xmx200g, in=./input/Edinburgh50_eccc_SE.fastq, out=./input/Edinburgh50_ecct_SE.fastq, ecc] Version 38.34 Switching to correct mode because ecc=t. Using 32 threads. Executing kmer.KmerTableSet [-Xmx200g, in=./input/Edinburgh50_eccc_SE.fastq, out=./input/Edinburgh50_ecct_SE.fastq, ecc] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=201505m, used=4295m Initialization Time: 0.046 seconds. Loading kmers. Estimated kmer capacity: 9967382606 0.080 seconds. After table allocation: Memory: max=205800m, total=205800m, free=199358m, used=6442m After loading: Memory: max=205800m, total=205800m, free=154260m, used=51540m Input: 11623998 reads 542614828 bases. Unique Kmers: 30621138 Load Time: 66.883 seconds. Reads Processed: 11623k 173.80k reads/sec Bases Processed: 542m 8.11m bases/sec Extending/error-correcting/discarding. After extending reads: Memory: max=205800m, total=205800m, free=182303m, used=23497m Input: 11623998 reads 542614828 bases. Output: 11623998 reads 542614828 bases. Errors detected: 619167 Errors corrected: 414397 (414397 reassemble) Reads with errors detected: 404384 (3.48%) Reads fully corrected: 373967 (92.48% of detected) Reads partly corrected: 631 (0.16% of detected) Rollbacks: 3222 (0.80% of detected) Extend/error-correct time: 11.981 seconds. Total Time: 78.924 seconds. Reads Processed: 11623k 147.28k reads/sec Bases Processed: 542m 6.88m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/tadpole.sh -Xmx200g in=./input/Edinburgh75_eccc_PE.fastq out=./input/Edinburgh75_ecct_PE.fastq ecc java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ assemble.Tadpole -Xmx200g in=./input/Edinburgh75_eccc_PE.fastq out=./input/Edinburgh75_ecct_PE.fastq ecc Executing assemble.Tadpole1 [-Xmx200g, in=./input/Edinburgh75_eccc_PE.fastq, out=./input/Edinburgh75_ecct_PE.fastq, ecc] Version 38.34 Switching to correct mode because ecc=t. Using 32 threads. Executing kmer.KmerTableSet [-Xmx200g, in=./input/Edinburgh75_eccc_PE.fastq, out=./input/Edinburgh75_ecct_PE.fastq, ecc] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=200432m, used=5368m Initialization Time: 0.047 seconds. Loading kmers. Estimated kmer capacity: 9967382606 0.091 seconds. After table allocation: Memory: max=205800m, total=205800m, free=197210m, used=8590m After loading: Memory: max=209633m, total=209633m, free=157558m, used=52075m Input: 397801154 reads 29358174269 bases. Unique Kmers: 227287476 Load Time: 663.791 seconds. Reads Processed: 397m 599.29k reads/sec Bases Processed: 29358m 44.23m bases/sec Extending/error-correcting/discarding. After extending reads: Memory: max=203106m, total=203106m, free=164776m, used=38330m Input: 397801154 reads 29358174269 bases. Output: 397801154 reads 29358174269 bases. Errors detected: 38353861 Errors corrected: 10940201 (10940201 reassemble) Reads with errors detected: 11985095 (3.01%) Reads fully corrected: 9172227 (76.53% of detected) Reads partly corrected: 96796 (0.81% of detected) Rollbacks: 232142 (1.94% of detected) Extend/error-correct time: 1177.362 seconds. Total Time: 1841.214 seconds. Reads Processed: 397m 216.05k reads/sec Bases Processed: 29358m 15.95m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/tadpole.sh -Xmx200g in=./input/Edinburgh75_eccc_SE.fastq out=./input/Edinburgh75_ecct_SE.fastq ecc java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ assemble.Tadpole -Xmx200g in=./input/Edinburgh75_eccc_SE.fastq out=./input/Edinburgh75_ecct_SE.fastq ecc Executing assemble.Tadpole1 [-Xmx200g, in=./input/Edinburgh75_eccc_SE.fastq, out=./input/Edinburgh75_ecct_SE.fastq, ecc] Version 38.34 Switching to correct mode because ecc=t. Using 32 threads. Executing kmer.KmerTableSet [-Xmx200g, in=./input/Edinburgh75_eccc_SE.fastq, out=./input/Edinburgh75_ecct_SE.fastq, ecc] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=201505m, used=4295m Initialization