Job ID = 2010015 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 36,976,180 reads read : 73,952,360 reads written : 73,952,360 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: 00:16:45 36976180 reads; of these: 36976180 (100.00%) were paired; of these: 6704026 (18.13%) aligned concordantly 0 times 19427387 (52.54%) aligned concordantly exactly 1 time 10844767 (29.33%) aligned concordantly >1 times ---- 6704026 pairs aligned concordantly 0 times; of these: 129705 (1.93%) aligned discordantly 1 time ---- 6574321 pairs aligned 0 times concordantly or discordantly; of these: 13148642 mates make up the pairs; of these: 12336833 (93.83%) aligned 0 times 494122 (3.76%) aligned exactly 1 time 317687 (2.42%) aligned >1 times 83.32% overall alignment rate Time searching: 00:16:45 Overall time: 00:16:45 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] 12895078 / 30353792 = 0.4248 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 @ Fri, 05 Jul 2019 21:45:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.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 @ Fri, 05 Jul 2019 21:45:26: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:45:26: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:45:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.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 @ Fri, 05 Jul 2019 21:45:27: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:45:27: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:45:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.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 @ Fri, 05 Jul 2019 21:45:28: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:45:28: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:45:32: 1000000 INFO @ Fri, 05 Jul 2019 21:45:33: 1000000 INFO @ Fri, 05 Jul 2019 21:45:35: 1000000 INFO @ Fri, 05 Jul 2019 21:45:38: 2000000 INFO @ Fri, 05 Jul 2019 21:45:40: 2000000 INFO @ Fri, 05 Jul 2019 21:45:42: 2000000 INFO @ Fri, 05 Jul 2019 21:45:45: 3000000 INFO @ Fri, 05 Jul 2019 21:45:46: 3000000 INFO @ Fri, 05 Jul 2019 21:45:49: 3000000 INFO @ Fri, 05 Jul 2019 21:45:51: 4000000 INFO @ Fri, 05 Jul 2019 21:45:53: 4000000 INFO @ Fri, 05 Jul 2019 21:45:55: 4000000 INFO @ Fri, 05 Jul 2019 21:45:57: 5000000 INFO @ Fri, 05 Jul 2019 21:45:59: 5000000 INFO @ Fri, 05 Jul 2019 21:46:03: 5000000 INFO @ Fri, 05 Jul 2019 21:46:03: 6000000 INFO @ Fri, 05 Jul 2019 21:46:05: 6000000 INFO @ Fri, 05 Jul 2019 21:46:09: 7000000 INFO @ Fri, 05 Jul 2019 21:46:09: 6000000 INFO @ Fri, 05 Jul 2019 21:46:12: 7000000 INFO @ Fri, 05 Jul 2019 21:46:15: 8000000 INFO @ Fri, 05 Jul 2019 21:46:16: 7000000 INFO @ Fri, 05 Jul 2019 21:46:18: 8000000 INFO @ Fri, 05 Jul 2019 21:46:21: 9000000 INFO @ Fri, 05 Jul 2019 21:46:23: 8000000 INFO @ Fri, 05 Jul 2019 21:46:25: 9000000 INFO @ Fri, 05 Jul 2019 21:46:28: 10000000 INFO @ Fri, 05 Jul 2019 21:46:30: 9000000 INFO @ Fri, 05 Jul 2019 21:46:31: 10000000 INFO @ Fri, 05 Jul 2019 21:46:34: 11000000 INFO @ Fri, 05 Jul 2019 21:46:37: 10000000 INFO @ Fri, 05 Jul 2019 21:46:37: 11000000 INFO @ Fri, 05 Jul 2019 21:46:40: 12000000 INFO @ Fri, 05 Jul 2019 21:46:44: 12000000 INFO @ Fri, 05 Jul 2019 21:46:44: 11000000 INFO @ Fri, 05 Jul 2019 21:46:47: 13000000 INFO @ Fri, 05 Jul 2019 21:46:50: 13000000 INFO @ Fri, 05 Jul 2019 21:46:51: 12000000 INFO @ Fri, 05 Jul 2019 21:46:53: 14000000 INFO @ Fri, 05 Jul 2019 21:46:56: 14000000 INFO @ Fri, 05 Jul 2019 21:46:58: 13000000 INFO @ Fri, 05 Jul 2019 21:46:59: 15000000 INFO @ Fri, 05 Jul 2019 21:47:03: 15000000 INFO @ Fri, 05 Jul 2019 21:47:04: 14000000 INFO @ Fri, 05 Jul 2019 21:47:06: 16000000 INFO @ Fri, 05 Jul 2019 21:47:09: 16000000 INFO @ Fri, 05 Jul 2019 21:47:11: 15000000 INFO @ Fri, 05 Jul 2019 21:47:12: 17000000 INFO @ Fri, 05 Jul 2019 21:47:16: 17000000 INFO @ Fri, 05 Jul 2019 21:47:18: 18000000 INFO @ Fri, 05 Jul 2019 21:47:18: 16000000 INFO @ Fri, 05 Jul 2019 21:47:22: 18000000 INFO @ Fri, 05 Jul 2019 21:47:24: 19000000 INFO @ Fri, 05 Jul 2019 21:47:25: 17000000 INFO @ Fri, 05 Jul 2019 21:47:29: 19000000 INFO @ Fri, 05 Jul 2019 21:47:31: 20000000 INFO @ Fri, 05 Jul 2019 21:47:32: 18000000 INFO @ Fri, 05 Jul 2019 21:47:35: 20000000 INFO @ Fri, 05 Jul 2019 21:47:37: 21000000 INFO @ Fri, 05 Jul 2019 21:47:38: 19000000 INFO @ Fri, 05 Jul 2019 21:47:41: 21000000 INFO @ Fri, 05 Jul 2019 21:47:43: 22000000 INFO @ Fri, 05 Jul 2019 21:47:45: 20000000 INFO @ Fri, 05 Jul 2019 21:47:47: 22000000 INFO @ Fri, 05 Jul 2019 21:47:49: 23000000 INFO @ Fri, 05 Jul 2019 21:47:52: 21000000 INFO @ Fri, 05 Jul 2019 21:47:52: 23000000 