Job ID = 11171139 sra ファイルのダウンロード中... Completed: 1228866K bytes transferred in 21 seconds (473153K bits/sec), in 1 file. 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... Read 46155667 spots for /home/okishinya/chipatlas/results/dm3/SRX2325652/SRR4896340.sra Written 46155667 spots for /home/okishinya/chipatlas/results/dm3/SRX2325652/SRR4896340.sra rm: cannot remove `[DSE]RX*': 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 `[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: 00:00:01 Multiseed full-index search: 00:26:07 46155667 reads; of these: 46155667 (100.00%) were unpaired; of these: 2088689 (4.53%) aligned 0 times 32909851 (71.30%) aligned exactly 1 time 11157127 (24.17%) aligned >1 times 95.47% overall alignment rate Time searching: 00:26:08 Overall time: 00:26:08 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] 8704820 / 44066978 = 0.1975 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 @ Sat, 08 Sep 2018 12:45:04: # Command line: callpeak -t SRX2325652.bam -f BAM -g dm -n SRX2325652.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2325652.20 # format = BAM # ChIP-seq file = ['SRX2325652.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 @ Sat, 08 Sep 2018 12:45:04: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:45:04: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:45:04: # Command line: callpeak -t SRX2325652.bam -f BAM -g dm -n SRX2325652.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2325652.10 # format = BAM # ChIP-seq file = ['SRX2325652.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 @ Sat, 08 Sep 2018 12:45:04: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:45:04: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:45:04: # Command line: callpeak -t SRX2325652.bam -f BAM -g dm -n SRX2325652.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2325652.05 # format = BAM # ChIP-seq file = ['SRX2325652.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 @ Sat, 08 Sep 2018 12:45:04: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:45:04: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:45:11: 1000000 INFO @ Sat, 08 Sep 2018 12:45:11: 1000000 INFO @ Sat, 08 Sep 2018 12:45:11: 1000000 INFO @ Sat, 08 Sep 2018 12:45:18: 2000000 INFO @ Sat, 08 Sep 2018 12:45:18: 2000000 INFO @ Sat, 08 Sep 2018 12:45:18: 2000000 INFO @ Sat, 08 Sep 2018 12:45:25: 3000000 INFO @ Sat, 08 Sep 2018 12:45:26: 3000000 INFO @ Sat, 08 Sep 2018 12:45:26: 3000000 INFO @ Sat, 08 Sep 2018 12:45:32: 4000000 INFO @ Sat, 08 Sep 2018 12:45:33: 4000000 INFO @ Sat, 08 Sep 2018 12:45:33: 4000000 INFO @ Sat, 08 Sep 2018 12:45:39: 5000000 INFO @ Sat, 08 Sep 2018 12:45:40: 5000000 INFO @ Sat, 08 Sep 2018 12:45:40: 5000000 INFO @ Sat, 08 Sep 2018 12:45:46: 6000000 INFO @ Sat, 08 Sep 2018 12:45:47: 6000000 INFO @ Sat, 08 Sep 2018 12:45:47: 6000000 INFO @ Sat, 08 Sep 2018 12:45:53: 7000000 INFO @ Sat, 08 Sep 2018 12:45:54: 7000000 INFO @ Sat, 08 Sep 2018 12:45:54: 7000000 INFO @ Sat, 08 Sep 2018 12:46:00: 8000000 INFO @ Sat, 08 Sep 2018 12:46:01: 8000000 INFO @ Sat, 08 Sep 2018 12:46:01: 8000000 INFO @ Sat, 08 Sep 2018 12:46:07: 9000000 INFO @ Sat, 08 Sep 2018 12:46:08: 9000000 INFO @ Sat, 08 Sep 2018 12:46:09: 9000000 INFO @ Sat, 08 Sep 2018 12:46:14: 10000000 INFO @ Sat, 08 Sep 2018 12:46:16: 10000000 INFO @ Sat, 08 Sep 2018 