Job ID = 9158556 sra ファイルのダウンロード中... Completed: 2107959K bytes transferred in 14 seconds (1152431K 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 49816806 spots for /home/okishinya/chipatlas/results/dm3/SRX1715678/SRR3405219.sra Written 49816806 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: 00:00:01 Multiseed full-index search: 00:18:02 49816806 reads; of these: 49816806 (100.00%) were unpaired; of these: 1029634 (2.07%) aligned 0 times 42315946 (84.94%) aligned exactly 1 time 6471226 (12.99%) aligned >1 times 97.93% overall alignment rate Time searching: 00:18:03 Overall time: 00:18:03 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] 18515288 / 48787172 = 0.3795 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 18:23:21: # Command line: callpeak -t SRX1715678.bam -f BAM -g dm -n SRX1715678.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1715678.20 # format = BAM # ChIP-seq file = ['SRX1715678.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 18:23:21: # Command line: callpeak -t SRX1715678.bam -f BAM -g dm -n SRX1715678.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1715678.10 # format = BAM # ChIP-seq file = ['SRX1715678.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 18:23:21: # Command line: callpeak -t SRX1715678.bam -f BAM -g dm -n SRX1715678.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1715678.05 # format = BAM # ChIP-seq file = ['SRX1715678.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 18:23:21: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:23:21: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:23:21: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:23:21: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:23:21: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:23:21: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:23:28: 1000000 INFO @ Tue, 27 Jun 2017 18:23:29: 1000000 INFO @ Tue, 27 Jun 2017 18:23:29: 1000000 INFO @ Tue, 27 Jun 2017 18:23:35: 2000000 INFO @ Tue, 27 Jun 2017 18:23:36: 2000000 INFO @ Tue, 27 Jun 2017 18:23:36: 2000000 INFO @ Tue, 27 Jun 2017 18:23:42: 3000000 INFO @ Tue, 27 Jun 2017 18:23:43: 3000000 INFO @ Tue, 27 Jun 2017 18:23:43: 3000000 INFO @ Tue, 27 Jun 2017 18:23:48: 4000000 INFO @ Tue, 27 Jun 2017 18:23:50: 4000000 INFO @ Tue, 27 Jun 2017 18:23:50: 4000000 INFO @ Tue, 27 Jun 2017 18:23:55: 5000000 INFO @ Tue, 27 Jun 2017 18:23:57: 5000000 INFO @ Tue, 27 Jun 2017 18:23:57: 5000000 INFO @ Tue, 27 Jun 2017 18:24:01: 6000000 INFO @ Tue, 27 Jun 2017 18:24:04: 6000000 INFO @ Tue, 27 Jun 2017 18:24:04: 6000000 INFO @ Tue, 27 Jun 2017 18:24:08: 7000000 INFO @ Tue, 27 Jun 2017 18:24:11: 7000000 INFO @ Tue, 27 Jun 2017 18:24:11: 7000000 INFO @ Tue, 27 Jun 2017 18:24:15: 8000000 INFO @ Tue, 27 Jun 2017 18:24:18: 8000000 INFO @ Tue, 27 Jun 2017 18:24:18: 8000000 INFO @ Tue, 27 Jun 2017 18:24:21: 9000000 INFO @ Tue, 27 Jun 2017 18:24:25: 9000000 INFO @ Tue, 27 Jun 2017 18:24:25: 9000000 INFO @ Tue, 27 Jun 2017 18:24:28: 10000000 INFO @ Tue, 27 Jun 2017 18:24:32: 10000000 INFO @ Tue, 27 Jun 2017 18:24:32: 10000000 INFO @ Tue, 27 Jun 2017 18:24:35: 11000000 INFO @ Tue, 27 Jun 2017 18:24:40: 11000000 INFO @ Tue, 27 Jun 2017 18:24:40: 11000000 INFO @ Tue, 27 Jun 2017 18:24:41: 12000000 INFO @ Tue, 27 Jun 2017 18:24:47: 12000000 INFO @ Tue, 27 Jun 2017 18:24:47: 12000000 INFO @ Tue, 27 Jun 2017 18:24:48: 13000000 INFO @ Tue, 27 Jun 2017 18:24:54: 13000000 INFO @ Tue, 27 Jun 2017 18:24:54: 13000000 INFO @ Tue, 27 Jun 2017 18:24:55: 14000000 INFO @ Tue, 27 Jun 2017 18:25:01: 14000000 INFO @ Tue, 27 Jun 2017 18:25:01: 14000000 INFO @ Tue, 27 Jun 2017 18:25:01: 15000000 INFO @ Tue, 27 Jun 2017 18:25:08: 16000000 INFO @ Tue, 27 Jun 2017 18:25:08: 15000000 INFO @ Tue, 27 Jun 2017 18:25:08: 15000000 INFO @ Tue, 27 Jun 2017 18:25:14: 17000000 INFO @ Tue, 27 Jun 2017 18:25:15: 16000000 INFO @ Tue, 27 Jun 2017 18:25:15: 16000000 INFO @ Tue, 27 Jun 2017 18:25:21: 18000000 INFO @ Tue, 27 Jun 2017 18:25:22: 17000000 INFO @ Tue, 27 Jun 2017 18:25:22: 17000000 INFO @ Tue, 27 Jun 2017 18:25:28: 19000000 INFO @ Tue, 27 Jun 2017 18:25:29: 18000000 INFO @ Tue, 27 Jun 2017 18:25:29: 18000000 INFO @ Tue, 27 Jun 2017 18:25:34: 20000000 INFO @ Tue, 27 Jun 2017 18:25:36: 19000000 INFO @ Tue, 27 Jun 2017 18:25:36: 19000000 INFO @ Tue, 27 Jun 2017 18:25:41: 21000000 INFO @ Tue, 27 Jun 2017 18:25:43: 20000000 INFO @ Tue, 27 Jun 2017 18:25:43: 20000000 INFO @ Tue, 27 Jun 2017 18:25:48: 22000000 