Job ID = 2590297 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 35,850,416 reads read : 71,700,832 reads written : 71,700,832 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: 01:05:19 35850416 reads; of these: 35850416 (100.00%) were paired; of these: 11193741 (31.22%) aligned concordantly 0 times 21640721 (60.36%) aligned concordantly exactly 1 time 3015954 (8.41%) aligned concordantly >1 times ---- 11193741 pairs aligned concordantly 0 times; of these: 3611902 (32.27%) aligned discordantly 1 time ---- 7581839 pairs aligned 0 times concordantly or discordantly; of these: 15163678 mates make up the pairs; of these: 13042132 (86.01%) aligned 0 times 1198637 (7.90%) aligned exactly 1 time 922909 (6.09%) aligned >1 times 81.81% overall alignment rate Time searching: 01:05:19 Overall time: 01:05:19 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 28 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 257275 / 28016499 = 0.0092 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 @ Mon, 12 Aug 2019 23:06:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 12 Aug 2019 23:06:54: #1 read tag files... INFO @ Mon, 12 Aug 2019 23:06:54: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 23:06:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 12 Aug 2019 23:06:55: #1 read tag files... INFO @ Mon, 12 Aug 2019 23:06:55: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 23:06:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 12 Aug 2019 23:06:56: #1 read tag files... INFO @ Mon, 12 Aug 2019 23:06:56: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 23:07:11: 1000000 INFO @ Mon, 12 Aug 2019 23:07:12: 1000000 INFO @ Mon, 12 Aug 2019 23:07:13: 1000000 INFO @ Mon, 12 Aug 2019 23:07:26: 2000000 INFO @ Mon, 12 Aug 2019 23:07:30: 2000000 INFO @ Mon, 12 Aug 2019 23:07:31: 2000000 INFO @ Mon, 12 Aug 2019 23:07:40: 3000000 INFO @ Mon, 12 Aug 2019 23:07:48: 3000000 INFO @ Mon, 12 Aug 2019 23:07:49: 3000000 INFO @ Mon, 12 Aug 2019 23:07:54: 4000000 INFO @ Mon, 12 Aug 2019 23:08:05: 4000000 INFO @ Mon, 12 Aug 2019 23:08:07: 4000000 INFO @ Mon, 12 Aug 2019 23:08:08: 5000000 INFO @ Mon, 12 Aug 2019 23:08:22: 6000000 INFO @ Mon, 12 Aug 2019 23:08:23: 5000000 INFO @ Mon, 12 Aug 2019 23:08:25: 5000000 INFO @ Mon, 12 Aug 2019 23:08:37: 7000000 INFO @ Mon, 12 Aug 2019 23:08:41: 6000000 INFO @ Mon, 12 Aug 2019 23:08:43: 6000000 INFO @ Mon, 12 Aug 2019 23:08:52: 8000000 INFO @ Mon, 12 Aug 2019 23:08:59: 7000000 INFO @ Mon, 12 Aug 2019 23:09:01: 7000000 INFO @ Mon, 12 Aug 2019 23:09:07: 9000000 INFO @ Mon, 12 Aug 2019 23:09:16: 8000000 INFO @ Mon, 12 Aug 2019 23:09:19: 8000000 INFO @ Mon, 12 Aug 2019 23:09:22: 10000000 INFO @ Mon, 12 Aug 2019 23:09:34: 9000000 INFO @ Mon, 12 Aug 2019 23:09:37: 9000000 INFO @ Mon, 12 Aug 2019 23:09:37: 11000000 INFO @ Mon, 12 Aug 2019 23:09:52: 10000000 INFO @ Mon, 12 Aug 2019 23:09:52: 12000000 INFO @ Mon, 12 Aug 2019 23:09:55: 10000000 INFO @ Mon, 12 Aug 2019 23:10:07: 13000000 INFO @ Mon, 12 Aug 2019 23:10:10: 11000000 INFO @ Mon, 12 Aug 2019 23:10:14: 11000000 