Job ID = 9158465 sra ファイルのダウンロード中... Completed: 3875927K bytes transferred in 33 seconds (937899K bits/sec), in 2 files, 3 directories. sra ファイルのダウンロードが完了しました。 Read layout: SINGLE fastq に変換中... Written 79019649 spots for /home/okishinya/chipatlas/results/dm3/SRX1342248/SRR2672987.sra Written 79019649 spots total Written 91027136 spots for /home/okishinya/chipatlas/results/dm3/SRX1342248/SRR2672988.sra Written 91027136 spots total 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: 00:49:39 170046785 reads; of these: 170046785 (100.00%) were unpaired; of these: 11025157 (6.48%) aligned 0 times 130149437 (76.54%) aligned exactly 1 time 28872191 (16.98%) aligned >1 times 93.52% overall alignment rate Time searching: 00:49:39 Overall time: 00:49:39 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 40 files... [bam_rmdupse_core] 100601080 / 159021628 = 0.6326 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 @ Tue, 27 Jun 2017 18:11:34: # Command line: callpeak -t SRX1342248.bam -f BAM -g dm -n SRX1342248.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1342248.05 # format = BAM # ChIP-seq file = ['SRX1342248.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 @ Tue, 27 Jun 2017 18:11:34: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:11:34: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:11:34: # Command line: callpeak -t SRX1342248.bam -f BAM -g dm -n SRX1342248.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1342248.10 # format = BAM # ChIP-seq file = ['SRX1342248.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 @ Tue, 27 Jun 2017 18:11:34: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:11:34: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:11:34: # Command line: callpeak -t SRX1342248.bam -f BAM -g dm -n SRX1342248.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1342248.20 # format = BAM # ChIP-seq file = ['SRX1342248.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 @ Tue, 27 Jun 2017 18:11:34: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:11:34: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:11:41: 1000000 INFO @ Tue, 27 Jun 2017 18:11:41: 1000000 INFO @ Tue, 27 Jun 2017 18:11:41: 1000000 INFO @ Tue, 27 Jun 2017 18:11:47: 2000000 INFO @ Tue, 27 Jun 2017 18:11:47: 2000000 INFO @ Tue, 27 Jun 2017 18:11:47: 2000000 INFO @ Tue, 27 Jun 2017 18:11:53: 3000000 INFO @ Tue, 27 Jun 2017 18:11:54: 3000000 INFO @ Tue, 27 Jun 2017 18:11:54: 3000000 INFO @ Tue, 27 Jun 2017 18:12:00: 4000000 INFO @ Tue, 27 Jun 2017 18:12:01: 4000000 INFO @ Tue, 27 Jun 2017 18:12:01: 4000000 INFO @ Tue, 27 Jun 2017 18:12:06: 5000000 INFO @ Tue, 27 Jun 2017 18:12:07: 5000000 INFO @ Tue, 27 Jun 2017 18:12:08: 5000000 INFO @ Tue, 27 Jun 2017 18:12:12: 6000000 INFO @ Tue, 27 Jun 2017 18:12:14: 6000000 INFO @ Tue, 27 Jun 2017 18:12:14: 6000000 INFO @ Tue, 27 Jun 2017 18:12:19: 7000000 INFO @ Tue, 27 Jun 2017 18:12:21: 7000000 INFO @ Tue, 27 Jun 2017 18:12:21: 7000000 INFO @ Tue, 27 Jun 2017 18:12:25: 8000000 INFO @ Tue, 27 Jun 2017 18:12:27: 8000000 INFO @ Tue, 27 Jun 2017 18:12:28: 8000000 INFO @ Tue, 27 Jun 2017 18:12:31: 9000000 INFO @ Tue, 27 Jun 2017 18:12:34: 9000000 INFO @ Tue, 27 Jun 2017 18:12:34: 