Job ID = 9161709 sra ファイルのダウンロード中... Completed: 149315K bytes transferred in 4 seconds (256716K bits/sec), in 2 files, 3 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 3875253 spots for /home/okishinya/chipatlas/results/sacCer3/SRX092434/SRR332228.sra Written 3875253 spots total Written 4613537 spots for /home/okishinya/chipatlas/results/sacCer3/SRX092434/SRR332227.sra Written 4613537 spots total 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: 00:00:58 8488790 reads; of these: 8488790 (100.00%) were unpaired; of these: 751852 (8.86%) aligned 0 times 5426871 (63.93%) aligned exactly 1 time 2310067 (27.21%) aligned >1 times 91.14% overall alignment rate Time searching: 00:00:58 Overall time: 00:00:58 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] 3289839 / 7736938 = 0.4252 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 04:24:07: # Command line: callpeak -t SRX092434.bam -f BAM -g 12100000 -n SRX092434.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX092434.05 # format = BAM # ChIP-seq file = ['SRX092434.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 04:24:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:24:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:24:07: # Command line: callpeak -t SRX092434.bam -f BAM -g 12100000 -n SRX092434.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX092434.20 # format = BAM # ChIP-seq file = ['SRX092434.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 04:24:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:24:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:24:07: # Command line: callpeak -t SRX092434.bam -f BAM -g 12100000 -n SRX092434.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX092434.10 # format = BAM # ChIP-seq file = ['SRX092434.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 04:24:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:24:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:24:14: 1000000 INFO @ Wed, 28 Jun 2017 04:24:14: 1000000 INFO @ Wed, 28 Jun 2017 04:24:14: 1000000 INFO @ Wed, 28 Jun 2017 04:24:22: 2000000 INFO @ Wed, 28 Jun 2017 04:24:22: 2000000 INFO @ Wed, 28 Jun 2017 04:24:22: 2000000 INFO @ Wed, 28 Jun 2017 04:24:29: 3000000 INFO @ Wed, 28 Jun 2017 04:24:30: 3000000 INFO @ Wed, 28 Jun 2017 04:24:30: 3000000 INFO @ Wed, 28 Jun 2017 04:24:37: 4000000 INFO @ Wed, 28 Jun 2017 04:24:37: 4000000 INFO @ Wed, 28 Jun 2017 04:24:38: 4000000 INFO @ Wed, 28 Jun 2017 04:24:40: #1 tag size is determined as 32 bps INFO @ Wed, 28 Jun 2017 04:24:40: #1 tag size = 32 INFO @ Wed, 28 Jun 2017 04:24:40: #1 total tags in treatment: 4447099 INFO @ Wed, 28 Jun 2017 04:24:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:24:40: #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 04:24:40: #1 tags after filtering in treatment: 4447099 INFO @ Wed, 28 Jun 2017 04:24:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:24:40: #1 finished! INFO @ Wed, 28 Jun 2017 04:24:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:24:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:24:40: #2 number of paired peaks: 27 WARNING @ Wed, 28 Jun 2017 04:24:40: Too few paired peaks (27) 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 04:24:40: Process for pairing-model is terminated! cat: SRX092434.05_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 `SRX092434.05_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 `SRX092434.05_*.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 `SRX092434.05_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 04:24:41: #1 tag size is determined as 32 bps INFO @ Wed, 28 Jun 2017 04:24:41: #1 tag size = 32 INFO @ Wed, 28 Jun 2017 04:24:41: #1 total tags in treatment: 4447099 INFO @ Wed, 28 Jun 2017 04:24:41: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:24:41: #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 04:24:41: #1 tag size is determined as 32 bps INFO @ Wed, 28 Jun 2017 04:24:41: #1 tag size = 32 INFO @ Wed, 28 Jun 2017 04:24:41: #1 total tags in treatment: 4447099 INFO @ Wed, 28 Jun 2017 04:24:41: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:24:41: #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 04:24:41: #1 tags after filtering in treatment: 4447099 INFO @ Wed, 28 Jun 2017 04:24:41: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:24:41: #1 finished! INFO @ Wed, 28 Jun 2017 04:24:41: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:24:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:24:41: #1 tags after filtering in treatment: 4447099 INFO @ Wed, 28 Jun 2017 04:24:41: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:24:41: #1 finished! INFO @ Wed, 28 Jun 2017 04:24:41: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:24:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:24:41: #2 number of paired peaks: 27 WARNING @ Wed, 28 Jun 2017 04:24:41: Too few paired peaks (27) 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 04:24:41: Process for pairing-model is terminated! cat: SRX092434.20_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 `SRX092434.20_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 `SRX092434.20_*.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 `SRX092434.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 04:24:41: #2 number of paired peaks: 27 WARNING @ Wed, 28 Jun 2017 04:24:41: Too few paired peaks (27) 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. CompletedMACS2peakCalling WARNING @ Wed, 28 Jun 2017 04:24:41: Process for pairing-model is terminated! cat: SRX092434.10_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 `SRX092434.10_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 `SRX092434.10_*.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 `SRX092434.10_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。