INFO @ Mon, 12 Aug 2019 23:10:21: 14000000 INFO @ Mon, 12 Aug 2019 23:10:27: 12000000 INFO @ Mon, 12 Aug 2019 23:10:32: 12000000 INFO @ Mon, 12 Aug 2019 23:10:35: 15000000 INFO @ Mon, 12 Aug 2019 23:10:44: 13000000 INFO @ Mon, 12 Aug 2019 23:10:49: 13000000 INFO @ Mon, 12 Aug 2019 23:10:49: 16000000 INFO @ Mon, 12 Aug 2019 23:11:01: 14000000 INFO @ Mon, 12 Aug 2019 23:11:03: 17000000 INFO @ Mon, 12 Aug 2019 23:11:06: 14000000 INFO @ Mon, 12 Aug 2019 23:11:17: 18000000 INFO @ Mon, 12 Aug 2019 23:11:18: 15000000 INFO @ Mon, 12 Aug 2019 23:11:22: 15000000 INFO @ Mon, 12 Aug 2019 23:11:30: 19000000 INFO @ Mon, 12 Aug 2019 23:11:34: 16000000 INFO @ Mon, 12 Aug 2019 23:11:38: 16000000 INFO @ Mon, 12 Aug 2019 23:11:43: 20000000 INFO @ Mon, 12 Aug 2019 23:11:50: 17000000 INFO @ Mon, 12 Aug 2019 23:11:54: 17000000 INFO @ Mon, 12 Aug 2019 23:11:56: 21000000 INFO @ Mon, 12 Aug 2019 23:12:06: 18000000 INFO @ Mon, 12 Aug 2019 23:12:09: 22000000 INFO @ Mon, 12 Aug 2019 23:12:11: 18000000 INFO @ Mon, 12 Aug 2019 23:12:21: 23000000 INFO @ Mon, 12 Aug 2019 23:12:23: 19000000 INFO @ Mon, 12 Aug 2019 23:12:28: 19000000 INFO @ Mon, 12 Aug 2019 23:12:34: 24000000 INFO @ Mon, 12 Aug 2019 23:12:39: 20000000 INFO @ Mon, 12 Aug 2019 23:12:45: 20000000 INFO @ Mon, 12 Aug 2019 23:12:47: 25000000 INFO @ Mon, 12 Aug 2019 23:12:55: 21000000 INFO @ Mon, 12 Aug 2019 23:13:00: 26000000 INFO @ Mon, 12 Aug 2019 23:13:02: 21000000 INFO @ Mon, 12 Aug 2019 23:13:12: 22000000 INFO @ Mon, 12 Aug 2019 23:13:13: 27000000 INFO @ Mon, 12 Aug 2019 23:13:19: 22000000 INFO @ Mon, 12 Aug 2019 23:13:26: 28000000 INFO @ Mon, 12 Aug 2019 23:13:29: 23000000 INFO @ Mon, 12 Aug 2019 23:13:36: 23000000 INFO @ Mon, 12 Aug 2019 23:13:39: 29000000 INFO @ Mon, 12 Aug 2019 23:13:46: 24000000 INFO @ Mon, 12 Aug 2019 23:13:52: 24000000 INFO @ Mon, 12 Aug 2019 23:13:52: 30000000 INFO @ Mon, 12 Aug 2019 23:14:03: 25000000 INFO @ Mon, 12 Aug 2019 23:14:06: 31000000 INFO @ Mon, 12 Aug 2019 23:14:09: 25000000 INFO @ Mon, 12 Aug 2019 23:14:19: 32000000 INFO @ Mon, 12 Aug 2019 23:14:20: 26000000 INFO @ Mon, 12 Aug 2019 23:14:25: 26000000 INFO @ Mon, 12 Aug 2019 23:14:32: 33000000 INFO @ Mon, 12 Aug 2019 23:14:37: 27000000 INFO @ Mon, 12 Aug 2019 23:14:42: 27000000 INFO @ Mon, 12 Aug 2019 23:14:46: 34000000 INFO @ Mon, 12 Aug 2019 23:14:54: 28000000 INFO @ Mon, 12 Aug 2019 23:14:58: 28000000 INFO @ Mon, 12 Aug 2019 23:14:59: 35000000 INFO @ Mon, 12 Aug 2019 23:15:11: 29000000 INFO @ Mon, 12 Aug 2019 23:15:12: 36000000 INFO @ Mon, 12 Aug 2019 23:15:13: 29000000 INFO @ Mon, 12 Aug 2019 23:15:25: 37000000 INFO @ Mon, 12 Aug 2019 23:15:28: 30000000 INFO @ Mon, 12 Aug 2019 23:15:30: 30000000 INFO @ Mon, 12 Aug 2019 23:15:39: 38000000 INFO @ Mon, 12 Aug 2019 23:15:44: 31000000 INFO @ Mon, 12 Aug 2019 23:15:45: 31000000 INFO @ Mon, 12 Aug 2019 23:15:52: 39000000 INFO @ Mon, 12 Aug 2019 23:16:01: 32000000 INFO @ Mon, 12 Aug 2019 23:16:02: 32000000 INFO @ Mon, 12 Aug 2019 23:16:06: 40000000 INFO @ Mon, 12 Aug 2019 23:16:18: 33000000 INFO @ Mon, 12 Aug 2019 23:16:18: 