9000000 INFO @ Tue, 27 Jun 2017 18:12:37: 10000000 INFO @ Tue, 27 Jun 2017 18:12:41: 10000000 INFO @ Tue, 27 Jun 2017 18:12:41: 10000000 INFO @ Tue, 27 Jun 2017 18:12:44: 11000000 INFO @ Tue, 27 Jun 2017 18:12:48: 11000000 INFO @ Tue, 27 Jun 2017 18:12:48: 11000000 INFO @ Tue, 27 Jun 2017 18:12:50: 12000000 INFO @ Tue, 27 Jun 2017 18:12:54: 12000000 INFO @ Tue, 27 Jun 2017 18:12:54: 12000000 INFO @ Tue, 27 Jun 2017 18:12:56: 13000000 INFO @ Tue, 27 Jun 2017 18:13:01: 13000000 INFO @ Tue, 27 Jun 2017 18:13:01: 13000000 INFO @ Tue, 27 Jun 2017 18:13:03: 14000000 INFO @ Tue, 27 Jun 2017 18:13:08: 14000000 INFO @ Tue, 27 Jun 2017 18:13:08: 14000000 INFO @ Tue, 27 Jun 2017 18:13:09: 15000000 INFO @ Tue, 27 Jun 2017 18:13:14: 15000000 INFO @ Tue, 27 Jun 2017 18:13:14: 15000000 INFO @ Tue, 27 Jun 2017 18:13:15: 16000000 INFO @ Tue, 27 Jun 2017 18:13:21: 16000000 INFO @ Tue, 27 Jun 2017 18:13:21: 16000000 INFO @ Tue, 27 Jun 2017 18:13:21: 17000000 INFO @ Tue, 27 Jun 2017 18:13:28: 17000000 INFO @ Tue, 27 Jun 2017 18:13:28: 17000000 INFO @ Tue, 27 Jun 2017 18:13:28: 18000000 INFO @ Tue, 27 Jun 2017 18:13:34: 19000000 INFO @ Tue, 27 Jun 2017 18:13:34: 18000000 INFO @ Tue, 27 Jun 2017 18:13:34: 18000000 INFO @ Tue, 27 Jun 2017 18:13:40: 20000000 INFO @ Tue, 27 Jun 2017 18:13:41: 19000000 INFO @ Tue, 27 Jun 2017 18:13:41: 19000000 INFO @ Tue, 27 Jun 2017 18:13:47: 21000000 INFO @ Tue, 27 Jun 2017 18:13:47: 20000000 INFO @ Tue, 27 Jun 2017 18:13:48: 20000000 INFO @ Tue, 27 Jun 2017 18:13:53: 22000000 INFO @ Tue, 27 Jun 2017 18:13:54: 21000000 INFO @ Tue, 27 Jun 2017 18:13:54: 21000000 INFO @ Tue, 27 Jun 2017 18:13:59: 23000000 INFO @ Tue, 27 Jun 2017 18:14:01: 22000000 INFO @ Tue, 27 Jun 2017 18:14:01: 22000000 INFO @ Tue, 27 Jun 2017 18:14:06: 24000000 INFO @ Tue, 27 Jun 2017 18:14:07: 23000000 INFO @ Tue, 27 Jun 2017 18:14:08: 23000000 INFO @ Tue, 27 Jun 2017 18:14:12: 25000000 INFO @ Tue, 27 Jun 2017 18:14:14: 24000000 INFO @ Tue, 27 Jun 2017 18:14:14: 24000000 INFO @ Tue, 27 Jun 2017 18:14:18: 26000000 INFO @ Tue, 27 Jun 2017 18:14:21: 25000000 INFO @ Tue, 27 Jun 2017 18:14:21: 25000000 INFO @ Tue, 27 Jun 2017 18:14:25: 27000000 INFO @ Tue, 27 Jun 2017 18:14:27: 26000000 INFO @ Tue, 27 Jun 2017 18:14:28: 26000000 INFO @ Tue, 27 Jun 2017 18:14:31: 28000000 INFO @ Tue, 27 Jun 2017 18:14:34: 27000000 INFO @ Tue, 27 Jun 2017 18:14:35: 27000000 INFO @ Tue, 27 Jun 2017 18:14:37: 29000000 INFO @ Tue, 27 Jun 2017 18:14:41: 28000000 INFO @ Tue, 27 Jun 2017 18:14:41: 28000000 INFO @ Tue, 27 Jun 2017 18:14:44: 30000000 INFO @ Tue, 27 Jun 2017 18:14:48: 29000000 INFO @ Tue, 27 Jun 2017 18:14:48: 29000000 INFO @ Tue, 27 Jun 2017 18:14:50: 31000000 INFO @ Tue, 27 Jun 2017 18:14:54: 30000000 INFO @ Tue, 27 Jun 2017 18:14:55: 30000000 INFO @ Tue, 27 Jun 2017 18:14:56: 32000000 INFO @ Tue, 27 Jun 2017 18:15:01: 31000000 INFO @ Tue, 27 Jun 2017 18:15:01: 31000000 INFO @ Tue, 27 Jun 2017 18:15:03: 33000000 INFO @ Tue, 27 Jun 2017 18:15:08: 32000000 INFO @ Tue, 27 Jun 2017 18:15:08: 32000000 INFO @ Tue, 27 Jun 2017 18:15:09: 34000000 INFO @ Tue, 27 Jun 2017 18:15:14: 33000000 INFO @ Tue, 27 Jun 2017 18:15:14: 33000000 INFO @ Tue, 27 Jun 2017 18:15:16: 35000000 