Time: 0.156 seconds. Loading kmers. Estimated kmer capacity: 9967382606 0.103 seconds. After table allocation: Memory: max=205800m, total=205800m, free=199358m, used=6442m After loading: Memory: max=205800m, total=205800m, free=158555m, used=47245m Input: 3254016 reads 226333557 bases. Unique Kmers: 26141855 Load Time: 5.658 seconds. Reads Processed: 3254k 575.09k reads/sec Bases Processed: 226m 40.00m bases/sec Extending/error-correcting/discarding. After extending reads: Memory: max=205800m, total=205800m, free=183147m, used=22653m Input: 3254016 reads 226333557 bases. Output: 3254016 reads 226333557 bases. Errors detected: 288535 Errors corrected: 90792 (90792 reassemble) Reads with errors detected: 99801 (3.07%) Reads fully corrected: 74167 (74.31% of detected) Reads partly corrected: 1595 (1.60% of detected) Rollbacks: 989 (0.99% of detected) Extend/error-correct time: 4.550 seconds. Total Time: 10.384 seconds. Reads Processed: 3254k 313.36k reads/sec Bases Processed: 226m 21.80m bases/sec administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ #Merge administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx200g in=./input/SUSPHIRE_ecct_PE.fastq out=./input/SUSPHIRE_merged.fastq outu=./input/SUSPHIRE_unmerged.fastq rem k=62 extend2=50 adapters=default java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx200g in=./input/SUSPHIRE_ecct_PE.fastq out=./input/SUSPHIRE_merged.fastq outu=./input/SUSPHIRE_unmerged.fastq rem k=62 extend2=50 adapters=default Executing jgi.BBMerge [-Xmx200g, in=./input/SUSPHIRE_ecct_PE.fastq, out=./input/SUSPHIRE_merged.fastq, outu=./input/SUSPHIRE_unmerged.fastq, rem, k=62, extend2=50, adapters=default] Version 38.34 Executing assemble.Tadpole2 [in=./input/SUSPHIRE_ecct_PE.fastq, branchlower=3, branchmult1=20.0, branchmult2=3.0, mincountseed=3, mincountextend=2, minprob=0.5, k=62, prealloc=false, prefilter=0, ecctail=false, eccpincer=false, eccreassemble=true] Version 38.34 Using 32 threads. Executing ukmer.KmerTableSetU [in=./input/SUSPHIRE_ecct_PE.fastq, branchlower=3, branchmult1=20.0, branchmult2=3.0, mincountseed=3, mincountextend=2, minprob=0.5, k=62, prealloc=false, prefilter=0, ecctail=false, eccpincer=false, eccreassemble=true] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=201505m, used=4295m Estimated kmer capacity: 4784343650 After table allocation: Memory: max=205800m, total=205800m, free=198284m, used=7516m /DATA/markop/bbmap/bbmerge.sh -Xmx200g in=./input/Edinburgh50_ecct_PE.fastq out=./input/Edinburgh50_merged.fastq outu=./input/Edinburgh50_unmerged.fastq rem k=62 extend2=50 adapters=default /DATA/markop/bbmap/bbmerge.sh -Xmx200g in=./input/Edinburgh75_ecct_PE.fastq out=./input/Edinburgh75_merged.fastq outu=./input/Edinburgh75_unmerged.fastq rem k=62 extend2=50 adapters=default After loading: Memory: max=199649m, total=199649m, free=173936m, used=25713m Input: 657590806 reads 91484444833 bases. Unique Kmers: 484281517 Load Time: 1745.330 seconds. Writing mergable reads merged. Started output threads. Total time: 5607.393 seconds. Pairs: 328795403 Joined: 281041277 85.476% Ambiguous: 47255788 14.372% No Solution: 498338 0.152% Too Short: 0 0.000% Fully Extended: 582053062 88.518% Partly Extended: 51108156 7.773% Not Extended: 24389436 3.709% Adapters Expected: 457268 0.070% Adapters Found: 93372 0.014% Avg Insert: 207.1 Standard Deviation: 69.9 Mode: 167 Insert range: 35 - 391 90th percentile: 310 75th percentile: 254 50th percentile: 197 25th percentile: 153 10th percentile: 123 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx200g in=./input/Edinburgh50_ecct_PE.fastq out=./input/Edinburgh50_merged.fastq outu=./input/Edinburgh50_unmerged.fastq rem k=62 extend2=50 adapters=default java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx200g in=./input/Edinburgh50_ecct_PE.fastq out=./input/Edinburgh50_merged.fastq