Job ID = 9384021 sra ファイルのダウンロード中... Completed: 98563K bytes transferred in 4 seconds (168573K 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 4468315 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2174511/SRR4254739.sra Written 4468315 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: 00:00:45 4468315 reads; of these: 4468315 (100.00%) were unpaired; of these: 420589 (9.41%) aligned 0 times 3344464 (74.85%) aligned exactly 1 time 703262 (15.74%) aligned >1 times 90.59% overall alignment rate Time searching: 00:00:45 Overall time: 00:00:45 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_rmdupse_core] 1085411 / 4047726 = 0.2682 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, 06 Aug 2017 00:06:51: # Command line: callpeak -t SRX2174511.bam -f BAM -g 12100000 -n SRX2174511.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2174511.20 # format = BAM # ChIP-seq file = ['SRX2174511.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 @ Sun, 06 Aug 2017 00:06:51: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:06:51: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:06:51: # Command line: callpeak -t SRX2174511.bam -f BAM -g 12100000 -n SRX2174511.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2174511.05 # format = BAM # ChIP-seq file = ['SRX2174511.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 @ Sun, 06 Aug 2017 00:06:51: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:06:51: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:06:51: # Command line: callpeak -t SRX2174511.bam -f BAM -g 12100000 -n SRX2174511.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2174511.10 # format = BAM # ChIP-seq file = ['SRX2174511.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 @ Sun, 06 Aug 2017 00:06:51: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:06:51: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:06:57: 1000000 INFO @ Sun, 06 Aug 2017 00:06:58: 1000000 INFO @ Sun, 06 Aug 2017 00:06:58: 1000000 INFO @ Sun, 06 Aug 2017 00:07:04: 2000000 INFO @ Sun, 06 Aug 2017 00:07:04: 2000000 INFO @ Sun, 06 Aug 2017 00:07:04: 2000000 INFO @ Sun, 06 Aug 2017 00:07:11: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:07:11: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:07:11: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:07:11: #1 total tags in treatment: 2962315 INFO @ Sun, 06 Aug 2017 00:07:11: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:07:11: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:07:11: #1 total tags in treatment: 2962315 INFO @ Sun, 06 Aug 2017 00:07:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 00:07:11: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:07:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 00:07:11: #1 tags after filtering in treatment: 2962315 INFO @ Sun, 06 Aug 2017 00:07:11: #1 tags after filtering in treatment: 2962315 INFO @ Sun, 06 Aug 2017 00:07:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:07:11: #1 finished! INFO @ Sun, 06 Aug 2017 00:07:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:07:11: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:07:11: #1 finished! INFO @ Sun, 06 Aug 2017 00:07:11: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:07:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:07:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:07:11: #2 number of paired peaks: 30 WARNING @ Sun, 06 Aug 2017 00:07:11: Too few paired peaks (30) 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, 06 Aug 2017 00:07:11: Process for pairing-model is terminated! INFO @ Sun, 06 Aug 2017 00:07:11: #2 number of paired peaks: 30 WARNING @ Sun, 06 Aug 2017 00:07:11: Too few paired peaks (30) 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, 06 Aug 2017 00:07:11: Process for pairing-model is terminated! cat: SRX2174511.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2174511.05_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 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2174511.20_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 `SRX2174511.05_model.r'rm: cannot remove `SRX2174511.20_*.xls': そのようなファイルやディレクトリはありません : 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 `SRX2174511.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2174511.05_*.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 `SRX2174511.05_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 CompletedMACS2peakCalling INFO @ Sun, 06 Aug 2017 00:07:11: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:07:11: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:07:11: #1 total tags in treatment: 2962315 INFO @ Sun, 06 Aug 2017 00:07:11: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:07:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 00:07:11: #1 tags after filtering in treatment: 2962315 INFO @ Sun, 06 Aug 2017 00:07:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:07:11: #1 finished! INFO @ Sun, 06 Aug 2017 00:07:11: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:07:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:07:11: #2 number of paired peaks: 30 WARNING @ Sun, 06 Aug 2017 00:07:11: Too few paired peaks (30) 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, 06 Aug 2017 00:07:11: Process for pairing-model is terminated! cat: SRX2174511.10_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 `SRX2174511.10_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 `SRX2174511.10_*.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 `SRX2174511.10_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。