Job ID = 9158035 sra ファイルのダウンロード中... Completed: 215642K bytes transferred in 5 seconds (347576K 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 8412245 spots for /home/okishinya/chipatlas/results/dm3/SRX013081/SRR030347.sra Written 8412245 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: 00:01:37 8412245 reads; of these: 8412245 (100.00%) were unpaired; of these: 5205332 (61.88%) aligned 0 times 2883268 (34.27%) aligned exactly 1 time 323645 (3.85%) aligned >1 times 38.12% overall alignment rate Time searching: 00:01:37 Overall time: 00:01:37 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_rmdupse_core] 133874 / 3206913 = 0.0417 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 14:41:05: # Command line: callpeak -t SRX013081.bam -f BAM -g dm -n SRX013081.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX013081.20 # format = BAM # ChIP-seq file = ['SRX013081.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 14:41:05: #1 read tag files... INFO @ Tue, 27 Jun 2017 14:41:05: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 14:41:05: # Command line: callpeak -t SRX013081.bam -f BAM -g dm -n SRX013081.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX013081.05 # format = BAM # ChIP-seq file = ['SRX013081.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 14:41:05: #1 read tag files... INFO @ Tue, 27 Jun 2017 14:41:05: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 14:41:05: # Command line: callpeak -t SRX013081.bam -f BAM -g dm -n SRX013081.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX013081.10 # format = BAM # ChIP-seq file = ['SRX013081.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 14:41:05: #1 read tag files... INFO @ Tue, 27 Jun 2017 14:41:05: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 14:41:11: 1000000 INFO @ Tue, 27 Jun 2017 14:41:11: 1000000 INFO @ Tue, 27 Jun 2017 14:41:12: 1000000 INFO @ Tue, 27 Jun 2017 14:41:18: 2000000 INFO @ Tue, 27 Jun 2017 14:41:18: 2000000 INFO @ Tue, 27 Jun 2017 14:41:19: 2000000 INFO @ Tue, 27 Jun 2017 14:41:25: 3000000 INFO @ Tue, 27 Jun 2017 14:41:25: 3000000 INFO @ Tue, 27 Jun 2017 14:41:25: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 14:41:25: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 14:41:25: #1 total tags in treatment: 3073039 INFO @ Tue, 27 Jun 2017 14:41:25: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 14:41:25: #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 14:41:25: #1 tags after filtering in treatment: 3073039 INFO @ Tue, 27 Jun 2017 14:41:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 14:41:25: #1 finished! INFO @ Tue, 27 Jun 2017 14:41:25: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 14:41:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 14:41:25: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 14:41:25: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 14:41:25: #1 total tags in treatment: 3073039 INFO @ Tue, 27 Jun 2017 14:41:25: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 14:41:25: #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 14:41:25: #1 tags after filtering in treatment: 3073039 INFO @ Tue, 27 Jun 2017 14:41:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 14:41:25: #1 finished! INFO @ Tue, 27 Jun 2017 14:41:25: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 14:41:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 14:41:26: #2 number of paired peaks: 79 WARNING @ Tue, 27 Jun 2017 14:41:26: Too few paired peaks (79) 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 14:41:26: Process for pairing-model is terminated! cat: SRX013081.10_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) INFO @ Tue, 27 Jun 2017 14:41:26: #2 number of paired peaks: 79 WARNING @ Tue, 27 Jun 2017 14:41:26: Too few paired peaks (79) 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 14:41:26: Process for pairing-model is terminated! rm: cannot remove `SRX013081.10_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 `SRX013081.10_*.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 `SRX013081.10_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 cat: SRX013081.05_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 `SRX013081.05_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 `SRX013081.05_*.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 `SRX013081.05_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 14:41:26: 3000000 INFO @ Tue, 27 Jun 2017 14:41:26: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 14:41:26: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 14:41:26: #1 total tags in treatment: 3073039 INFO @ Tue, 27 Jun 2017 14:41:26: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 14:41:26: #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 14:41:26: #1 tags after filtering in treatment: 3073039 INFO @ Tue, 27 Jun 2017 14:41:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 14:41:26: #1 finished! INFO @ Tue, 27 Jun 2017 14:41:26: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 14:41:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 14:41:27: #2 number of paired peaks: 79 WARNING @ Tue, 27 Jun 2017 14:41:27: Too few paired peaks (79) 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 14:41:27: Process for pairing-model is terminated! cat: SRX013081.20_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 `SRX013081.20_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 `SRX013081.20_*.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 `SRX013081.20_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。