Job ID = 9384019 sra ファイルのダウンロード中... Completed: 143047K bytes transferred in 4 seconds (235223K 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 6556832 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2174509/SRR4254737.sra Written 6556832 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: 00:01:16 6556832 reads; of these: 6556832 (100.00%) were unpaired; of these: 486048 (7.41%) aligned 0 times 5341866 (81.47%) aligned exactly 1 time 728918 (11.12%) aligned >1 times 92.59% overall alignment rate Time searching: 00:01:16 Overall time: 00:01:16 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] 1328331 / 6070784 = 0.2188 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 00:07:34: # Command line: callpeak -t SRX2174509.bam -f BAM -g 12100000 -n SRX2174509.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2174509.10 # format = BAM # ChIP-seq file = ['SRX2174509.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 00:07:34: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:07:34: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:07:34: # Command line: callpeak -t SRX2174509.bam -f BAM -g 12100000 -n SRX2174509.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2174509.20 # format = BAM # ChIP-seq file = ['SRX2174509.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 00:07:34: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:07:34: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:07:34: # Command line: callpeak -t SRX2174509.bam -f BAM -g 12100000 -n SRX2174509.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2174509.05 # format = BAM # ChIP-seq file = ['SRX2174509.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 00:07:34: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:07:34: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:07:42: 1000000 INFO @ Sun, 06 Aug 2017 00:07:42: 1000000 INFO @ Sun, 06 Aug 2017 00:07:43: 1000000 INFO @ Sun, 06 Aug 2017 00:07:51: 2000000 INFO @ Sun, 06 Aug 2017 00:07:51: 2000000 INFO @ Sun, 06 Aug 2017 00:07:52: 2000000 INFO @ Sun, 06 Aug 2017 00:07:59: 3000000 INFO @ Sun, 06 Aug 2017 00:07:59: 3000000 INFO @ Sun, 06 Aug 2017 00:08:00: 3000000 INFO @ Sun, 06 Aug 2017 00:08:07: 4000000 INFO @ Sun, 06 Aug 2017 00:08:08: 4000000 INFO @ Sun, 06 Aug 2017 00:08:09: 4000000 INFO @ Sun, 06 Aug 2017 00:08:13: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:08:13: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:08:13: #1 total tags in treatment: 4742453 INFO @ Sun, 06 Aug 2017 00:08:13: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:08:13: #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 00:08:13: #1 tags after filtering in treatment: 4742453 INFO @ Sun, 06 Aug 2017 00:08:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:08:13: #1 finished! INFO @ Sun, 06 Aug 2017 00:08:13: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:08:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:08:14: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:08:14: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:08:14: #1 total tags in treatment: 4742453 INFO @ Sun, 06 Aug 2017 00:08:14: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:08:14: #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 00:08:14: #2 number of paired peaks: 1 WARNING @ Sun, 06 Aug 2017 00:08:14: Too few paired peaks (1) 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 00:08:14: Process for pairing-model is terminated! cat: SRX2174509.05_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 `SRX2174509.05_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 `SRX2174509.05_*.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 `SRX2174509.05_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, 06 Aug 2017 00:08:14: #1 tags after filtering in treatment: 4742453 INFO @ Sun, 06 Aug 2017 00:08:14: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:08:14: #1 finished! INFO @ Sun, 06 Aug 2017 00:08:14: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:08:14: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:08:14: #2 number of paired peaks: 1 WARNING @ Sun, 06 Aug 2017 00:08:14: Too few paired peaks (1) 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 00:08:14: Process for pairing-model is terminated! cat: SRX2174509.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2174509.10_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 `SRX2174509.10_*.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 `SRX2174509.10_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, 06 Aug 2017 00:08:15: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:08:15: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:08:15: #1 total tags in treatment: 4742453 INFO @ Sun, 06 Aug 2017 00:08:15: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:08:15: #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 00:08:16: #1 tags after filtering in treatment: 4742453 INFO @ Sun, 06 Aug 2017 00:08:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:08:16: #1 finished! INFO @ Sun, 06 Aug 2017 00:08:16: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:08:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:08:16: #2 number of paired peaks: 1 WARNING @ Sun, 06 Aug 2017 00:08:16: Too few paired peaks (1) 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 00:08:16: Process for pairing-model is terminated! cat: SRX2174509.20_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 `SRX2174509.20_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 `SRX2174509.20_*.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 `SRX2174509.20_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。