Job ID = 9158614 sra ファイルのダウンロード中... Completed: 1513078K bytes transferred in 17 seconds (690886K bits/sec), in 1 file, 2 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 46046872 spots for /home/okishinya/chipatlas/results/dm3/SRX1872290/SRR3712751.sra Written 46046872 spots total rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:13:29 46046872 reads; of these: 46046872 (100.00%) were unpaired; of these: 3376439 (7.33%) aligned 0 times 36884248 (80.10%) aligned exactly 1 time 5786185 (12.57%) aligned >1 times 92.67% overall alignment rate Time searching: 00:13:29 Overall time: 00:13:29 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 20 files... [bam_rmdupse_core] 7592954 / 42670433 = 0.1779 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 18:58:10: # Command line: callpeak -t SRX1872290.bam -f BAM -g dm -n SRX1872290.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1872290.10 # format = BAM # ChIP-seq file = ['SRX1872290.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 18:58:10: # Command line: callpeak -t SRX1872290.bam -f BAM -g dm -n SRX1872290.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1872290.05 # format = BAM # ChIP-seq file = ['SRX1872290.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 18:58:10: # Command line: callpeak -t SRX1872290.bam -f BAM -g dm -n SRX1872290.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1872290.20 # format = BAM # ChIP-seq file = ['SRX1872290.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 18:58:10: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:58:10: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:58:10: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:58:10: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:58:10: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:58:10: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:58:17: 1000000 INFO @ Tue, 27 Jun 2017 18:58:17: 1000000 INFO @ Tue, 27 Jun 2017 18:58:17: 1000000 INFO @ Tue, 27 Jun 2017 18:58:23: 2000000 INFO @ Tue, 27 Jun 2017 18:58:23: 2000000 INFO @ Tue, 27 Jun 2017 18:58:23: 2000000 INFO @ Tue, 27 Jun 2017 18:58:30: 3000000 INFO @ Tue, 27 Jun 2017 18:58:30: 3000000 INFO @ Tue, 27 Jun 2017 18:58:30: 3000000 INFO @ Tue, 27 Jun 2017 18:58:36: 4000000 INFO @ Tue, 27 Jun 2017 18:58:36: 4000000 INFO @ Tue, 27 Jun 2017 18:58:36: 4000000 INFO @ Tue, 27 Jun 2017 18:58:42: 5000000 INFO @ Tue, 27 Jun 2017 18:58:43: 5000000 INFO @ Tue, 27 Jun 2017 18:58:43: 5000000 INFO @ Tue, 27 Jun 2017 18:58:49: 6000000 INFO @ Tue, 27 Jun 2017 18:58:49: 6000000 INFO @ Tue, 27 Jun 2017 18:58:49: 6000000 INFO @ Tue, 27 Jun 2017 18:58:55: 7000000 INFO @ Tue, 27 Jun 2017 18:58:56: 7000000 INFO @ Tue, 27 Jun 2017 18:58:56: 7000000 INFO @ Tue, 27 Jun 2017 18:59:02: 8000000 INFO @ Tue, 27 Jun 2017 18:59:02: 8000000 INFO @ Tue, 27 Jun 2017 18:59:02: 8000000 INFO @ Tue, 27 Jun 2017 18:59:08: 9000000 INFO @ Tue, 27 Jun 2017 18:59:09: 9000000 INFO @ Tue, 27 Jun 2017 18:59:09: 9000000 INFO @ Tue, 27 Jun 2017 18:59:14: 10000000 INFO @ Tue, 27 Jun 2017 18:59:16: 10000000 INFO @ Tue, 27 Jun 2017 18:59:16: 10000000 INFO @ Tue, 27 Jun 2017 18:59:21: 11000000 INFO @ Tue, 27 Jun 2017 18:59:22: 11000000 INFO @ Tue, 27 Jun 2017 18:59:23: 11000000 INFO @ Tue, 27 Jun 2017 18:59:27: 12000000 INFO @ Tue, 27 Jun 2017 18:59:31: 12000000 INFO @ Tue, 27 Jun 2017 18:59:31: 12000000 INFO @ Tue, 27 Jun 2017 18:59:34: 13000000 INFO @ Tue, 27 Jun 2017 18:59:37: 13000000 INFO @ Tue, 27 Jun 2017 18:59:37: 13000000 INFO @ Tue, 27 Jun 2017 18:59:40: 14000000 INFO @ Tue, 27 Jun 2017 18:59:44: 14000000 INFO @ Tue, 27 Jun 2017 18:59:44: 14000000 INFO @ Tue, 27 Jun 2017 18:59:46: 15000000 INFO @ Tue, 27 Jun 2017 18:59:51: 15000000 INFO @ Tue, 27 Jun 2017 18:59:51: 15000000 INFO @ Tue, 27 Jun 2017 18:59:53: 16000000 INFO @ Tue, 27 Jun 2017 18:59:57: 16000000 INFO @ Tue, 27 Jun 2017 18:59:57: 16000000 INFO @ Tue, 27 Jun 2017 18:59:59: 17000000 INFO @ Tue, 27 Jun 2017 19:00:04: 17000000 INFO @ Tue, 27 Jun 2017 19:00:04: 17000000 INFO @ Tue, 27 Jun 2017 19:00:05: 18000000 INFO @ Tue, 27 Jun 2017 19:00:10: 18000000 INFO @ Tue, 27 Jun 2017 19:00:10: 18000000 INFO @ Tue, 27 Jun 2017 19:00:12: 19000000 INFO @ Tue, 27 Jun 2017 19:00:17: 19000000 INFO @ Tue, 27 Jun 2017 19:00:17: 19000000 INFO @ Tue, 27 Jun 2017 19:00:18: 20000000 INFO @ Tue, 27 Jun 2017 19:00:23: 20000000 INFO @ Tue, 27 Jun 2017 19:00:24: 20000000 INFO @ Tue, 27 Jun 2017 19:00:24: 21000000 INFO @ Tue, 27 Jun 2017 19:00:30: 21000000 INFO @ Tue, 27 Jun 2017 19:00:30: 21000000 INFO @ Tue, 27 Jun 2017 19:00:31: 22000000 INFO @ Tue, 27 Jun 2017 19:00:37: 22000000 INFO @ Tue, 27 Jun 2017 19:00:37: 22000000 INFO @ Tue, 27 Jun 2017 19:00:37: 23000000 INFO @ Tue, 27 Jun 2017 19:00:43: 23000000 INFO @ Tue, 27 Jun 2017 19:00:43: 24000000 INFO @ Tue, 27 Jun 2017 19:00:44: 23000000 INFO @ Tue, 27 Jun 2017 19:00:50: 