Job ID = 10714560 sra ファイルのダウンロード中... Completed: 1846825K bytes transferred in 166 seconds (91045K 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 83805861 spots for /home/okishinya/chipatlas/results/dm3/SRX4047182/SRR7126163.sra Written 83805861 spots for /home/okishinya/chipatlas/results/dm3/SRX4047182/SRR7126163.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: 00:00:00 Multiseed full-index search: 00:19:47 83805861 reads; of these: 83805861 (100.00%) were unpaired; of these: 34359441 (41.00%) aligned 0 times 40761056 (48.64%) aligned exactly 1 time 8685364 (10.36%) aligned >1 times 59.00% overall alignment rate Time searching: 00:19:47 Overall time: 00:19:47 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 24 files... [bam_rmdupse_core] 12560211 / 49446420 = 0.2540 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 @ Sun, 03 Jun 2018 14:05:20: # Command line: callpeak -t SRX4047182.bam -f BAM -g dm -n SRX4047182.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4047182.05 # format = BAM # ChIP-seq file = ['SRX4047182.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 @ Sun, 03 Jun 2018 14:05:20: # Command line: callpeak -t SRX4047182.bam -f BAM -g dm -n SRX4047182.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4047182.10 # format = BAM # ChIP-seq file = ['SRX4047182.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 @ Sun, 03 Jun 2018 14:05:20: #1 read tag files... INFO @ Sun, 03 Jun 2018 14:05:20: #1 read tag files... INFO @ Sun, 03 Jun 2018 14:05:20: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 14:05:20: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 14:05:20: # Command line: callpeak -t SRX4047182.bam -f BAM -g dm -n SRX4047182.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4047182.20 # format = BAM # ChIP-seq file = ['SRX4047182.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 @ Sun, 03 Jun 2018 14:05:20: #1 read tag files... INFO @ Sun, 03 Jun 2018 14:05:20: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 14:05:28: 1000000 INFO @ Sun, 03 Jun 2018 14:05:28: 1000000 INFO @ Sun, 03 Jun 2018 14:05:28: 1000000 INFO @ Sun, 03 Jun 2018 14:05:35: 2000000 INFO @ Sun, 03 Jun 2018 14:05:36: 2000000 INFO @ Sun, 03 Jun 2018 14:05:36: 2000000 INFO @ Sun, 03 Jun 2018 14:05:43: 3000000 INFO @ Sun, 03 Jun 2018 14:05:44: 3000000 INFO @ Sun, 03 Jun 2018 14:05:45: 3000000 INFO @ Sun, 03 Jun 2018 14:05:50: 4000000 INFO @ Sun, 03 Jun 2018 14:05:53: 4000000 INFO @ Sun, 03 Jun 2018 14:05:55: 4000000 INFO @ Sun, 03 Jun 2018 14:05:57: 5000000 INFO @ Sun, 03 Jun 2018 14:06:01: 5000000 INFO @ Sun, 03 Jun 2018 14:06:04: 5000000 INFO @ Sun, 03 Jun 2018 14:06:04: 6000000 INFO @ Sun, 03 Jun 2018 14:06:10: 6000000 INFO @ Sun, 03 Jun 2018 14:06:12: 7000000 INFO @ Sun, 03 Jun 2018 14:06:14: 6000000 INFO @ Sun, 03 Jun 2018 14:06:19: 7000000 INFO @ Sun, 03 Jun 2018 14:06:19: 8000000 INFO @ Sun, 03 Jun 2018 14:06:23: 7000000 INFO @ Sun, 03 Jun 2018 14:06:27: 9000000 INFO @ Sun, 03 Jun 2018 14:06:27: 8000000 INFO @ Sun, 03 Jun 2018 14:06:32: 8000000 INFO @ Sun, 03 Jun 2018 14:06:34: 10000000 INFO @ Sun, 03 Jun 2018 14:06:36: 9000000 INFO @ Sun, 03 Jun 2018 14:06:41: 11000000 INFO @ Sun, 03 Jun 2018 14:06:42: 9000000 INFO @ Sun, 03 Jun 2018 14:06:44: 10000000 INFO @ Sun, 03 Jun 2018 14:06:49: 12000000 INFO @ Sun, 03 Jun 2018 14:06:51: 10000000 INFO @ Sun, 03 Jun 2018 14:06:53: 