Job ID = 2011849 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 19,287,694 reads read : 38,575,388 reads written : 38,574,722 reads 0-length : 666 rm: cannot remove ‘[DSE]RR*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Warning: skipping mate #1 of read 'SRR8313296.811377 811377 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.811377 811377 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.1110742 1110742 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.1110742 1110742 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.1160501 1160501 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.1160501 1160501 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.2900720 2900720 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.2900720 2900720 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.3566789 3566789 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.3566789 3566789 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.3614551 3614551 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.3614551 3614551 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.4010740 4010740 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.4010740 4010740 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.5381083 5381083 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.5381083 5381083 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.5522499 5522499 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.5522499 5522499 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.5909540 5909540 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.5909540 5909540 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.6213949 6213949 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.6213949 6213949 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.6449068 6449068 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.6449068 6449068 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.6626414 6626414 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.6626414 6626414 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.6843566 6843566 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.6843566 6843566 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.6950260 6950260 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.6950260 6950260 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.7128112 7128112 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.7128112 7128112 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.7453096 7453096 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.7453096 7453096 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.8316883 8316883 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.8316883 8316883 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.9459973 9459973 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.9459973 9459973 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.10105312 10105312 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.10105312 10105312 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.12596185 12596185 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.12596185 12596185 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.13672150 13672150 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.13672150 13672150 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.16302527 16302527 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.16302527 16302527 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.17712600 17712600 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.17712600 17712600 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.17836643 17836643 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.17836643 17836643 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.17844509 17844509 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.17844509 17844509 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.17966981 17966981 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.17966981 17966981 length=1' because it was < 2 characters long Warning: skipping mate #1 of read 'SRR8313296.18900484 18900484 length=1' because length (1) <= # seed mismatches (0) Warning: skipping mate #1 of read 'SRR8313296.18900484 18900484 length=1' because it was < 2 characters long Error, fewer reads in file specified with -1 than in file specified with -2 terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 6389730 / 18219944 = 0.3507 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 03:39:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 06 Jul 2019 03:39:16: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:39:16: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:39:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 06 Jul 2019 03:39:17: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:39:17: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:39:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 06 Jul 2019 03:39:18: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:39:18: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:39:27: 1000000 INFO @ Sat, 06 Jul 2019 03:39:27: 1000000 INFO @ Sat, 06 Jul 2019 03:39:29: 1000000 INFO @ Sat, 06 Jul 2019 03:39:38: 2000000 INFO @ Sat, 06 Jul 2019 03:39:38: 2000000 INFO @ Sat, 06 Jul 2019 03:39:40: 2000000 INFO @ Sat, 06 Jul 2019 03:39:49: 