INFO @ Tue, 27 Jun 2017 18:15:21: 34000000 INFO @ Tue, 27 Jun 2017 18:15:21: 34000000 INFO @ Tue, 27 Jun 2017 18:15:22: 36000000 INFO @ Tue, 27 Jun 2017 18:15:28: 35000000 INFO @ Tue, 27 Jun 2017 18:15:28: 35000000 INFO @ Tue, 27 Jun 2017 18:15:28: 37000000 INFO @ Tue, 27 Jun 2017 18:15:34: 36000000 INFO @ Tue, 27 Jun 2017 18:15:34: 38000000 INFO @ Tue, 27 Jun 2017 18:15:35: 36000000 INFO @ Tue, 27 Jun 2017 18:15:41: 39000000 INFO @ Tue, 27 Jun 2017 18:15:41: 37000000 INFO @ Tue, 27 Jun 2017 18:15:42: 37000000 INFO @ Tue, 27 Jun 2017 18:15:47: 40000000 INFO @ Tue, 27 Jun 2017 18:15:48: 38000000 INFO @ Tue, 27 Jun 2017 18:15:48: 38000000 INFO @ Tue, 27 Jun 2017 18:15:53: 41000000 INFO @ Tue, 27 Jun 2017 18:15:55: 39000000 INFO @ Tue, 27 Jun 2017 18:15:55: 39000000 INFO @ Tue, 27 Jun 2017 18:16:00: 42000000 INFO @ Tue, 27 Jun 2017 18:16:02: 40000000 INFO @ Tue, 27 Jun 2017 18:16:02: 40000000 INFO @ Tue, 27 Jun 2017 18:16:06: 43000000 INFO @ Tue, 27 Jun 2017 18:16:08: 41000000 INFO @ Tue, 27 Jun 2017 18:16:08: 41000000 INFO @ Tue, 27 Jun 2017 18:16:13: 44000000 INFO @ Tue, 27 Jun 2017 18:16:15: 42000000 INFO @ Tue, 27 Jun 2017 18:16:15: 42000000 INFO @ Tue, 27 Jun 2017 18:16:19: 45000000 INFO @ Tue, 27 Jun 2017 18:16:21: 43000000 INFO @ Tue, 27 Jun 2017 18:16:22: 43000000 INFO @ Tue, 27 Jun 2017 18:16:26: 46000000 INFO @ Tue, 27 Jun 2017 18:16:28: 44000000 INFO @ Tue, 27 Jun 2017 18:16:28: 44000000 INFO @ Tue, 27 Jun 2017 18:16:32: 47000000 INFO @ Tue, 27 Jun 2017 18:16:34: 45000000 INFO @ Tue, 27 Jun 2017 18:16:35: 45000000 INFO @ Tue, 27 Jun 2017 18:16:39: 48000000 INFO @ Tue, 27 Jun 2017 18:16:41: 46000000 INFO @ Tue, 27 Jun 2017 18:16:41: 46000000 INFO @ Tue, 27 Jun 2017 18:16:45: 49000000 INFO @ Tue, 27 Jun 2017 18:16:48: 47000000 INFO @ Tue, 27 Jun 2017 18:16:48: 47000000 INFO @ Tue, 27 Jun 2017 18:16:52: 50000000 INFO @ Tue, 27 Jun 2017 18:16:54: 48000000 INFO @ Tue, 27 Jun 2017 18:16:55: 48000000 INFO @ Tue, 27 Jun 2017 18:16:58: 51000000 INFO @ Tue, 27 Jun 2017 18:17:01: 49000000 INFO @ Tue, 27 Jun 2017 18:17:01: 49000000 INFO @ Tue, 27 Jun 2017 18:17:05: 52000000 INFO @ Tue, 27 Jun 2017 18:17:07: 50000000 INFO @ Tue, 27 Jun 2017 18:17:08: 50000000 INFO @ Tue, 27 Jun 2017 18:17:12: 53000000 INFO @ Tue, 27 Jun 2017 18:17:14: 51000000 INFO @ Tue, 27 Jun 2017 18:17:16: 51000000 INFO @ Tue, 27 Jun 2017 18:17:19: 54000000 INFO @ Tue, 27 Jun 2017 18:17:20: 52000000 INFO @ Tue, 27 Jun 2017 18:17:23: 52000000 INFO @ Tue, 27 Jun 2017 18:17:26: 55000000 INFO @ Tue, 27 Jun 2017 18:17:26: 53000000 INFO @ Tue, 27 Jun 2017 18:17:31: 53000000 INFO @ Tue, 27 Jun 2017 18:17:32: 56000000 INFO @ Tue, 27 Jun 2017 18:17:33: 54000000 INFO @ Tue, 27 Jun 2017 18:17:38: 54000000 INFO @ Tue, 27 Jun 2017 18:17:39: 57000000 INFO @ Tue, 27 Jun 2017 18:17:40: 55000000 INFO @ Tue, 27 Jun 2017 18:17:45: 55000000 INFO @ Tue, 27 Jun 2017 18:17:45: 58000000 INFO @ Tue, 27 Jun 2017 18:17:47: 56000000 INFO @ Tue, 27 Jun 2017 18:17:48: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 18:17:48: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 18:17:48: #1 total tags in treatment: 58420548 INFO @ Tue, 27 Jun 2017 