12:46:16: 10000000 INFO @ Sat, 08 Sep 2018 12:46:21: 11000000 INFO @ Sat, 08 Sep 2018 12:46:23: 11000000 INFO @ Sat, 08 Sep 2018 12:46:23: 11000000 INFO @ Sat, 08 Sep 2018 12:46:28: 12000000 INFO @ Sat, 08 Sep 2018 12:46:30: 12000000 INFO @ Sat, 08 Sep 2018 12:46:30: 12000000 INFO @ Sat, 08 Sep 2018 12:46:35: 13000000 INFO @ Sat, 08 Sep 2018 12:46:37: 13000000 INFO @ Sat, 08 Sep 2018 12:46:37: 13000000 INFO @ Sat, 08 Sep 2018 12:46:43: 14000000 INFO @ Sat, 08 Sep 2018 12:46:44: 14000000 INFO @ Sat, 08 Sep 2018 12:46:45: 14000000 INFO @ Sat, 08 Sep 2018 12:46:50: 15000000 INFO @ Sat, 08 Sep 2018 12:46:51: 15000000 INFO @ Sat, 08 Sep 2018 12:46:53: 15000000 INFO @ Sat, 08 Sep 2018 12:46:58: 16000000 INFO @ Sat, 08 Sep 2018 12:46:58: 16000000 INFO @ Sat, 08 Sep 2018 12:47:01: 16000000 INFO @ Sat, 08 Sep 2018 12:47:05: 17000000 INFO @ Sat, 08 Sep 2018 12:47:05: 17000000 INFO @ Sat, 08 Sep 2018 12:47:09: 17000000 INFO @ Sat, 08 Sep 2018 12:47:13: 18000000 INFO @ Sat, 08 Sep 2018 12:47:13: 18000000 INFO @ Sat, 08 Sep 2018 12:47:17: 18000000 INFO @ Sat, 08 Sep 2018 12:47:20: 19000000 INFO @ Sat, 08 Sep 2018 12:47:20: 19000000 INFO @ Sat, 08 Sep 2018 12:47:25: 19000000 INFO @ Sat, 08 Sep 2018 12:47:27: 20000000 INFO @ Sat, 08 Sep 2018 12:47:28: 20000000 INFO @ Sat, 08 Sep 2018 12:47:32: 20000000 INFO @ Sat, 08 Sep 2018 12:47:34: 21000000 INFO @ Sat, 08 Sep 2018 12:47:35: 21000000 INFO @ Sat, 08 Sep 2018 12:47:40: 21000000 INFO @ Sat, 08 Sep 2018 12:47:41: 22000000 INFO @ Sat, 08 Sep 2018 12:47:42: 22000000 INFO @ Sat, 08 Sep 2018 12:47:48: 23000000 INFO @ Sat, 08 Sep 2018 12:47:48: 22000000 INFO @ Sat, 08 Sep 2018 12:47:49: 23000000 INFO @ Sat, 08 Sep 2018 12:47:54: 24000000 INFO @ Sat, 08 Sep 2018 12:47:55: 23000000 INFO @ Sat, 08 Sep 2018 12:47:57: 24000000 INFO @ Sat, 08 Sep 2018 12:48:01: 25000000 INFO @ Sat, 08 Sep 2018 12:48:03: 24000000 INFO @ Sat, 08 Sep 2018 12:48:04: 25000000 INFO @ Sat, 08 Sep 2018 12:48:08: 26000000 INFO @ Sat, 08 Sep 2018 12:48:10: 25000000 INFO @ Sat, 08 Sep 2018 12:48:11: 26000000 INFO @ Sat, 08 Sep 2018 12:48:15: 27000000 INFO @ Sat, 08 Sep 2018 12:48:18: 26000000 INFO @ Sat, 08 Sep 2018 12:48:18: 27000000 INFO @ Sat, 08 Sep 2018 12:48:22: 28000000 INFO @ Sat, 08 Sep 2018 12:48:25: 27000000 INFO @ Sat, 08 Sep 2018 12:48:26: 28000000 INFO @ Sat, 08 Sep 2018 12:48:29: 29000000 INFO @ Sat, 08 Sep 2018 12:48:33: 28000000 INFO @ Sat, 08 Sep 2018 12:48:33: 29000000 INFO @ Sat, 08 Sep 2018 12:48:36: 30000000 INFO @ Sat, 08 Sep 2018 12:48:40: 30000000 INFO @ Sat, 08 Sep 2018 12:48:41: 29000000 INFO @ Sat, 08 Sep 2018 12:48:43: 31000000 INFO @ Sat, 08 Sep 2018 12:48:48: 31000000 INFO @ Sat, 08 Sep 2018 12:48:48: 30000000 INFO @ Sat, 08 Sep 2018 12:48:50: 32000000 INFO @ Sat, 08 Sep 2018 12:48:55: 32000000 INFO @ Sat, 08 Sep 2018 12:48:56: 31000000 INFO @ Sat, 08 Sep 2018 12:48:58: 33000000 INFO @ Sat, 08 Sep 2018 12:49:02: 33000000 INFO @ Sat, 08 Sep 2018 12:49:03: 32000000 INFO @ Sat, 08 Sep 2018 12:49:05: 34000000 INFO @ Sat, 08 Sep 2018 12:49:10: 34000000 INFO @ Sat, 08 Sep 2018 12:49:11: 33000000 INFO @ Sat, 08 Sep 2018 12:49:12: 35000000 INFO @ Sat, 08 Sep 2018 12:49:14: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:49:14: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:49:14: #1 total tags in treatment: 35362158 INFO @ Sat, 08 Sep 