INFO @ Tue, 27 Jun 2017 18:25:50: 21000000 INFO @ Tue, 27 Jun 2017 18:25:50: 21000000 INFO @ Tue, 27 Jun 2017 18:25:54: 23000000 INFO @ Tue, 27 Jun 2017 18:25:57: 22000000 INFO @ Tue, 27 Jun 2017 18:25:57: 22000000 INFO @ Tue, 27 Jun 2017 18:26:01: 24000000 INFO @ Tue, 27 Jun 2017 18:26:04: 23000000 INFO @ Tue, 27 Jun 2017 18:26:04: 23000000 INFO @ Tue, 27 Jun 2017 18:26:08: 25000000 INFO @ Tue, 27 Jun 2017 18:26:11: 24000000 INFO @ Tue, 27 Jun 2017 18:26:11: 24000000 INFO @ Tue, 27 Jun 2017 18:26:15: 26000000 INFO @ Tue, 27 Jun 2017 18:26:18: 25000000 INFO @ Tue, 27 Jun 2017 18:26:18: 25000000 INFO @ Tue, 27 Jun 2017 18:26:22: 27000000 INFO @ Tue, 27 Jun 2017 18:26:25: 26000000 INFO @ Tue, 27 Jun 2017 18:26:25: 26000000 INFO @ Tue, 27 Jun 2017 18:26:29: 28000000 INFO @ Tue, 27 Jun 2017 18:26:32: 27000000 INFO @ Tue, 27 Jun 2017 18:26:32: 27000000 INFO @ Tue, 27 Jun 2017 18:26:36: 29000000 INFO @ Tue, 27 Jun 2017 18:26:39: 28000000 INFO @ Tue, 27 Jun 2017 18:26:39: 28000000 INFO @ Tue, 27 Jun 2017 18:26:43: 30000000 INFO @ Tue, 27 Jun 2017 18:26:45: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:26:45: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:26:45: #1 total tags in treatment: 30271884 INFO @ Tue, 27 Jun 2017 18:26:45: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:26:45: #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 18:26:45: #1 tags after filtering in treatment: 30271884 INFO @ Tue, 27 Jun 2017 18:26:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:26:45: #1 finished! INFO @ Tue, 27 Jun 2017 18:26:45: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:26:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:26:46: 29000000 INFO @ Tue, 27 Jun 2017 18:26:46: 29000000 INFO @ Tue, 27 Jun 2017 18:26:47: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:26:47: 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 18:26:47: Process for pairing-model is terminated! cat: SRX1715678.10_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 `SRX1715678.10_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 `SRX1715678.10_*.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 `SRX1715678.10_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 18:26:52: 30000000 INFO @ Tue, 27 Jun 2017 18:26:52: 30000000 INFO @ Tue, 27 Jun 2017 18:26:54: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:26:54: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:26:54: #1 total tags in treatment: 30271884 INFO @ Tue, 27 Jun 2017 18:26:54: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:26:54: #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 18:26:54: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:26:54: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:26:54: #1 total tags in treatment: 30271884 INFO @ Tue, 27 Jun 2017 18:26:54: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:26:54: #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 18:26:55: #1 tags after filtering in treatment: 30271884 INFO @ Tue, 27 Jun 2017 18:26:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:26:55: #1 finished! INFO @ Tue, 27 Jun 2017 18:26:55: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:26:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:26:55: #1 tags after filtering in treatment: 30271884 INFO @ Tue, 27 Jun 2017 18:26:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:26:55: #1 finished! INFO @ Tue, 27 Jun 2017 18:26:55: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:26:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:26:57: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:26:57: 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 18:26:57: Process for pairing-model is terminated! cat: SRX1715678.05_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 `SRX1715678.05_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 `SRX1715678.05_*.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 `SRX1715678.05_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 18:26:57: #2 number of paired peaks: 0 WARNING @ Tue, 27 Jun 2017 18:26:57: 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 18:26:57: Process for pairing-model is terminated! cat: SRX1715678.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1715678.20_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 `SRX1715678.20_*.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 `SRX1715678.20_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。