Job ID = 9158068 sra ファイルのダウンロード中... Completed: 970996K bytes transferred in 11 seconds (716660K 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 22288347 spots for /home/okishinya/chipatlas/results/dm3/SRX032116/SRR073937.sra Written 22288347 spots total Written 24471328 spots for /home/okishinya/chipatlas/results/dm3/SRX032116/SRR073936.sra Written 24471328 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: 00:17:41 46759675 reads; of these: 46759675 (100.00%) were unpaired; of these: 1513097 (3.24%) aligned 0 times 33793928 (72.27%) aligned exactly 1 time 11452650 (24.49%) aligned >1 times 96.76% overall alignment rate Time searching: 00:17:41 Overall time: 00:17:41 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 12 files... [bam_rmdupse_core] 9032829 / 45246578 = 0.1996 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 15:16:23: # Command line: callpeak -t SRX032116.bam -f BAM -g dm -n SRX032116.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX032116.05 # format = BAM # ChIP-seq file = ['SRX032116.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 15:16:23: #1 read tag files... INFO @ Tue, 27 Jun 2017 15:16:23: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 15:16:23: # Command line: callpeak -t SRX032116.bam -f BAM -g dm -n SRX032116.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX032116.10 # format = BAM # ChIP-seq file = ['SRX032116.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 15:16:23: #1 read tag files... INFO @ Tue, 27 Jun 2017 15:16:23: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 15:16:23: # Command line: callpeak -t SRX032116.bam -f BAM -g dm -n SRX032116.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX032116.20 # format = BAM # ChIP-seq file = ['SRX032116.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 15:16:23: #1 read tag files... INFO @ Tue, 27 Jun 2017 15:16:23: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 15:16:30: 1000000 INFO @ Tue, 27 Jun 2017 15:16:30: 1000000 INFO @ Tue, 27 Jun 2017 15:16:31: 1000000 INFO @ Tue, 27 Jun 2017 15:16:37: 2000000 INFO @ Tue, 27 Jun 2017 15:16:37: 2000000 INFO @ Tue, 27 Jun 2017 15:16:38: 2000000 INFO @ Tue, 27 Jun 2017 15:16:45: 3000000 INFO @ Tue, 27 Jun 2017 15:16:45: 3000000 INFO @ Tue, 27 Jun 2017 15:16:46: 3000000 INFO @ Tue, 27 Jun 2017 15:16:51: 4000000 INFO @ Tue, 27 Jun 2017 15:16:51: 4000000 INFO @ Tue, 27 Jun 2017 15:16:54: 4000000 INFO @ Tue, 27 Jun 2017 15:16:57: 5000000 INFO @ Tue, 27 Jun 2017 15:16:57: 5000000 INFO @ Tue, 27 Jun 2017 15:17:01: 5000000 INFO @ Tue, 27 Jun 2017 15:17:04: 6000000 INFO @ Tue, 27 Jun 2017 15:17:04: 6000000 INFO @ Tue, 27 Jun 2017 15:17:09: 6000000 INFO @ Tue, 27 Jun 2017 15:17:10: 7000000 INFO @ Tue, 27 Jun 2017 15:17:10: 7000000 INFO @ Tue, 27 Jun 2017 15:17:16: 8000000 INFO @ Tue, 27 Jun 2017 15:17:16: 8000000 INFO @ Tue, 27 Jun 2017 15:17:16: 7000000 INFO @ Tue, 27 Jun 2017 15:17:22: 9000000 INFO @ Tue, 27 Jun 2017 15:17:22: 9000000 INFO @ Tue, 27 Jun 2017 15:17:24: 8000000 INFO @ Tue, 27 Jun 2017 15:17:28: 10000000 INFO @ Tue, 27 Jun 2017 15:17:28: 10000000 INFO @ Tue, 27 Jun 2017 15:17:31: 9000000 INFO @ Tue, 27 Jun 2017 15:17:35: 11000000 INFO @ Tue, 27 Jun 2017 15:17:35: 11000000 INFO @ Tue, 27 Jun 2017 15:17:38: 10000000 INFO @ Tue, 27 Jun 2017 15:17:41: 12000000 INFO @ Tue, 