3000000 INFO @ Sat, 06 Jul 2019 03:39:50: 3000000 INFO @ Sat, 06 Jul 2019 03:39:51: 3000000 INFO @ Sat, 06 Jul 2019 03:39:59: 4000000 INFO @ Sat, 06 Jul 2019 03:40:01: 4000000 INFO @ Sat, 06 Jul 2019 03:40:02: 4000000 INFO @ Sat, 06 Jul 2019 03:40:10: 5000000 INFO @ Sat, 06 Jul 2019 03:40:11: 5000000 INFO @ Sat, 06 Jul 2019 03:40:13: 5000000 INFO @ Sat, 06 Jul 2019 03:40:20: 6000000 INFO @ Sat, 06 Jul 2019 03:40:22: 6000000 INFO @ Sat, 06 Jul 2019 03:40:25: 6000000 INFO @ Sat, 06 Jul 2019 03:40:30: 7000000 INFO @ Sat, 06 Jul 2019 03:40:33: 7000000 INFO @ Sat, 06 Jul 2019 03:40:36: 7000000 INFO @ Sat, 06 Jul 2019 03:40:40: 8000000 INFO @ Sat, 06 Jul 2019 03:40:44: 8000000 INFO @ Sat, 06 Jul 2019 03:40:47: 8000000 INFO @ Sat, 06 Jul 2019 03:40:50: 9000000 INFO @ Sat, 06 Jul 2019 03:40:54: 9000000 INFO @ Sat, 06 Jul 2019 03:40:58: 9000000 INFO @ Sat, 06 Jul 2019 03:41:00: 10000000 INFO @ Sat, 06 Jul 2019 03:41:05: 10000000 INFO @ Sat, 06 Jul 2019 03:41:09: 10000000 INFO @ Sat, 06 Jul 2019 03:41:11: 11000000 INFO @ Sat, 06 Jul 2019 03:41:15: 11000000 INFO @ Sat, 06 Jul 2019 03:41:21: 11000000 INFO @ Sat, 06 Jul 2019 03:41:21: 12000000 INFO @ Sat, 06 Jul 2019 03:41:26: 12000000 INFO @ Sat, 06 Jul 2019 03:41:31: 13000000 INFO @ Sat, 06 Jul 2019 03:41:31: 12000000 INFO @ Sat, 06 Jul 2019 03:41:37: 13000000 INFO @ Sat, 06 Jul 2019 03:41:42: 14000000 INFO @ Sat, 06 Jul 2019 03:41:43: 13000000 INFO @ Sat, 06 Jul 2019 03:41:48: 14000000 INFO @ Sat, 06 Jul 2019 03:41:51: 15000000 INFO @ Sat, 06 Jul 2019 03:41:54: 14000000 INFO @ Sat, 06 Jul 2019 03:41:58: 15000000 INFO @ Sat, 06 Jul 2019 03:42:01: 16000000 INFO @ Sat, 06 Jul 2019 03:42:05: 15000000 INFO @ Sat, 06 Jul 2019 03:42:08: 16000000 INFO @ Sat, 06 Jul 2019 03:42:11: 17000000 INFO @ Sat, 06 Jul 2019 03:42:15: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 03:42:18: 17000000 INFO @ Sat, 06 Jul 2019 03:42:20: 18000000 INFO @ Sat, 06 Jul 2019 03:42:25: 17000000 INFO @ Sat, 06 Jul 2019 03:42:29: 18000000 INFO @ Sat, 06 Jul 2019 03:42:30: 19000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 03:42:36: 18000000 INFO @ Sat, 06 Jul 2019 03:42:40: 19000000 INFO @ Sat, 06 Jul 2019 03:42:42: 20000000 INFO @ Sat, 06 Jul 2019 03:42:47: 19000000 INFO @ Sat, 06 Jul 2019 03:42:51: 20000000 INFO @ Sat, 06 Jul 2019 03:42:52: 21000000 INFO @ Sat, 06 Jul 2019 03:42:57: 20000000 INFO @ Sat, 06 Jul 2019 03:43:01: 21000000 INFO @ Sat, 06 Jul 2019 03:43:02: 22000000 INFO @ Sat, 06 Jul 2019 03:43:08: 21000000 INFO @ Sat, 06 Jul 2019 03:43:11: 23000000 INFO @ Sat, 06 Jul 2019 03:43:12: 22000000 INFO @ Sat, 06 Jul 2019 03:43:19: 22000000 INFO @ Sat, 06 Jul 2019 03:43:22: 24000000 INFO @ Sat, 06 Jul 2019 03:43:23: 23000000 INFO @ Sat, 06 Jul 2019 03:43:23: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:43:23: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:43:23: #1 total tags in treatment: 11821419 INFO @ Sat, 06 Jul 2019 03:43:23: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:43:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:43:23: #1 tags after filtering in treatment: 7510985 INFO @ Sat, 06 Jul 2019 03:43:23: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 03:43:23: #1 finished! INFO @ Sat, 06 Jul 2019 03:43:23: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:43:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:43:24: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:43:24: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 06 Jul 2019 03:43:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:43:29: 23000000 INFO @ Sat, 06 Jul 2019 03:43:33: 24000000 INFO @ Sat, 06 Jul 2019 03:43:33: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:43:33: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:43:33: #1 total tags in treatment: 11821419 INFO @ Sat, 06 Jul 2019 03:43:33: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:43:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:43:33: #1 tags after filtering in treatment: 7510985 INFO @ Sat, 06 Jul 2019 03:43:33: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 03:43:33: #1 finished! INFO @ Sat, 06 Jul 2019 03:43:33: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:43:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:43:34: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:43:34: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 06 Jul 2019 03:43:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:43:39: 24000000 INFO @ Sat, 06 Jul 2019 03:43:40: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 03:43:40: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 03:43:40: #1 total tags in treatment: 11821419 INFO @ Sat, 06 Jul 2019 03:43:40: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:43:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:43:40: #1 tags after filtering in treatment: 7510985 INFO @ Sat, 06 Jul 2019 03:43:40: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 03:43:40: #1 finished! INFO @ Sat, 06 Jul 2019 03:43:40: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:43:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:43:41: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:43:41: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 06 Jul 2019 03:43:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5126604/SRX5126604.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling