Job ID = 9158394 sra ファイルのダウンロード中... Completed: 569158K bytes transferred in 6 seconds (731039K 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 43461424 spots for /home/okishinya/chipatlas/results/dm3/SRX1150359/SRR2163829.sra Written 43461424 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: 00:18:56 43461424 reads; of these: 43461424 (100.00%) were unpaired; of these: 680894 (1.57%) aligned 0 times 23139313 (53.24%) aligned exactly 1 time 19641217 (45.19%) aligned >1 times 98.43% overall alignment rate Time searching: 00:18:56 Overall time: 00:18:56 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] 7936626 / 42780530 = 0.1855 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 17:11:33: # Command line: callpeak -t SRX1150359.bam -f BAM -g dm -n SRX1150359.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1150359.10 # format = BAM # ChIP-seq file = ['SRX1150359.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 17:11:33: #1 read tag files... INFO @ Tue, 27 Jun 2017 17:11:33: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 17:11:33: # Command line: callpeak -t SRX1150359.bam -f BAM -g dm -n SRX1150359.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1150359.05 # format = BAM # ChIP-seq file = ['SRX1150359.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 17:11:33: #1 read tag files... INFO @ Tue, 27 Jun 2017 17:11:33: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 17:11:33: # Command line: callpeak -t SRX1150359.bam -f BAM -g dm -n SRX1150359.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1150359.20 # format = BAM # ChIP-seq file = ['SRX1150359.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 17:11:33: #1 read tag files... INFO @ Tue, 27 Jun 2017 17:11:33: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 17:11:39: 1000000 INFO @ Tue, 27 Jun 2017 17:11:40: 1000000 INFO @ Tue, 27 Jun 2017 17:11:40: 1000000 INFO @ Tue, 27 Jun 2017 17:11:45: 2000000 INFO @ Tue, 27 Jun 2017 17:11:47: 2000000 INFO @ Tue, 27 Jun 2017 17:11:47: 2000000 INFO @ Tue, 27 Jun 2017 17:11:51: 3000000 INFO @ Tue, 27 Jun 2017 17:11:54: 3000000 INFO @ Tue, 27 Jun 2017 17:11:54: 3000000 INFO @ Tue, 27 Jun 2017 17:11:57: 4000000 INFO @ Tue, 27 Jun 2017 17:12:01: 4000000 INFO @ Tue, 27 Jun 2017 17:12:01: 4000000 INFO @ Tue, 27 Jun 2017 17:12:03: 5000000 INFO @ Tue, 27 Jun 2017 17:12:08: 5000000 INFO @ Tue, 27 Jun 2017 17:12:08: 5000000 INFO @ Tue, 27 Jun 2017 17:12:09: 6000000 INFO @ Tue, 27 Jun 2017 17:12:14: 7000000 INFO @ Tue, 27 Jun 2017 17:12:15: 6000000 INFO @ Tue, 27 Jun 2017 17:12:15: 6000000 INFO @ Tue, 27 Jun 2017 17:12:20: 8000000 INFO @ Tue, 27 Jun 2017 17:12:22: 7000000 INFO @ Tue, 27 Jun 2017 17:12:22: 7000000 INFO @ Tue, 27 Jun 2017 17:12:26: 9000000 INFO @ Tue, 27 Jun 2017 17:12:29: 8000000 INFO @ Tue, 27 Jun 2017 17:12:29: 8000000 INFO @ Tue, 27 Jun 2017 17:12:32: 10000000 INFO @ Tue, 27 Jun 2017 17:12:36: 9000000 INFO @ Tue, 27 Jun 2017 17:12:36: 9000000 INFO @ Tue, 27 Jun 2017 17:12:38: 11000000 INFO @ Tue, 27 Jun 2017 17:12:43: 10000000 INFO @ Tue, 27 Jun 2017 17:12:43: 10000000 INFO @ Tue, 27 Jun 2017 17:12:44: 12000000 INFO @ Tue, 27 Jun 2017 17:12:49: 11000000 INFO @ Tue, 27 