33000000 INFO @ Mon, 12 Aug 2019 23:16:19: 41000000 INFO @ Mon, 12 Aug 2019 23:16:32: 42000000 INFO @ Mon, 12 Aug 2019 23:16:34: 34000000 INFO @ Mon, 12 Aug 2019 23:16:34: 34000000 INFO @ Mon, 12 Aug 2019 23:16:45: 43000000 INFO @ Mon, 12 Aug 2019 23:16:51: 35000000 INFO @ Mon, 12 Aug 2019 23:16:51: 35000000 INFO @ Mon, 12 Aug 2019 23:16:59: 44000000 INFO @ Mon, 12 Aug 2019 23:17:07: 36000000 INFO @ Mon, 12 Aug 2019 23:17:08: 36000000 INFO @ Mon, 12 Aug 2019 23:17:12: 45000000 INFO @ Mon, 12 Aug 2019 23:17:23: 37000000 INFO @ Mon, 12 Aug 2019 23:17:25: 37000000 INFO @ Mon, 12 Aug 2019 23:17:25: 46000000 INFO @ Mon, 12 Aug 2019 23:17:38: 47000000 INFO @ Mon, 12 Aug 2019 23:17:39: 38000000 INFO @ Mon, 12 Aug 2019 23:17:41: 38000000 INFO @ Mon, 12 Aug 2019 23:17:52: 48000000 INFO @ Mon, 12 Aug 2019 23:17:55: 39000000 INFO @ Mon, 12 Aug 2019 23:17:57: 39000000 INFO @ Mon, 12 Aug 2019 23:18:05: 49000000 INFO @ Mon, 12 Aug 2019 23:18:11: 40000000 INFO @ Mon, 12 Aug 2019 23:18:13: 40000000 INFO @ Mon, 12 Aug 2019 23:18:18: 50000000 INFO @ Mon, 12 Aug 2019 23:18:28: 41000000 INFO @ Mon, 12 Aug 2019 23:18:30: 41000000 INFO @ Mon, 12 Aug 2019 23:18:31: 51000000 INFO @ Mon, 12 Aug 2019 23:18:44: 52000000 INFO @ Mon, 12 Aug 2019 23:18:44: 42000000 INFO @ Mon, 12 Aug 2019 23:18:45: 42000000 INFO @ Mon, 12 Aug 2019 23:18:57: 53000000 INFO @ Mon, 12 Aug 2019 23:18:59: 43000000 INFO @ Mon, 12 Aug 2019 23:19:00: 43000000 INFO @ Mon, 12 Aug 2019 23:19:09: 54000000 INFO @ Mon, 12 Aug 2019 23:19:15: 44000000 INFO @ Mon, 12 Aug 2019 23:19:15: 44000000 INFO @ Mon, 12 Aug 2019 23:19:22: 55000000 INFO @ Mon, 12 Aug 2019 23:19:30: 45000000 INFO @ Mon, 12 Aug 2019 23:19:30: 45000000 INFO @ Mon, 12 Aug 2019 23:19:35: 56000000 INFO @ Mon, 12 Aug 2019 23:19:44: 46000000 INFO @ Mon, 12 Aug 2019 23:19:45: 46000000 INFO @ Mon, 12 Aug 2019 23:19:47: 57000000 INFO @ Mon, 12 Aug 2019 23:19:59: 47000000 INFO @ Mon, 12 Aug 2019 23:20:00: 58000000 INFO @ Mon, 12 Aug 2019 23:20:01: 47000000 INFO @ Mon, 12 Aug 2019 23:20:02: #1 tag size is determined as 101 bps INFO @ Mon, 12 Aug 2019 23:20:02: #1 tag size = 101 INFO @ Mon, 12 Aug 2019 23:20:02: #1 total tags in treatment: 24414766 INFO @ Mon, 12 Aug 2019 23:20:02: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 23:20:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 23:20:02: #1 tags after filtering in treatment: 22829211 INFO @ Mon, 12 Aug 2019 23:20:02: #1 Redundant rate of treatment: 0.06 INFO @ Mon, 12 Aug 2019 23:20:02: #1 finished! INFO @ Mon, 12 Aug 2019 23:20:02: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 23:20:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 23:20:04: #2 number of paired peaks: 52 WARNING @ Mon, 12 Aug 2019 23:20:04: Too few paired peaks (52) 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 @ Mon, 12 Aug 2019 23:20:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.20_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/dm3/SRX2950510/SRX2950510.