outu=./input/Edinburgh50_unmerged.fastq rem k=62 extend2=50 adapters=default Executing jgi.BBMerge [-Xmx200g, in=./input/Edinburgh50_ecct_PE.fastq, out=./input/Edinburgh50_merged.fastq, outu=./input/Edinburgh50_unmerged.fastq, rem, k=62, extend2=50, adapters=default] Version 38.34 Executing assemble.Tadpole2 [in=./input/Edinburgh50_ecct_PE.fastq, branchlower=3, branchmult1=20.0, branchmult2=3.0, mincountseed=3, mincountextend=2, minprob=0.5, k=62, prealloc=false, prefilter=0, ecctail=false, eccpincer=false, eccreassemble=true] Version 38.34 Using 32 threads. Executing ukmer.KmerTableSetU [in=./input/Edinburgh50_ecct_PE.fastq, branchlower=3, branchmult1=20.0, branchmult2=3.0, mincountseed=3, mincountextend=2, minprob=0.5, k=62, prealloc=false, prefilter=0, ecctail=false, eccpincer=false, eccreassemble=true] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=201505m, used=4295m Estimated kmer capacity: 4784343650 After table allocation: Memory: max=205800m, total=205800m, free=198284m, used=7516m After loading: Memory: max=205800m, total=205800m, free=157987m, used=47813m Input: 283588028 reads 13727921131 bases. Unique Kmers: 0 Load Time: 266.192 seconds. Writing mergable reads merged. Started output threads. Total time: 549.072 seconds. Pairs: 141794014 Joined: 1848856 1.304% Ambiguous: 139941580 98.694% No Solution: 3578 0.003% Too Short: 0 0.000% Fully Extended: 0 0.000% Partly Extended: 0 0.000% Not Extended: 283580982 100.000% Adapters Expected: 7265 0.003% Adapters Found: 861 0.000% Avg Insert: 80.5 Standard Deviation: 9.1 Mode: 89 Insert range: 35 - 91 90th percentile: 89 75th percentile: 87 50th percentile: 83 25th percentile: 77 10th percentile: 68 administrator@bufo /DATA/markop/Pcitri_rnaspades_alldata $ /DATA/markop/bbmap/bbmerge.sh -Xmx200g in=./input/Edinburgh75_ecct_PE.fastq out=./input/Edinburgh75_merged.fastq outu=./input/Edinburgh75_unmerged.fastq rem k=62 extend2=50 adapters=default java -ea -Xmx200g -Xms200g -cp /DATA/markop/bbmap/current/ jgi.BBMerge -Xmx200g in=./input/Edinburgh75_ecct_PE.fastq out=./input/Edinburgh75_merged.fastq outu=./input/Edinburgh75_unmerged.fastq rem k=62 extend2=50 adapters=default Executing jgi.BBMerge [-Xmx200g, in=./input/Edinburgh75_ecct_PE.fastq, out=./input/Edinburgh75_merged.fastq, outu=./input/Edinburgh75_unmerged.fastq, rem, k=62, extend2=50, adapters=default] Version 38.34 Executing assemble.Tadpole2 [in=./input/Edinburgh75_ecct_PE.fastq, branchlower=3, branchmult1=20.0, branchmult2=3.0, mincountseed=3, mincountextend=2, minprob=0.5, k=62, prealloc=false, prefilter=0, ecctail=false, eccpincer=false, eccreassemble=true] Version 38.34 Using 32 threads. Executing ukmer.KmerTableSetU [in=./input/Edinburgh75_ecct_PE.fastq, branchlower=3, branchmult1=20.0, branchmult2=3.0, mincountseed=3, mincountextend=2, minprob=0.5, k=62, prealloc=false, prefilter=0, ecctail=false, eccpincer=false, eccreassemble=true] Initial: Ways=83, initialSize=128000, prefilter=f, prealloc=f Memory: max=205800m, total=205800m, free=201505m, used=4295m Estimated kmer capacity: 4784343650 After table allocation: Memory: max=205800m, total=205800m, free=199358m, used=6442m After loading: Memory: max=210619m, total=210619m, free=161622m, used=48997m Input: 397801154 reads 29358174269 bases. Unique Kmers: 110012150 Load Time: 588.107 seconds. Writing mergable reads merged. Started output threads. Total time: 2135.634 seconds. Pairs: 198900577 Joined: 167017503 83.970% Ambiguous: 31436521 15.805% No Solution: 446553 0.225% Too Short: 0 0.000% Fully Extended: 353199934 88.791% Partly Extended: 23938583 6.018% Not Extended: 20649433 5.191% Adapters Expected: 584953 0.147% Adapters Found: 135017 0.034% Avg Insert: 146.5 Standard Deviation: 37.3 Mode: 125 Insert range: 35 - 241 90th percentile: 201 75th percentile: 171 50th percentile: 141 25th percentile: 118 10th percentile: 102