Jun 2017 17:12:49: 11000000 INFO @ Tue, 27 Jun 2017 17:12:50: 13000000 INFO @ Tue, 27 Jun 2017 17:12:55: 14000000 INFO @ Tue, 27 Jun 2017 17:12:56: 12000000 INFO @ Tue, 27 Jun 2017 17:12:56: 12000000 INFO @ Tue, 27 Jun 2017 17:13:01: 15000000 INFO @ Tue, 27 Jun 2017 17:13:03: 13000000 INFO @ Tue, 27 Jun 2017 17:13:03: 13000000 INFO @ Tue, 27 Jun 2017 17:13:07: 16000000 INFO @ Tue, 27 Jun 2017 17:13:10: 14000000 INFO @ Tue, 27 Jun 2017 17:13:10: 14000000 INFO @ Tue, 27 Jun 2017 17:13:13: 17000000 INFO @ Tue, 27 Jun 2017 17:13:17: 15000000 INFO @ Tue, 27 Jun 2017 17:13:17: 15000000 INFO @ Tue, 27 Jun 2017 17:13:19: 18000000 INFO @ Tue, 27 Jun 2017 17:13:24: 16000000 INFO @ Tue, 27 Jun 2017 17:13:24: 16000000 INFO @ Tue, 27 Jun 2017 17:13:25: 19000000 INFO @ Tue, 27 Jun 2017 17:13:31: 20000000 INFO @ Tue, 27 Jun 2017 17:13:31: 17000000 INFO @ Tue, 27 Jun 2017 17:13:31: 17000000 INFO @ Tue, 27 Jun 2017 17:13:37: 21000000 INFO @ Tue, 27 Jun 2017 17:13:38: 18000000 INFO @ Tue, 27 Jun 2017 17:13:38: 18000000 INFO @ Tue, 27 Jun 2017 17:13:42: 22000000 INFO @ Tue, 27 Jun 2017 17:13:45: 19000000 INFO @ Tue, 27 Jun 2017 17:13:45: 19000000 INFO @ Tue, 27 Jun 2017 17:13:48: 23000000 INFO @ Tue, 27 Jun 2017 17:13:52: 20000000 INFO @ Tue, 27 Jun 2017 17:13:52: 20000000 INFO @ Tue, 27 Jun 2017 17:13:54: 24000000 INFO @ Tue, 27 Jun 2017 17:13:58: 21000000 INFO @ Tue, 27 Jun 2017 17:13:58: 21000000 INFO @ Tue, 27 Jun 2017 17:14:00: 25000000 INFO @ Tue, 27 Jun 2017 17:14:05: 22000000 INFO @ Tue, 27 Jun 2017 17:14:05: 22000000 INFO @ Tue, 27 Jun 2017 17:14:06: 26000000 INFO @ Tue, 27 Jun 2017 17:14:12: 27000000 INFO @ Tue, 27 Jun 2017 17:14:12: 23000000 INFO @ Tue, 27 Jun 2017 17:14:12: 23000000 INFO @ Tue, 27 Jun 2017 17:14:18: 28000000 INFO @ Tue, 27 Jun 2017 17:14:19: 24000000 INFO @ Tue, 27 Jun 2017 17:14:19: 24000000 INFO @ Tue, 27 Jun 2017 17:14:24: 29000000 INFO @ Tue, 27 Jun 2017 17:14:26: 25000000 INFO @ Tue, 27 Jun 2017 17:14:26: 25000000 INFO @ Tue, 27 Jun 2017 17:14:30: 30000000 INFO @ Tue, 27 Jun 2017 17:14:33: 26000000 INFO @ Tue, 27 Jun 2017 17:14:33: 26000000 INFO @ Tue, 27 Jun 2017 17:14:36: 31000000 INFO @ Tue, 27 Jun 2017 17:14:40: 27000000 INFO @ Tue, 27 Jun 2017 17:14:40: 27000000 INFO @ Tue, 27 Jun 2017 17:14:42: 32000000 INFO @ Tue, 27 Jun 2017 17:14:47: 28000000 INFO @ Tue, 27 Jun 2017 17:14:47: 28000000 INFO @ Tue, 27 Jun 2017 17:14:48: 33000000 INFO @ Tue, 27 Jun 2017 17:14:54: 34000000 INFO @ Tue, 27 Jun 2017 17:14:54: 29000000 INFO @ Tue, 27 Jun 2017 17:14:54: 29000000 INFO @ Tue, 27 Jun 2017 17:14:59: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 17:14:59: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 17:14:59: #1 total tags in treatment: 34843904 INFO @ Tue, 27 Jun 2017 17:14:59: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 17:14:59: #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 17:15:00: #1 tags after filtering in treatment: 34843904 INFO @ Tue, 27 Jun 2017 17:15:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 17:15:00: #1 finished! INFO @ Tue, 27 Jun 2017 17:15:00: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 17:15:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 17:15:01: 30000000 INFO @ Tue, 27 Jun 2017 17:15:01: 30000000 INFO @ Tue, 27 Jun 2017 17:15:02: #2 number of paired peaks: 20 WARNING @ Tue, 27 Jun 2017 17:15:02: Too few paired peaks (20) 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 17:15:02: Process for pairing-model is terminated! cat: SRX1150359.20_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 `SRX1150359.20_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 `SRX1150359.20_*.