INFO @ Fri, 05 Jul 2019 21:47:55: 24000000 INFO @ Fri, 05 Jul 2019 21:47:58: 24000000 INFO @ Fri, 05 Jul 2019 21:47:58: 22000000 INFO @ Fri, 05 Jul 2019 21:48:01: 25000000 INFO @ Fri, 05 Jul 2019 21:48:04: 25000000 INFO @ Fri, 05 Jul 2019 21:48:05: 23000000 INFO @ Fri, 05 Jul 2019 21:48:07: 26000000 INFO @ Fri, 05 Jul 2019 21:48:10: 26000000 INFO @ Fri, 05 Jul 2019 21:48:11: 24000000 INFO @ Fri, 05 Jul 2019 21:48:13: 27000000 INFO @ Fri, 05 Jul 2019 21:48:20: 28000000 INFO @ Fri, 05 Jul 2019 21:48:20: 27000000 INFO @ Fri, 05 Jul 2019 21:48:21: 25000000 INFO @ Fri, 05 Jul 2019 21:48:26: 29000000 INFO @ Fri, 05 Jul 2019 21:48:26: 28000000 INFO @ Fri, 05 Jul 2019 21:48:27: 26000000 INFO @ Fri, 05 Jul 2019 21:48:32: 30000000 INFO @ Fri, 05 Jul 2019 21:48:32: 29000000 INFO @ Fri, 05 Jul 2019 21:48:34: 27000000 INFO @ Fri, 05 Jul 2019 21:48:38: 31000000 INFO @ Fri, 05 Jul 2019 21:48:38: 30000000 INFO @ Fri, 05 Jul 2019 21:48:40: 28000000 INFO @ Fri, 05 Jul 2019 21:48:44: 32000000 INFO @ Fri, 05 Jul 2019 21:48:44: 31000000 INFO @ Fri, 05 Jul 2019 21:48:47: 29000000 INFO @ Fri, 05 Jul 2019 21:48:50: 33000000 INFO @ Fri, 05 Jul 2019 21:48:50: 32000000 INFO @ Fri, 05 Jul 2019 21:48:53: 30000000 INFO @ Fri, 05 Jul 2019 21:48:56: 34000000 INFO @ Fri, 05 Jul 2019 21:48:56: 33000000 INFO @ Fri, 05 Jul 2019 21:49:00: 31000000 INFO @ Fri, 05 Jul 2019 21:49:02: 35000000 INFO @ Fri, 05 Jul 2019 21:49:02: 34000000 INFO @ Fri, 05 Jul 2019 21:49:06: 32000000 INFO @ Fri, 05 Jul 2019 21:49:07: #1 tag size is determined as 24 bps INFO @ Fri, 05 Jul 2019 21:49:07: #1 tag size = 24 INFO @ Fri, 05 Jul 2019 21:49:07: #1 total tags in treatment: 17378301 INFO @ Fri, 05 Jul 2019 21:49:07: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:49:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:49:08: #1 tags after filtering in treatment: 6184378 INFO @ Fri, 05 Jul 2019 21:49:08: #1 Redundant rate of treatment: 0.64 INFO @ Fri, 05 Jul 2019 21:49:08: #1 finished! INFO @ Fri, 05 Jul 2019 21:49:08: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:49:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:49:08: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:49:08: 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 @ Fri, 05 Jul 2019 21:49:08: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 21:49:08: 35000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.05_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/SRX235691/SRX235691.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:49:13: 33000000 INFO @ Fri, 05 Jul 2019 21:49:13: #1 tag size is determined as 24 bps INFO @ Fri, 05 Jul 2019 21:49:13: #1 tag size = 24 INFO @ Fri, 05 Jul 2019 21:49:13: #1 total tags in treatment: 17378301 INFO @ Fri, 05 Jul 2019 21:49:13: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:49:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:49:14: #1 tags after filtering in treatment: 6184378 INFO @ Fri, 05 Jul 2019 21:49:14: #1 Redundant rate of treatment: 0.64 INFO @ Fri, 05 Jul 2019 21:49:14: #1 finished! INFO @ Fri, 05 Jul 2019 21:49:14: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:49:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:49:14: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:49:14: 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 @ Fri, 05 Jul 2019 21:49:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 10 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:49:19: 34000000 INFO @ Fri, 05 Jul 2019 21:49:25: 35000000 INFO @ Fri, 05 Jul 2019 21:49:31: #1 tag size is determined as 24 bps INFO @ Fri, 05 Jul 2019 21:49:31: #1 tag size = 24 INFO @ Fri, 05 Jul 2019 21:49:31: #1 total tags in treatment: 17378301 INFO @ Fri, 05 Jul 2019 21:49:31: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:49:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:49:31: #1 tags after filtering in treatment: 6184378 INFO @ Fri, 05 Jul 2019 21:49:31: #1 Redundant rate of treatment: 0.64 INFO @ Fri, 05 Jul 2019 21:49:31: #1 finished! INFO @ Fri, 05 Jul 2019 21:49:31: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:49:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:49:32: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:49:32: 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 @ Fri, 05 Jul 2019 21:49:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.20_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/SRX235691/SRX235691.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235691/SRX235691.20_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。