25000000 INFO @ Tue, 27 Jun 2017 19:00:50: 24000000 INFO @ Tue, 27 Jun 2017 19:00:50: 24000000 INFO @ Tue, 27 Jun 2017 19:00:56: 26000000 INFO @ Tue, 27 Jun 2017 19:00:57: 25000000 INFO @ Tue, 27 Jun 2017 19:00:57: 25000000 INFO @ Tue, 27 Jun 2017 19:01:02: 27000000 INFO @ Tue, 27 Jun 2017 19:01:03: 26000000 INFO @ Tue, 27 Jun 2017 19:01:04: 26000000 INFO @ Tue, 27 Jun 2017 19:01:09: 28000000 INFO @ Tue, 27 Jun 2017 19:01:11: 27000000 INFO @ Tue, 27 Jun 2017 19:01:11: 27000000 INFO @ Tue, 27 Jun 2017 19:01:15: 29000000 INFO @ Tue, 27 Jun 2017 19:01:18: 28000000 INFO @ Tue, 27 Jun 2017 19:01:18: 28000000 INFO @ Tue, 27 Jun 2017 19:01:21: 30000000 INFO @ Tue, 27 Jun 2017 19:01:25: 29000000 INFO @ Tue, 27 Jun 2017 19:01:25: 29000000 INFO @ Tue, 27 Jun 2017 19:01:28: 31000000 INFO @ Tue, 27 Jun 2017 19:01:32: 30000000 INFO @ Tue, 27 Jun 2017 19:01:32: 30000000 INFO @ Tue, 27 Jun 2017 19:01:34: 32000000 INFO @ Tue, 27 Jun 2017 19:01:39: 31000000 INFO @ Tue, 27 Jun 2017 19:01:39: 31000000 INFO @ Tue, 27 Jun 2017 19:01:40: 33000000 INFO @ Tue, 27 Jun 2017 19:01:45: 32000000 INFO @ Tue, 27 Jun 2017 19:01:46: 32000000 INFO @ Tue, 27 Jun 2017 19:01:47: 34000000 INFO @ Tue, 27 Jun 2017 19:01:53: 33000000 INFO @ Tue, 27 Jun 2017 19:01:53: 35000000 INFO @ Tue, 27 Jun 2017 19:01:53: 33000000 INFO @ Tue, 27 Jun 2017 19:01:54: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 19:01:54: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 19:01:54: #1 total tags in treatment: 35077479 INFO @ Tue, 27 Jun 2017 19:01:54: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 19:01:54: #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 19:01:55: #1 tags after filtering in treatment: 35077479 INFO @ Tue, 27 Jun 2017 19:01:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 19:01:55: #1 finished! INFO @ Tue, 27 Jun 2017 19:01:55: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 19:01:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 19:01:57: #2 number of paired peaks: 66 WARNING @ Tue, 27 Jun 2017 19:01:57: Too few paired peaks (66) 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 19:01:57: Process for pairing-model is terminated! cat: SRX1872290.10_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 `SRX1872290.10_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 `SRX1872290.10_*.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 `SRX1872290.10_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 19:02:00: 34000000 INFO @ Tue, 27 Jun 2017 19:02:01: 34000000 INFO @ Tue, 27 Jun 2017 19:02:07: 35000000 INFO @ Tue, 27 Jun 2017 19:02:08: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 19:02:08: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 19:02:08: #1 total tags in treatment: 35077479 INFO @ Tue, 27 Jun 2017 19:02:08: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 19:02:08: #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 19:02:08: 35000000 INFO @ Tue, 27 Jun 2017 19:02:08: #1 tags after filtering in treatment: 35077479 INFO @ Tue, 27 Jun 2017 19:02:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 19:02:08: #1 finished! INFO @ Tue, 27 Jun 2017 19:02:08: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 19:02:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 19:02:09: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 19:02:09: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 19:02:09: #1 total tags in treatment: 35077479 INFO @ Tue, 27 Jun 2017 19:02:09: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 19:02:09: #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 19:02:09: #1 tags after filtering in treatment: 35077479 INFO @ Tue, 27 Jun 2017 19:02:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 19:02:09: #1 finished! INFO @ Tue, 27 Jun 2017 19:02:09: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 19:02:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 19:02:11: #2 number of paired peaks: 66 WARNING @ Tue, 27 Jun 2017 19:02:11: Too few paired peaks (66) 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 19:02:11: Process for pairing-model is terminated! cat: SRX1872290.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1872290.20_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 `SRX1872290.20_*.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 `SRX1872290.20_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 19:02:12: #2 number of paired peaks: 66 WARNING @ Tue, 27 Jun 2017 19:02:12: Too few paired peaks (66) 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 19:02:12: Process for pairing-model is terminated! cat: SRX1872290.05_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1872290.05_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 `SRX1872290.05_*.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 `SRX1872290.05_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。