Job ID = 9162168 sra ファイルのダウンロード中... Completed: 757792K bytes transferred in 9 seconds (635582K 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 26403561 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738597/SRR3471128.sra Written 26403561 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: 00:04:42 26403561 reads; of these: 26403561 (100.00%) were unpaired; of these: 4664332 (17.67%) aligned 0 times 19193903 (72.69%) aligned exactly 1 time 2545326 (9.64%) aligned >1 times 82.33% overall alignment rate Time searching: 00:04:42 Overall time: 00:04:42 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_sort_core] merging from 12 files... [bam_rmdupse_core] 15062314 / 21739229 = 0.6929 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 06:45:18: # Command line: callpeak -t SRX1738597.bam -f BAM -g 12100000 -n SRX1738597.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738597.20 # format = BAM # ChIP-seq file = ['SRX1738597.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 06:45:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:45:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:45:18: # Command line: callpeak -t SRX1738597.bam -f BAM -g 12100000 -n SRX1738597.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738597.05 # format = BAM # ChIP-seq file = ['SRX1738597.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 06:45:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:45:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:45:18: # Command line: callpeak -t SRX1738597.bam -f BAM -g 12100000 -n SRX1738597.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738597.10 # format = BAM # ChIP-seq file = ['SRX1738597.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 06:45:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:45:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:45:26: 1000000 INFO @ Wed, 28 Jun 2017 06:45:26: 1000000 INFO @ Wed, 28 Jun 2017 06:45:26: 1000000 INFO @ Wed, 28 Jun 2017 06:45:34: 2000000 INFO @ Wed, 28 Jun 2017 06:45:35: 2000000 INFO @ Wed, 28 Jun 2017 06:45:35: 2000000 INFO @ Wed, 28 Jun 2017 06:45:42: 3000000 INFO @ Wed, 28 Jun 2017 06:45:43: 3000000 INFO @ Wed, 28 Jun 2017 06:45:44: 3000000 INFO @ Wed, 28 Jun 2017 06:45:49: 4000000 INFO @ Wed, 28 Jun 2017 06:45:51: 4000000 INFO @ Wed, 28 Jun 2017 06:45:52: 4000000 INFO @ Wed, 28 Jun 2017 06:45:57: 5000000 INFO @ Wed, 28 Jun 2017 06:46:00: 5000000 INFO @ Wed, 28 Jun 2017 06:46:02: 5000000 INFO @ Wed, 28 Jun 2017 06:46:05: 6000000 INFO @ Wed, 28 Jun 2017 06:46:08: 6000000 INFO @ Wed, 28 Jun 2017 06:46:10: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:46:10: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:46:10: #1 total tags in treatment: 6676915 INFO @ Wed, 28 Jun 2017 06:46:10: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:46:10: #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 06:46:10: #1 tags after filtering in treatment: 6676915 INFO @ Wed, 28 Jun 2017 06:46:10: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:46:10: #1 finished! INFO @ Wed, 28 Jun 2017 06:46:10: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:46:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:46:10: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:46:10: Too few paired peaks (0) 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 06:46:10: Process for pairing-model is terminated! cat: SRX1738597.05_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 `SRX1738597.05_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 `SRX1738597.05_*.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 `SRX1738597.05_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 06:46:10: 6000000 INFO @ Wed, 28 Jun 2017 06:46:14: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:46:14: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:46:14: #1 total tags in treatment: 6676915 INFO @ Wed, 28 Jun 2017 06:46:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:46:14: #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 06:46:14: #1 tags after filtering in treatment: 6676915 INFO @ Wed, 28 Jun 2017 06:46:14: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:46:14: #1 finished! INFO @ Wed, 28 Jun 2017 06:46:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:46:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:46:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:46:15: Too few paired peaks (0) 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 06:46:15: Process for pairing-model is terminated! cat: SRX1738597.10_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 `SRX1738597.10_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 `SRX1738597.10_*.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 `SRX1738597.10_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 06:46:16: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:46:16: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:46:16: #1 total tags in treatment: 6676915 INFO @ Wed, 28 Jun 2017 06:46:16: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:46:16: #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 06:46:16: #1 tags after filtering in treatment: 6676915 INFO @ Wed, 28 Jun 2017 06:46:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:46:16: #1 finished! INFO @ Wed, 28 Jun 2017 06:46:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:46:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:46:17: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:46:17: Too few paired peaks (0) 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 06:46:17: Process for pairing-model is terminated! cat: SRX1738597.20_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 `SRX1738597.20_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 `SRX1738597.20_*.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 `SRX1738597.20_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。