Job ID = 9162248 sra ファイルのダウンロード中... Completed: 740822K bytes transferred in 9 seconds (667210K 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 21405888 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1791112/SRR3567987.sra Written 21405888 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: 00:03:47 21405888 reads; of these: 21405888 (100.00%) were unpaired; of these: 681569 (3.18%) aligned 0 times 18086587 (84.49%) aligned exactly 1 time 2637732 (12.32%) aligned >1 times 96.82% overall alignment rate Time searching: 00:03:47 Overall time: 00:03:47 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 7867004 / 20724319 = 0.3796 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 @ Wed, 28 Jun 2017 07:10:49: # Command line: callpeak -t SRX1791112.bam -f BAM -g 12100000 -n SRX1791112.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1791112.20 # format = BAM # ChIP-seq file = ['SRX1791112.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 28 Jun 2017 07:10:49: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:10:49: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:10:49: # Command line: callpeak -t SRX1791112.bam -f BAM -g 12100000 -n SRX1791112.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1791112.05 # format = BAM # ChIP-seq file = ['SRX1791112.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 28 Jun 2017 07:10:49: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:10:49: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:10:49: # Command line: callpeak -t SRX1791112.bam -f BAM -g 12100000 -n SRX1791112.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1791112.10 # format = BAM # ChIP-seq file = ['SRX1791112.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 28 Jun 2017 07:10:49: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:10:49: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:10:55: 1000000 INFO @ Wed, 28 Jun 2017 07:10:55: 1000000 INFO @ Wed, 28 Jun 2017 07:10:56: 1000000 INFO @ Wed, 28 Jun 2017 07:11:01: 2000000 INFO @ Wed, 28 Jun 2017 07:11:02: 2000000 INFO @ Wed, 28 Jun 2017 07:11:03: 2000000 INFO @ Wed, 28 Jun 2017 07:11:07: 3000000 INFO @ Wed, 28 Jun 2017 07:11:08: 3000000 INFO @ Wed, 28 Jun 2017 07:11:10: 3000000 INFO @ Wed, 28 Jun 2017 07:11:13: 4000000 INFO @ Wed, 28 Jun 2017 07:11:15: 4000000 INFO @ Wed, 28 Jun 2017 07:11:17: 4000000 INFO @ Wed, 28 Jun 2017 07:11:19: 5000000 INFO @ Wed, 28 Jun 2017 07:11:22: 5000000 INFO @ Wed, 28 Jun 2017 07:11:24: 5000000 INFO @ Wed, 28 Jun 2017 07:11:25: 6000000 INFO @ Wed, 28 Jun 2017 07:11:28: 6000000 INFO @ Wed, 28 Jun 2017 07:11:31: 6000000 INFO @ Wed, 28 Jun 2017 07:11:31: 7000000 INFO @ Wed, 28 Jun 2017 07:11:35: 7000000 INFO @ Wed, 28 Jun 2017 07:11:37: 8000000 INFO @ Wed, 28 Jun 2017 07:11:38: 7000000 INFO @ Wed, 28 Jun 2017 07:11:41: 8000000 INFO @ Wed, 28 Jun 2017 07:11:43: 9000000 INFO @ Wed, 28 Jun 2017 07:11:45: 8000000 INFO @ Wed, 28 Jun 2017 07:11:48: 9000000 INFO @ Wed, 28 Jun 2017 07:11:49: 10000000 INFO @ Wed, 28 Jun 2017 07:11:51: 9000000 INFO @ Wed, 28 Jun 2017 07:11:54: 10000000 INFO @ Wed, 28 Jun 2017 07:11:55: 11000000 INFO @ Wed, 28 Jun 2017 07:11:57: 10000000 INFO @ Wed, 28 Jun 2017 07:12:01: 11000000 INFO @ Wed, 28 Jun 2017 07:12:01: 12000000 INFO @ Wed, 28 Jun 2017 07:12:04: 11000000 INFO @ Wed, 28 Jun 2017 07:12:07: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:12:07: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:12:07: #1 total tags in treatment: 12857315 INFO @ Wed, 28 Jun 2017 07:12:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:12:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:12:07: #1 tags after filtering in treatment: 12857315 INFO @ Wed, 28 Jun 2017 07:12:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:12:07: #1 finished! INFO @ Wed, 28 Jun 2017 07:12:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:12:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:12:08: 12000000 INFO @ Wed, 28 Jun 2017 07:12:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:12:08: 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 @ Wed, 28 Jun 2017 07:12:08: Process for pairing-model is terminated! cat: SRX1791112.05_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 `SRX1791112.05_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 `SRX1791112.05_*.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 `SRX1791112.05_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 @ Wed, 28 Jun 2017 07:12:10: 12000000 INFO @ Wed, 28 Jun 2017 07:12:13: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:12:13: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:12:13: #1 total tags in treatment: 12857315 INFO @ Wed, 28 Jun 2017 07:12:13: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:12:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:12:13: #1 tags after filtering in treatment: 12857315 INFO @ Wed, 28 Jun 2017 07:12:13: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:12:13: #1 finished! INFO @ Wed, 28 Jun 2017 07:12:13: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:12:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:12:14: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:12:14: 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 @ Wed, 28 Jun 2017 07:12:14: Process for pairing-model is terminated! cat: SRX1791112.20_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 `SRX1791112.20_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 `SRX1791112.20_*.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 `SRX1791112.20_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 @ Wed, 28 Jun 2017 07:12:15: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:12:15: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:12:15: #1 total tags in treatment: 12857315 INFO @ Wed, 28 Jun 2017 07:12:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:12:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:12:15: #1 tags after filtering in treatment: 12857315 INFO @ Wed, 28 Jun 2017 07:12:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:12:15: #1 finished! INFO @ Wed, 28 Jun 2017 07:12:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:12:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:12:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:12:16: 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 @ Wed, 28 Jun 2017 07:12:16: Process for pairing-model is terminated! cat: SRX1791112.10_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 `SRX1791112.10_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 `SRX1791112.10_*.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 `SRX1791112.10_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。