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 23:20:14: 48000000 INFO @ Mon, 12 Aug 2019 23:20:17: 48000000 INFO @ Mon, 12 Aug 2019 23:20:29: 49000000 INFO @ Mon, 12 Aug 2019 23:20:32: 49000000 INFO @ Mon, 12 Aug 2019 23:20:44: 50000000 INFO @ Mon, 12 Aug 2019 23:20:48: 50000000 INFO @ Mon, 12 Aug 2019 23:20:58: 51000000 INFO @ Mon, 12 Aug 2019 23:21:03: 51000000 INFO @ Mon, 12 Aug 2019 23:21:13: 52000000 INFO @ Mon, 12 Aug 2019 23:21:18: 52000000 INFO @ Mon, 12 Aug 2019 23:21:27: 53000000 INFO @ Mon, 12 Aug 2019 23:21:33: 53000000 INFO @ Mon, 12 Aug 2019 23:21:42: 54000000 INFO @ Mon, 12 Aug 2019 23:21:48: 54000000 INFO @ Mon, 12 Aug 2019 23:21:57: 55000000 INFO @ Mon, 12 Aug 2019 23:22:03: 55000000 INFO @ Mon, 12 Aug 2019 23:22:13: 56000000 INFO @ Mon, 12 Aug 2019 23:22:19: 56000000 INFO @ Mon, 12 Aug 2019 23:22:29: 57000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 12 Aug 2019 23:22:35: 57000000 INFO @ Mon, 12 Aug 2019 23:22:46: 58000000 INFO @ Mon, 12 Aug 2019 23:22:48: #1 tag size is determined as 101 bps INFO @ Mon, 12 Aug 2019 23:22:48: #1 tag size = 101 INFO @ Mon, 12 Aug 2019 23:22:48: #1 total tags in treatment: 24414766 INFO @ Mon, 12 Aug 2019 23:22:48: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 23:22:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 23:22:49: #1 tags after filtering in treatment: 22829211 INFO @ Mon, 12 Aug 2019 23:22:49: #1 Redundant rate of treatment: 0.06 INFO @ Mon, 12 Aug 2019 23:22:49: #1 finished! INFO @ Mon, 12 Aug 2019 23:22:49: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 23:22:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 23:22:50: 58000000 INFO @ Mon, 12 Aug 2019 23:22:51: #2 number of paired peaks: 52 WARNING @ Mon, 12 Aug 2019 23:22:51: Too few paired peaks (52) 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 @ Mon, 12 Aug 2019 23:22:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.05_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/dm3/SRX2950510/SRX2950510.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 23:22:53: #1 tag size is determined as 101 bps INFO @ Mon, 12 Aug 2019 23:22:53: #1 tag size = 101 INFO @ Mon, 12 Aug 2019 23:22:53: #1 total tags in treatment: 24414766 INFO @ Mon, 12 Aug 2019 23:22:53: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 23:22:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 23:22:53: #1 tags after filtering in treatment: 22829211 INFO @ Mon, 12 Aug 2019 23:22:53: #1 Redundant rate of treatment: 0.06 INFO @ Mon, 12 Aug 2019 23:22:53: #1 finished! INFO @ Mon, 12 Aug 2019 23:22:53: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 23:22:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 23:22:55: #2 number of paired peaks: 52 WARNING @ Mon, 12 Aug 2019 23:22:55: Too few paired peaks (52) 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 @ Mon, 12 Aug 2019 23:22:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.10_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/dm3/SRX2950510/SRX2950510.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2950510/SRX2950510.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。