Job ID = 9158560 sra ファイルのダウンロード中... Completed: 1557958K bytes transferred in 14 seconds (855982K 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 51652207 spots for /home/okishinya/chipatlas/results/dm3/SRX1715680/SRR3405221.sra Written 51652207 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: 00:15:51 51652207 reads; of these: 51652207 (100.00%) were unpaired; of these: 1234154 (2.39%) aligned 0 times 44150323 (85.48%) aligned exactly 1 time 6267730 (12.13%) aligned >1 times 97.61% overall alignment rate Time searching: 00:15:51 Overall time: 00:15:51 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] 18164985 / 50418053 = 0.3603 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 18:24:51: # Command line: callpeak -t SRX1715680.bam -f BAM -g dm -n SRX1715680.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1715680.05 # format = BAM # ChIP-seq file = ['SRX1715680.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 18:24:51: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:24:51: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:24:51: # Command line: callpeak -t SRX1715680.bam -f BAM -g dm -n SRX1715680.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1715680.20 # format = BAM # ChIP-seq file = ['SRX1715680.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 18:24:51: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:24:51: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:24:51: # Command line: callpeak -t SRX1715680.bam -f BAM -g dm -n SRX1715680.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1715680.10 # format = BAM # ChIP-seq file = ['SRX1715680.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 18:24:51: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:24:51: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:25:00: 1000000 INFO @ Tue, 27 Jun 2017 18:25:00: 1000000 INFO @ Tue, 27 Jun 2017 18:25:01: 1000000 INFO @ Tue, 27 Jun 2017 18:25:09: 2000000 INFO @ Tue, 27 Jun 2017 18:25:10: 2000000 INFO @ Tue, 27 Jun 2017 18:25:11: 2000000 INFO @ Tue, 27 Jun 2017 18:25:18: 3000000 INFO @ Tue, 27 Jun 2017 18:25:19: 3000000 INFO @ Tue, 27 Jun 2017 18:25:20: 3000000 INFO @ Tue, 27 Jun 2017 18:25:26: 4000000 INFO @ Tue, 27 Jun 2017 18:25:28: 4000000 INFO @ Tue, 27 Jun 2017 18:25:30: 4000000 INFO @ Tue, 27 Jun 2017 18:25:35: 5000000 INFO @ Tue, 27 Jun 2017 18:25:38: 5000000 INFO @ Tue, 27 Jun 2017 18:25:40: 5000000 INFO @ Tue, 27 Jun 2017 18:25:44: 6000000 INFO @ Tue, 27 Jun 2017 18:25:47: 6000000 INFO @ Tue, 27 Jun 2017 18:25:49: 6000000 INFO @ Tue, 27 Jun 2017 18:25:53: 7000000 INFO @ Tue, 27 Jun 2017 18:25:56: 7000000 INFO @ Tue, 27 Jun 2017 18:25:59: 7000000 INFO @ Tue, 27 Jun 2017 18:26:01: 8000000 INFO @ Tue, 27 Jun 2017 18:26:05: 8000000 INFO @ Tue, 27 Jun 2017 18:26:09: 8000000 INFO @ Tue, 27 Jun 2017 18:26:10: 9000000 INFO @ Tue, 27 Jun 2017 18:26:15: 9000000 INFO @ Tue, 27 Jun 2017 18:26:18: 9000000 INFO @ Tue, 27 Jun 2017 18:26:19: 10000000 INFO @ Tue, 27 Jun 2017 18:26:24: 10000000 INFO @ Tue, 27 Jun 2017 18:26:28: 11000000 INFO @ Tue, 27 Jun 2017 18:26:28: 10000000 INFO @ Tue, 27 Jun 2017 18:26:33: 11000000 INFO @ Tue, 27 Jun 2017 18:26:36: 12000000 INFO @ Tue, 27 Jun 2017 18:26:38: 11000000 INFO @ Tue, 27 Jun 2017 18:26:43: 12000000 INFO @ Tue, 27 Jun 2017 18:26:45: 13000000 INFO @ Tue, 27 Jun 2017 18:26:48: 12000000 INFO @ Tue, 27 Jun 2017 18:26:51: 13000000 INFO @ Tue, 27 Jun 2017 18:26:54: 14000000 INFO @ Tue, 27 Jun 2017 18:26:58: 13000000 INFO @ Tue, 27 Jun 2017 18:27:00: 14000000 INFO @ Tue, 27 Jun 2017 18:27:03: 15000000 INFO @ Tue, 27 Jun 2017 18:27:07: 14000000 INFO @ Tue, 27 Jun 2017 18:27:09: 15000000 INFO @ Tue, 27 Jun 2017 18:27:12: 16000000 INFO @ Tue, 27 Jun 2017 18:27:17: 15000000 INFO @ Tue, 27 Jun 2017 18:27:18: 16000000 INFO @ Tue, 27 Jun 2017 18:27:21: 17000000 INFO @ Tue, 27 Jun 2017 18:27:26: 16000000 INFO @ Tue, 27 Jun 2017 18:27:27: 17000000 INFO @ Tue, 27 Jun 2017 18:27:29: 18000000 INFO @ Tue, 27 Jun 2017 18:27:35: 17000000 INFO @ Tue, 27 Jun 2017 18:27:36: 18000000 INFO @ Tue, 27 Jun 2017 18:27:37: 19000000 INFO @ Tue, 27 Jun 2017 18:27:44: 18000000 INFO @ Tue, 27 Jun 2017 18:27:44: 19000000 INFO @ Tue, 27 Jun 2017 18:27:45: 20000000 INFO @ Tue, 27 Jun 2017 18:27:52: 20000000 INFO @ Tue, 27 Jun 2017 18:27:52: 19000000 INFO @ Tue, 27 Jun 2017 18:27:53: 21000000 INFO @ Tue, 27 Jun 2017 18:28:00: 21000000 INFO @ Tue, 27 Jun 2017 18:28:01: 20000000 INFO @ Tue, 27 Jun 2017 18:28:01: 22000000 INFO @ Tue, 27 Jun 2017 18:28:07: 22000000 INFO @ Tue, 27 Jun 2017 18:28:08: 23000000 INFO @ Tue, 27 Jun 2017 18:28:09: 21000000 INFO @ Tue, 