Job ID = 2010784 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 15,216,466 reads read : 30,432,932 reads written : 30,432,932 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 Multiseed full-index search: 00:11:36 15216466 reads; of these: 15216466 (100.00%) were paired; of these: 4877296 (32.05%) aligned concordantly 0 times 6425293 (42.23%) aligned concordantly exactly 1 time 3913877 (25.72%) aligned concordantly >1 times ---- 4877296 pairs aligned concordantly 0 times; of these: 4743 (0.10%) aligned discordantly 1 time ---- 4872553 pairs aligned 0 times concordantly or discordantly; of these: 9745106 mates make up the pairs; of these: 9143914 (93.83%) aligned 0 times 161096 (1.65%) aligned exactly 1 time 440096 (4.52%) aligned >1 times 69.95% overall alignment rate Time searching: 00:11:36 Overall time: 00:11:36 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 12 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] 2100279 / 10335023 = 0.2032 in library ' ' 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 01:14:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.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 01:14:53: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:14:53: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:14:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.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 01:14:54: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:14:54: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:14:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.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 01:14:55: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:14:55: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:15:01: 1000000 INFO @ Sat, 06 Jul 2019 01:15:03: 1000000 INFO @ Sat, 06 Jul 2019 01:15:03: 1000000 INFO @ Sat, 06 Jul 2019 01:15:10: 2000000 INFO @ Sat, 06 Jul 2019 01:15:11: 2000000 INFO @ Sat, 06 Jul 2019 01:15:12: 2000000 INFO @ Sat, 06 Jul 2019 01:15:18: 3000000 INFO @ Sat, 06 Jul 2019 01:15:20: 3000000 INFO @ Sat, 06 Jul 2019 01:15:20: 3000000 INFO @ Sat, 06 Jul 2019 01:15:26: 4000000 INFO @ Sat, 06 Jul 2019 01:15:28: 4000000 INFO @ Sat, 06 Jul 2019 01:15:28: 4000000 INFO @ Sat, 06 Jul 2019 01:15:34: 5000000 INFO @ Sat, 06 Jul 2019 01:15:36: 5000000 INFO @ Sat, 06 Jul 2019 01:15:37: 5000000 INFO @ Sat, 06 Jul 2019 01:15:42: 6000000 INFO @ Sat, 06 Jul 2019 01:15:44: 6000000 INFO @ Sat, 06 Jul 2019 01:15:45: 6000000 INFO @ Sat, 06 Jul 2019 01:15:50: 7000000 INFO @ Sat, 06 Jul 2019 01:15:52: 7000000 INFO @ Sat, 06 Jul 2019 01:15:53: 7000000 INFO @ Sat, 06 Jul 2019 01:15:58: 8000000 INFO @ Sat, 06 Jul 2019 01:16:00: 8000000 INFO @ Sat, 06 Jul 2019 01:16:02: 8000000 INFO @ Sat, 06 Jul 2019 01:16:06: 9000000 INFO @ Sat, 06 Jul 2019 01:16:08: 9000000 INFO @ Sat, 06 Jul 2019 01:16:10: 9000000 INFO @ Sat, 06 Jul 2019 01:16:14: 10000000 INFO @ Sat, 06 Jul 2019 01:16:16: 10000000 INFO @ Sat, 06 Jul 2019 01:16:18: 10000000 INFO @ Sat, 06 Jul 2019 01:16:22: 11000000 INFO @ Sat, 06 Jul 2019 01:16:23: 11000000 INFO @ Sat, 06 Jul 2019 01:16:26: 11000000 INFO @ Sat, 06 Jul 2019 01:16:29: 12000000 INFO @ Sat, 06 Jul 2019 01:16:30: 12000000 INFO @ Sat, 06 Jul 2019 01:16:34: 12000000 INFO @ Sat, 06 Jul 2019 01:16:37: 13000000 INFO @ Sat, 06 Jul 2019 01:16:38: 13000000 INFO @ Sat, 06 Jul 2019 01:16:42: 13000000 INFO @ Sat, 06 Jul 2019 01:16:45: 14000000 INFO @ Sat, 06 Jul 2019 01:16:46: 14000000 INFO @ Sat, 06 Jul 2019 01:16:50: 14000000 INFO @ Sat, 06 Jul 2019 01:16:53: 15000000 INFO @ Sat, 06 Jul 2019 01:16:54: 15000000 INFO @ Sat, 06 Jul 2019 01:16:58: 15000000 INFO @ Sat, 06 Jul 2019 01:17:01: 16000000 INFO @ Sat, 06 Jul 2019 01:17:02: 16000000 INFO @ Sat, 06 Jul 2019 01:17:06: 16000000 INFO @ Sat, 06 Jul 2019 01:17:10: 17000000 INFO @ Sat, 06 Jul 2019 01:17:10: 17000000 INFO @ Sat, 06 Jul 2019 01:17:10: #1 tag size is determined as 45 bps INFO @ Sat, 06 Jul 2019 01:17:10: #1 tag size = 45 INFO @ Sat, 06 Jul 2019 01:17:10: #1 total tags in treatment: 8239395 INFO @ Sat, 06 Jul 2019 01:17:10: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:17:10: #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 01:17:10: #1 tags after filtering in treatment: 5072268 INFO @ Sat, 06 Jul 2019 01:17:10: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 01:17:10: #1 finished! INFO @ Sat, 06 Jul 2019 01:17:10: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:17:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:17:11: #1 tag size is determined as 45 bps INFO @ Sat, 06 Jul 2019 01:17:11: #1 tag size = 45 INFO @ Sat, 06 Jul 2019 01:17:11: #1 total tags in treatment: 8239395 INFO @ Sat, 06 Jul 2019 01:17:11: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:17:11: #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 01:17:11: #1 tags after filtering in treatment: 5072268 INFO @ Sat, 06 Jul 2019 01:17:11: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 01:17:11: #1 finished! INFO @ Sat, 06 Jul 2019 01:17:11: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:17:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:17:11: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:17:11: 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 01:17:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.05_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/SRX404503/SRX404503.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:17:11: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:17:11: 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 01:17:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.20_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/SRX404503/SRX404503.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:17:13: 17000000 INFO @ Sat, 06 Jul 2019 01:17:14: #1 tag size is determined as 45 bps INFO @ Sat, 06 Jul 2019 01:17:14: #1 tag size = 45 INFO @ Sat, 06 Jul 2019 01:17:14: #1 total tags in treatment: 8239395 INFO @ Sat, 06 Jul 2019 01:17:14: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:17:14: #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 01:17:14: #1 tags after filtering in treatment: 5072268 INFO @ Sat, 06 Jul 2019 01:17:14: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 01:17:14: #1 finished! INFO @ Sat, 06 Jul 2019 01:17:14: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:17:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:17:14: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:17:14: 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 01:17:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.10_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/SRX404503/SRX404503.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX404503/SRX404503.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。