11000000 INFO @ Sun, 03 Jun 2018 14:06:56: 13000000 INFO @ Sun, 03 Jun 2018 14:07:00: 11000000 INFO @ Sun, 03 Jun 2018 14:07:01: 12000000 INFO @ Sun, 03 Jun 2018 14:07:04: 14000000 INFO @ Sun, 03 Jun 2018 14:07:10: 12000000 INFO @ Sun, 03 Jun 2018 14:07:10: 13000000 INFO @ Sun, 03 Jun 2018 14:07:11: 15000000 INFO @ Sun, 03 Jun 2018 14:07:18: 16000000 INFO @ Sun, 03 Jun 2018 14:07:19: 14000000 INFO @ Sun, 03 Jun 2018 14:07:19: 13000000 INFO @ Sun, 03 Jun 2018 14:07:26: 17000000 INFO @ Sun, 03 Jun 2018 14:07:27: 15000000 INFO @ Sun, 03 Jun 2018 14:07:28: 14000000 INFO @ Sun, 03 Jun 2018 14:07:33: 18000000 INFO @ Sun, 03 Jun 2018 14:07:36: 16000000 INFO @ Sun, 03 Jun 2018 14:07:37: 15000000 INFO @ Sun, 03 Jun 2018 14:07:41: 19000000 INFO @ Sun, 03 Jun 2018 14:07:44: 17000000 INFO @ Sun, 03 Jun 2018 14:07:47: 16000000 INFO @ Sun, 03 Jun 2018 14:07:48: 20000000 INFO @ Sun, 03 Jun 2018 14:07:53: 18000000 INFO @ Sun, 03 Jun 2018 14:07:56: 21000000 INFO @ Sun, 03 Jun 2018 14:07:56: 17000000 INFO @ Sun, 03 Jun 2018 14:08:01: 19000000 INFO @ Sun, 03 Jun 2018 14:08:03: 22000000 INFO @ Sun, 03 Jun 2018 14:08:05: 18000000 INFO @ Sun, 03 Jun 2018 14:08:10: 20000000 INFO @ Sun, 03 Jun 2018 14:08:11: 23000000 INFO @ Sun, 03 Jun 2018 14:08:14: 19000000 INFO @ Sun, 03 Jun 2018 14:08:18: 24000000 INFO @ Sun, 03 Jun 2018 14:08:18: 21000000 INFO @ Sun, 03 Jun 2018 14:08:24: 20000000 INFO @ Sun, 03 Jun 2018 14:08:25: 25000000 INFO @ Sun, 03 Jun 2018 14:08:27: 22000000 INFO @ Sun, 03 Jun 2018 14:08:32: 26000000 INFO @ Sun, 03 Jun 2018 14:08:33: 21000000 INFO @ Sun, 03 Jun 2018 14:08:35: 23000000 INFO @ Sun, 03 Jun 2018 14:08:40: 27000000 INFO @ Sun, 03 Jun 2018 14:08:42: 22000000 INFO @ Sun, 03 Jun 2018 14:08:44: 24000000 INFO @ Sun, 03 Jun 2018 14:08:47: 28000000 INFO @ Sun, 03 Jun 2018 14:08:52: 23000000 INFO @ Sun, 03 Jun 2018 14:08:53: 25000000 INFO @ Sun, 03 Jun 2018 14:08:55: 29000000 INFO @ Sun, 03 Jun 2018 14:09:01: 24000000 INFO @ Sun, 03 Jun 2018 14:09:01: 26000000 INFO @ Sun, 03 Jun 2018 14:09:02: 30000000 INFO @ Sun, 03 Jun 2018 14:09:10: 27000000 INFO @ Sun, 03 Jun 2018 14:09:10: 31000000 INFO @ Sun, 03 Jun 2018 14:09:10: 25000000 INFO @ Sun, 03 Jun 2018 14:09:18: 32000000 INFO @ Sun, 03 Jun 2018 14:09:18: 28000000 INFO @ Sun, 03 Jun 2018 14:09:20: 26000000 INFO @ Sun, 03 Jun 2018 14:09:26: 33000000 INFO @ Sun, 03 Jun 2018 14:09:27: 29000000 INFO @ Sun, 03 Jun 2018 14:09:29: 27000000 INFO @ Sun, 03 Jun 2018 14:09:33: 34000000 INFO @ Sun, 03 Jun 2018 14:09:35: 30000000 INFO @ Sun, 03 Jun 2018 14:09:39: 28000000 INFO @ Sun, 03 Jun 2018 14:09:41: 35000000 INFO @ Sun, 03 Jun 2018 14:09:44: 31000000 INFO @ Sun, 03 Jun 2018 14:09:48: 29000000 INFO @ Sun, 03 Jun 2018 14:09:49: 36000000 INFO @ Sun, 03 Jun 2018 14:09:52: 32000000 INFO @ Sun, 03 Jun 2018 14:09:56: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 14:09:56: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 14:09:56: #1 total tags in treatment: 36886209 INFO @ Sun, 03 Jun 2018 14:09:56: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 14:09:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 14:09:57: #1 tags after filtering in treatment: 36886209 INFO @ Sun, 03 Jun 2018 14:09:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 14:09:57: #1 finished! INFO @ Sun, 03 Jun 2018 14:09:57: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 14:09:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 14:09:57: 30000000 INFO @ Sun, 03 Jun 2018 14:09:59: #2 number of paired peaks: 8 WARNING @ Sun, 03 Jun 2018 14:09:59: Too few paired peaks (8) 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 @ Sun, 03 Jun 2018 14:09:59: Process for pairing-model is terminated! cat: SRX4047182.05_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 `SRX4047182.05_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 `SRX4047182.05_*.