27 Jun 2017 15:17:41: 12000000 INFO @ Tue, 27 Jun 2017 15:17:45: 11000000 INFO @ Tue, 27 Jun 2017 15:17:47: 13000000 INFO @ Tue, 27 Jun 2017 15:17:47: 13000000 INFO @ Tue, 27 Jun 2017 15:17:51: 12000000 INFO @ Tue, 27 Jun 2017 15:17:53: 14000000 INFO @ Tue, 27 Jun 2017 15:17:53: 14000000 INFO @ Tue, 27 Jun 2017 15:17:57: 13000000 INFO @ Tue, 27 Jun 2017 15:17:59: 15000000 INFO @ Tue, 27 Jun 2017 15:17:59: 15000000 INFO @ Tue, 27 Jun 2017 15:18:03: 14000000 INFO @ Tue, 27 Jun 2017 15:18:05: 16000000 INFO @ Tue, 27 Jun 2017 15:18:05: 16000000 INFO @ Tue, 27 Jun 2017 15:18:09: 15000000 INFO @ Tue, 27 Jun 2017 15:18:12: 17000000 INFO @ Tue, 27 Jun 2017 15:18:12: 17000000 INFO @ Tue, 27 Jun 2017 15:18:15: 16000000 INFO @ Tue, 27 Jun 2017 15:18:18: 18000000 INFO @ Tue, 27 Jun 2017 15:18:18: 18000000 INFO @ Tue, 27 Jun 2017 15:18:21: 17000000 INFO @ Tue, 27 Jun 2017 15:18:24: 19000000 INFO @ Tue, 27 Jun 2017 15:18:24: 19000000 INFO @ Tue, 27 Jun 2017 15:18:28: 18000000 INFO @ Tue, 27 Jun 2017 15:18:30: 20000000 INFO @ Tue, 27 Jun 2017 15:18:30: 20000000 INFO @ Tue, 27 Jun 2017 15:18:34: 19000000 INFO @ Tue, 27 Jun 2017 15:18:36: 21000000 INFO @ Tue, 27 Jun 2017 15:18:36: 21000000 INFO @ Tue, 27 Jun 2017 15:18:40: 20000000 INFO @ Tue, 27 Jun 2017 15:18:42: 22000000 INFO @ Tue, 27 Jun 2017 15:18:42: 22000000 INFO @ Tue, 27 Jun 2017 15:18:46: 21000000 INFO @ Tue, 27 Jun 2017 15:18:49: 23000000 INFO @ Tue, 27 Jun 2017 15:18:49: 23000000 INFO @ Tue, 27 Jun 2017 15:18:52: 22000000 INFO @ Tue, 27 Jun 2017 15:18:55: 24000000 INFO @ Tue, 27 Jun 2017 15:18:55: 24000000 INFO @ Tue, 27 Jun 2017 15:18:58: 23000000 INFO @ Tue, 27 Jun 2017 15:19:01: 25000000 INFO @ Tue, 27 Jun 2017 15:19:01: 25000000 INFO @ Tue, 27 Jun 2017 15:19:04: 24000000 INFO @ Tue, 27 Jun 2017 15:19:07: 26000000 INFO @ Tue, 27 Jun 2017 15:19:07: 26000000 INFO @ Tue, 27 Jun 2017 15:19:10: 25000000 INFO @ Tue, 27 Jun 2017 15:19:13: 27000000 INFO @ Tue, 27 Jun 2017 15:19:14: 27000000 INFO @ Tue, 27 Jun 2017 15:19:16: 26000000 INFO @ Tue, 27 Jun 2017 15:19:20: 28000000 INFO @ Tue, 27 Jun 2017 15:19:20: 28000000 INFO @ Tue, 27 Jun 2017 15:19:23: 27000000 INFO @ Tue, 27 Jun 2017 15:19:26: 29000000 INFO @ Tue, 27 Jun 2017 15:19:26: 29000000 INFO @ Tue, 27 Jun 2017 15:19:29: 28000000 INFO @ Tue, 27 Jun 2017 15:19:32: 30000000 INFO @ Tue, 27 Jun 2017 15:19:32: 30000000 INFO @ Tue, 27 Jun 2017 15:19:35: 29000000 INFO @ Tue, 27 Jun 2017 15:19:38: 31000000 INFO @ Tue, 27 Jun 2017 15:19:38: 31000000 INFO @ Tue, 27 Jun 2017 15:19:41: 30000000 INFO @ Tue, 27 Jun 2017 15:19:44: 32000000 INFO @ Tue, 27 Jun 2017 15:19:44: 32000000 INFO @ Tue, 27 Jun 2017 15:19:47: 31000000 INFO @ Tue, 27 Jun 2017 15:19:50: 33000000 INFO @ Tue, 27 Jun 2017 15:19:50: 33000000 INFO @ Tue, 27 Jun 2017 15:19:53: 32000000 INFO @ Tue, 27 Jun 2017 15:19:57: 34000000 INFO @ Tue, 27 Jun 2017 15:19:57: 34000000 INFO @ Tue, 27 Jun 2017 15:19:59: 33000000 INFO @ Tue, 27 Jun 2017 15:20:03: 35000000 INFO @ Tue, 27 Jun 2017 15:20:03: 35000000 INFO @ Tue, 27 Jun 2017 15:20:05: 34000000 INFO @ Tue, 27 Jun 2017 15:20:09: 36000000 INFO @ Tue, 27 Jun 2017 15:20:09: 36000000 INFO @ Tue, 27 Jun 2017 15:20:11: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 15:20:11: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 15:20:11: #1 total tags in