Job ID = 9163370 sra ファイルのダウンロード中... Completed: 164860K bytes transferred in 4 seconds (271720K 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 6729315 spots for /home/okishinya/chipatlas/results/sacCer3/SRX717443/SRR1593138.sra Written 6729315 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: 00:01:18 6729315 reads; of these: 6729315 (100.00%) were unpaired; of these: 354304 (5.27%) aligned 0 times 5547669 (82.44%) aligned exactly 1 time 827342 (12.29%) aligned >1 times 94.73% overall alignment rate Time searching: 00:01:18 Overall time: 00:01:18 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] 2887464 / 6375011 = 0.4529 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 10:39:16: # Command line: callpeak -t SRX717443.bam -f BAM -g 12100000 -n SRX717443.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX717443.05 # format = BAM # ChIP-seq file = ['SRX717443.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 10:39:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:39:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:39:16: # Command line: callpeak -t SRX717443.bam -f BAM -g 12100000 -n SRX717443.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX717443.10 # format = BAM # ChIP-seq file = ['SRX717443.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 10:39:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:39:16: # Command line: callpeak -t SRX717443.bam -f BAM -g 12100000 -n SRX717443.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX717443.20 # format = BAM # ChIP-seq file = ['SRX717443.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 10:39:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:39:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:39:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:39:22: 1000000 INFO @ Wed, 28 Jun 2017 10:39:22: 1000000 INFO @ Wed, 28 Jun 2017 10:39:22: 1000000 INFO @ Wed, 28 Jun 2017 10:39:28: 2000000 INFO @ Wed, 28 Jun 2017 10:39:28: 2000000 INFO @ Wed, 28 Jun 2017 10:39:29: 2000000 INFO @ Wed, 28 Jun 2017 10:39:34: 3000000 INFO @ Wed, 28 Jun 2017 10:39:34: 3000000 INFO @ Wed, 28 Jun 2017 10:39:36: 3000000 INFO @ Wed, 28 Jun 2017 10:39:37: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:39:37: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:39:37: #1 total tags in treatment: 3487547 INFO @ Wed, 28 Jun 2017 10:39:37: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:39:37: #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 10:39:37: #1 tags after filtering in treatment: 3487547 INFO @ Wed, 28 Jun 2017 10:39:37: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:39:37: #1 finished! INFO @ Wed, 28 Jun 2017 10:39:37: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:39:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:39:37: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:39:37: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:39:37: #1 total tags in treatment: 3487547 INFO @ Wed, 28 Jun 2017 10:39:37: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:39:37: #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 10:39:37: #1 tags after filtering in treatment: 3487547 INFO @ Wed, 28 Jun 2017 10:39:37: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:39:37: #1 finished! INFO @ Wed, 28 Jun 2017 10:39:37: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:39:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:39:38: #2 number of paired peaks: 9 WARNING @ Wed, 28 Jun 2017 10:39:38: Too few paired peaks (9) 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 10:39:38: Process for pairing-model is terminated! cat: SRX717443.05_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 `SRX717443.05_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 `SRX717443.05_*.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 `SRX717443.05_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 10:39:38: #2 number of paired peaks: 9 WARNING @ Wed, 28 Jun 2017 10:39:38: Too few paired peaks (9) 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 10:39:38: Process for pairing-model is terminated! cat: SRX717443.10_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 `SRX717443.10_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 `SRX717443.10_*.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 `SRX717443.10_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 @ Wed, 28 Jun 2017 10:39:39: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:39:39: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:39:39: #1 total tags in treatment: 3487547 INFO @ Wed, 28 Jun 2017 10:39:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:39:39: #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 10:39:39: #1 tags after filtering in treatment: 3487547 INFO @ Wed, 28 Jun 2017 10:39:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:39:39: #1 finished! INFO @ Wed, 28 Jun 2017 10:39:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:39:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:39:39: #2 number of paired peaks: 9 WARNING @ Wed, 28 Jun 2017 10:39:39: Too few paired peaks (9) 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 10:39:39: Process for pairing-model is terminated! cat: SRX717443.20_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 `SRX717443.20_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 `SRX717443.20_*.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 `SRX717443.20_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。