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 `SRX4047182.05_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 @ Sun, 03 Jun 2018 14:10:00: 33000000 INFO @ Sun, 03 Jun 2018 14:10:06: 31000000 INFO @ Sun, 03 Jun 2018 14:10:08: 34000000 INFO @ Sun, 03 Jun 2018 14:10:15: 32000000 INFO @ Sun, 03 Jun 2018 14:10:17: 35000000 INFO @ Sun, 03 Jun 2018 14:10:24: 33000000 INFO @ Sun, 03 Jun 2018 14:10:25: 36000000 INFO @ Sun, 03 Jun 2018 14:10:32: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 14:10:32: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 14:10:32: #1 total tags in treatment: 36886209 INFO @ Sun, 03 Jun 2018 14:10:32: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 14:10:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 14:10:33: 34000000 INFO @ Sun, 03 Jun 2018 14:10:33: #1 tags after filtering in treatment: 36886209 INFO @ Sun, 03 Jun 2018 14:10:33: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 14:10:33: #1 finished! INFO @ Sun, 03 Jun 2018 14:10:33: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 14:10:33: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 14:10:35: #2 number of paired peaks: 8 WARNING @ Sun, 03 Jun 2018 14:10:35: Too few paired peaks (8) 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 @ Sun, 03 Jun 2018 14:10:35: Process for pairing-model is terminated! cat: SRX4047182.10_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 `SRX4047182.10_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 `SRX4047182.10_*.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 `SRX4047182.10_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 @ Sun, 03 Jun 2018 14:10:41: 35000000 INFO @ Sun, 03 Jun 2018 14:10:49: 36000000 INFO @ Sun, 03 Jun 2018 14:10:55: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 14:10:55: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 14:10:55: #1 total tags in treatment: 36886209 INFO @ Sun, 03 Jun 2018 14:10:55: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 14:10:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 14:10:56: #1 tags after filtering in treatment: 36886209 INFO @ Sun, 03 Jun 2018 14:10:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 03 Jun 2018 14:10:56: #1 finished! INFO @ Sun, 03 Jun 2018 14:10:56: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 14:10:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 14:10:58: #2 number of paired peaks: 8 WARNING @ Sun, 03 Jun 2018 14:10:58: Too few paired peaks (8) 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 @ Sun, 03 Jun 2018 14:10:58: Process for pairing-model is terminated! cat: SRX4047182.20_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 `SRX4047182.20_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 `SRX4047182.20_*.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 `SRX4047182.20_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。