18:17:48: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:17:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 18:17:50: #1 tags after filtering in treatment: 58420548 INFO @ Tue, 27 Jun 2017 18:17:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:17:50: #1 finished! INFO @ Tue, 27 Jun 2017 18:17:50: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:17:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:17:52: 56000000 INFO @ Tue, 27 Jun 2017 18:17:54: 57000000 INFO @ Tue, 27 Jun 2017 18:17:54: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:17:54: 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 @ Tue, 27 Jun 2017 18:17:54: Process for pairing-model is terminated! cat: SRX1342248.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1342248.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1342248.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1342248.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Tue, 27 Jun 2017 18:17:59: 57000000 INFO @ Tue, 27 Jun 2017 18:18:01: 58000000 INFO @ Tue, 27 Jun 2017 18:18:05: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 18:18:05: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 18:18:05: #1 total tags in treatment: 58420548 INFO @ Tue, 27 Jun 2017 18:18:05: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:18:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 18:18:06: #1 tags after filtering in treatment: 58420548 INFO @ Tue, 27 Jun 2017 18:18:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:18:06: #1 finished! INFO @ Tue, 27 Jun 2017 18:18:06: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:18:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:18:06: 58000000 INFO @ Tue, 27 Jun 2017 18:18:09: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 18:18:09: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 18:18:09: #1 total tags in treatment: 58420548 INFO @ Tue, 27 Jun 2017 18:18:09: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:18:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 18:18:09: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:18:09: 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 @ Tue, 27 Jun 2017 18:18:09: Process for pairing-model is terminated! cat: SRX1342248.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1342248.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1342248.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1342248.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Tue, 27 Jun 2017 18:18:10: #1 tags after filtering in treatment: 58420548 INFO @ Tue, 27 Jun 2017 18:18:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:18:10: #1 finished! INFO @ Tue, 27 Jun 2017 18:18:10: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:18:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:18:14: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:18:14: 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 @ Tue, 27 Jun 2017 18:18:14: Process for pairing-model is terminated! cat: SRX1342248.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1342248.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1342248.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1342248.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。