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 `SRX1150359.20_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 17:15:08: 31000000 INFO @ Tue, 27 Jun 2017 17:15:08: 31000000 INFO @ Tue, 27 Jun 2017 17:15:15: 32000000 INFO @ Tue, 27 Jun 2017 17:15:15: 32000000 INFO @ Tue, 27 Jun 2017 17:15:22: 33000000 INFO @ Tue, 27 Jun 2017 17:15:22: 33000000 INFO @ Tue, 27 Jun 2017 17:15:29: 34000000 INFO @ Tue, 27 Jun 2017 17:15:29: 34000000 INFO @ Tue, 27 Jun 2017 17:15:35: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 17:15:35: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 17:15:35: #1 total tags in treatment: 34843904 INFO @ Tue, 27 Jun 2017 17:15:35: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 17:15:35: #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 17:15:35: #1 tag size is determined as 50 bps INFO @ Tue, 27 Jun 2017 17:15:35: #1 tag size = 50 INFO @ Tue, 27 Jun 2017 17:15:35: #1 total tags in treatment: 34843904 INFO @ Tue, 27 Jun 2017 17:15:35: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 17:15:35: #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 17:15:36: #1 tags after filtering in treatment: 34843904 INFO @ Tue, 27 Jun 2017 17:15:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 17:15:36: #1 finished! INFO @ Tue, 27 Jun 2017 17:15:36: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 17:15:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 17:15:36: #1 tags after filtering in treatment: 34843904 INFO @ Tue, 27 Jun 2017 17:15:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 17:15:36: #1 finished! INFO @ Tue, 27 Jun 2017 17:15:36: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 17:15:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 17:15:38: #2 number of paired peaks: 20 WARNING @ Tue, 27 Jun 2017 17:15:38: Too few paired peaks (20) 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 17:15:38: Process for pairing-model is terminated! cat: SRX1150359.05_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 `SRX1150359.05_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 `SRX1150359.05_*.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 `SRX1150359.05_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 17:15:38: #2 number of paired peaks: 20 WARNING @ Tue, 27 Jun 2017 17:15:38: Too few paired peaks (20) 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 17:15:38: Process for pairing-model is terminated! cat: SRX1150359.10_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 `SRX1150359.10_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 `SRX1150359.10_*.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 `SRX1150359.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。