2018 12:49:14: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:49:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 12:49:15: #1 tags after filtering in treatment: 35362158 INFO @ Sat, 08 Sep 2018 12:49:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:49:15: #1 finished! INFO @ Sat, 08 Sep 2018 12:49:15: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:49:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:49:17: 35000000 INFO @ Sat, 08 Sep 2018 12:49:17: #2 number of paired peaks: 3 WARNING @ Sat, 08 Sep 2018 12:49:17: Too few paired peaks (3) 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 @ Sat, 08 Sep 2018 12:49:17: Process for pairing-model is terminated! cat: SRX2325652.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2325652.05_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 `SRX2325652.05_*.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 `SRX2325652.05_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 @ Sat, 08 Sep 2018 12:49:18: 34000000 INFO @ Sat, 08 Sep 2018 12:49:20: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:49:20: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:49:20: #1 total tags in treatment: 35362158 INFO @ Sat, 08 Sep 2018 12:49:20: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:49:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 12:49:20: #1 tags after filtering in treatment: 35362158 INFO @ Sat, 08 Sep 2018 12:49:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:49:20: #1 finished! INFO @ Sat, 08 Sep 2018 12:49:20: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:49:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:49:23: #2 number of paired peaks: 3 WARNING @ Sat, 08 Sep 2018 12:49:23: Too few paired peaks (3) 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 @ Sat, 08 Sep 2018 12:49:23: Process for pairing-model is terminated! cat: SRX2325652.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2325652.20_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 `SRX2325652.20_*.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 `SRX2325652.20_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 @ Sat, 08 Sep 2018 12:49:25: 35000000 INFO @ Sat, 08 Sep 2018 12:49:28: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:49:28: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:49:28: #1 total tags in treatment: 35362158 INFO @ Sat, 08 Sep 2018 12:49:28: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:49:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 12:49:28: #1 tags after filtering in treatment: 35362158 INFO @ Sat, 08 Sep 2018 12:49:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:49:28: #1 finished! INFO @ Sat, 08 Sep 2018 12:49:28: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:49:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:49:31: #2 number of paired peaks: 3 WARNING @ Sat, 08 Sep 2018 12:49:31: Too few paired peaks (3) 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 @ Sat, 08 Sep 2018 12:49:31: Process for pairing-model is terminated! cat: SRX2325652.10_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 `SRX2325652.10_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 `SRX2325652.10_*.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 `SRX2325652.10_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。