27 Jun 2017 18:28:15: 23000000 INFO @ Tue, 27 Jun 2017 18:28:16: 24000000 INFO @ Tue, 27 Jun 2017 18:28:17: 22000000 INFO @ Tue, 27 Jun 2017 18:28:23: 24000000 INFO @ Tue, 27 Jun 2017 18:28:24: 25000000 INFO @ Tue, 27 Jun 2017 18:28:26: 23000000 INFO @ Tue, 27 Jun 2017 18:28:31: 25000000 INFO @ Tue, 27 Jun 2017 18:28:32: 26000000 INFO @ Tue, 27 Jun 2017 18:28:34: 24000000 INFO @ Tue, 27 Jun 2017 18:28:38: 26000000 INFO @ Tue, 27 Jun 2017 18:28:40: 27000000 INFO @ Tue, 27 Jun 2017 18:28:43: 25000000 INFO @ Tue, 27 Jun 2017 18:28:46: 27000000 INFO @ Tue, 27 Jun 2017 18:28:48: 28000000 INFO @ Tue, 27 Jun 2017 18:28:52: 26000000 INFO @ Tue, 27 Jun 2017 18:28:53: 28000000 INFO @ Tue, 27 Jun 2017 18:28:56: 29000000 INFO @ Tue, 27 Jun 2017 18:29:00: 27000000 INFO @ Tue, 27 Jun 2017 18:29:01: 29000000 INFO @ Tue, 27 Jun 2017 18:29:04: 30000000 INFO @ Tue, 27 Jun 2017 18:29:09: 30000000 INFO @ Tue, 27 Jun 2017 18:29:09: 28000000 INFO @ Tue, 27 Jun 2017 18:29:12: 31000000 INFO @ Tue, 27 Jun 2017 18:29:16: 31000000 INFO @ Tue, 27 Jun 2017 18:29:18: 29000000 INFO @ Tue, 27 Jun 2017 18:29:20: 32000000 INFO @ Tue, 27 Jun 2017 18:29:22: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:29:22: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:29:22: #1 total tags in treatment: 32253068 INFO @ Tue, 27 Jun 2017 18:29:22: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:29:22: #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 18:29:22: #1 tags after filtering in treatment: 32253068 INFO @ Tue, 27 Jun 2017 18:29:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:29:22: #1 finished! INFO @ Tue, 27 Jun 2017 18:29:22: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:29:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:29:24: 32000000 INFO @ Tue, 27 Jun 2017 18:29:25: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:29:25: Too few paired peaks (0) 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 18:29:25: Process for pairing-model is terminated! cat: SRX1715680.05_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 `SRX1715680.05_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 `SRX1715680.05_*.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 `SRX1715680.05_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 18:29:25: 30000000 INFO @ Tue, 27 Jun 2017 18:29:26: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:29:26: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:29:26: #1 total tags in treatment: 32253068 INFO @ Tue, 27 Jun 2017 18:29:26: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:29:26: #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 18:29:26: #1 tags after filtering in treatment: 32253068 INFO @ Tue, 27 Jun 2017 18:29:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:29:26: #1 finished! INFO @ Tue, 27 Jun 2017 18:29:26: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:29:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:29:29: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:29:29: Too few paired peaks (0) 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 18:29:29: Process for pairing-model is terminated! cat: SRX1715680.20_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 `SRX1715680.20_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 `SRX1715680.20_*.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 `SRX1715680.20_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 18:29:33: 31000000 INFO @ Tue, 27 Jun 2017 18:29:40: 32000000 INFO @ Tue, 27 Jun 2017 18:29:42: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:29:42: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:29:42: #1 total tags in treatment: 32253068 INFO @ Tue, 27 Jun 2017 18:29:42: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:29:42: #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 18:29:43: #1 tags after filtering in treatment: 32253068 INFO @ Tue, 27 Jun 2017 18:29:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:29:43: #1 finished! INFO @ Tue, 27 Jun 2017 18:29:43: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:29:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:29:45: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:29:45: Too few paired peaks (0) 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 18:29:45: Process for pairing-model is terminated! cat: SRX1715680.10_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 `SRX1715680.10_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 `SRX1715680.10_*.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 `SRX1715680.10_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。