treatment: 36213749 INFO @ Tue, 27 Jun 2017 15:20:11: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 15:20:11: #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 15:20:11: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 15:20:11: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 15:20:11: #1 total tags in treatment: 36213749 INFO @ Tue, 27 Jun 2017 15:20:11: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 15:20:11: #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 15:20:11: #1 tags after filtering in treatment: 36213749 INFO @ Tue, 27 Jun 2017 15:20:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 15:20:11: #1 finished! INFO @ Tue, 27 Jun 2017 15:20:11: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 15:20:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 15:20:11: #1 tags after filtering in treatment: 36213749 INFO @ Tue, 27 Jun 2017 15:20:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 15:20:11: #1 finished! INFO @ Tue, 27 Jun 2017 15:20:11: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 15:20:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 15:20:11: 35000000 INFO @ Tue, 27 Jun 2017 15:20:14: #2 number of paired peaks: 6 WARNING @ Tue, 27 Jun 2017 15:20:14: Too few paired peaks (6) 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 15:20:14: Process for pairing-model is terminated! cat: SRX032116.05_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 `SRX032116.05_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 `SRX032116.05_*.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 `SRX032116.05_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 INFO @ Tue, 27 Jun 2017 15:20:14: #2 number of paired peaks: 6 WARNING @ Tue, 27 Jun 2017 15:20:14: Too few paired peaks (6) 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 15:20:14: Process for pairing-model is terminated! cat: SRX032116.10_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 `SRX032116.10_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 `SRX032116.10_*.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 `SRX032116.10_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 15:20:17: 36000000 INFO @ Tue, 27 Jun 2017 15:20:19: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 15:20:19: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 15:20:19: #1 total tags in treatment: 36213749 INFO @ Tue, 27 Jun 2017 15:20:19: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 15:20:19: #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 15:20:20: #1 tags after filtering in treatment: 36213749 INFO @ Tue, 27 Jun 2017 15:20:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 15:20:20: #1 finished! INFO @ Tue, 27 Jun 2017 15:20:20: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 15:20:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 15:20:22: #2 number of paired peaks: 6 WARNING @ Tue, 27 Jun 2017 15:20:22: Too few paired peaks (6) 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 15:20:22: Process for pairing-model is terminated! cat: SRX032116.20_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 `SRX032116.20_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 `SRX032116.20_*.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 `SRX032116.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。