Job ID = 9163631 sra ファイルのダウンロード中... Completed: 523191K bytes transferred in 8 seconds (514075K 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 8389824 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974680/SRR1948318.sra Written 8389824 spots total Written 8568263 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974680/SRR1948319.sra Written 8568263 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: 00:03:16 16958087 reads; of these: 16958087 (100.00%) were unpaired; of these: 381847 (2.25%) aligned 0 times 13751290 (81.09%) aligned exactly 1 time 2824950 (16.66%) aligned >1 times 97.75% overall alignment rate Time searching: 00:03:16 Overall time: 00:03:16 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_sort_core] merging from 8 files... [bam_rmdupse_core] 7676880 / 16576240 = 0.4631 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 11:16:34: # Command line: callpeak -t SRX974680.bam -f BAM -g 12100000 -n SRX974680.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX974680.10 # format = BAM # ChIP-seq file = ['SRX974680.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 11:16:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:34: # Command line: callpeak -t SRX974680.bam -f BAM -g 12100000 -n SRX974680.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX974680.05 # format = BAM # ChIP-seq file = ['SRX974680.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 11:16:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:34: # Command line: callpeak -t SRX974680.bam -f BAM -g 12100000 -n SRX974680.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX974680.20 # format = BAM # ChIP-seq file = ['SRX974680.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 11:16:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:41: 1000000 INFO @ Wed, 28 Jun 2017 11:16:41: 1000000 INFO @ Wed, 28 Jun 2017 11:16:41: 1000000 INFO @ Wed, 28 Jun 2017 11:16:47: 2000000 INFO @ Wed, 28 Jun 2017 11:16:47: 2000000 INFO @ Wed, 28 Jun 2017 11:16:47: 2000000 INFO @ Wed, 28 Jun 2017 11:16:53: 3000000 INFO @ Wed, 28 Jun 2017 11:16:54: 3000000 INFO @ Wed, 28 Jun 2017 11:16:54: 3000000 INFO @ Wed, 28 Jun 2017 11:17:00: 4000000 INFO @ Wed, 28 Jun 2017 11:17:00: 4000000 INFO @ Wed, 28 Jun 2017 11:17:00: 4000000 INFO @ Wed, 28 Jun 2017 11:17:06: 5000000 INFO @ Wed, 28 Jun 2017 11:17:07: 5000000 INFO @ Wed, 28 Jun 2017 11:17:07: 5000000 INFO @ Wed, 28 Jun 2017 11:17:13: 6000000 INFO @ Wed, 28 Jun 2017 11:17:14: 6000000 INFO @ Wed, 28 Jun 2017 11:17:14: 6000000 INFO @ Wed, 28 Jun 2017 11:17:19: 7000000 INFO @ Wed, 28 Jun 2017 11:17:21: 7000000 INFO @ Wed, 28 Jun 2017 11:17:21: 7000000 INFO @ Wed, 28 Jun 2017 11:17:25: 8000000 INFO @ Wed, 28 Jun 2017 11:17:28: 8000000 INFO @ Wed, 28 Jun 2017 11:17:28: 8000000 INFO @ Wed, 28 Jun 2017 11:17:31: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:17:31: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:17:31: #1 total tags in treatment: 8899360 INFO @ Wed, 28 Jun 2017 11:17:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:17:31: #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 11:17:31: #1 tags after filtering in treatment: 8899360 INFO @ Wed, 28 Jun 2017 11:17:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:17:31: #1 finished! INFO @ Wed, 28 Jun 2017 11:17:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:17:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:17:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:17:31: 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 11:17:31: Process for pairing-model is terminated! cat: SRX974680.05_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 `SRX974680.05_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 `SRX974680.05_*.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 `SRX974680.05_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 11:17:34: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:17:34: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:17:34: #1 total tags in treatment: 8899360 INFO @ Wed, 28 Jun 2017 11:17:34: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:17:34: #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 11:17:35: #1 tags after filtering in treatment: 8899360 INFO @ Wed, 28 Jun 2017 11:17:35: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:17:35: #1 finished! INFO @ Wed, 28 Jun 2017 11:17:35: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:17:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:17:35: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:17:35: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:17:35: #1 total tags in treatment: 8899360 INFO @ Wed, 28 Jun 2017 11:17:35: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:17:35: #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 11:17:35: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:17:35: 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 11:17:35: Process for pairing-model is terminated! cat: SRX974680.20_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 `SRX974680.20_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 `SRX974680.20_*.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 `SRX974680.20_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 INFO @ Wed, 28 Jun 2017 11:17:35: #1 tags after filtering in treatment: 8899360 INFO @ Wed, 28 Jun 2017 11:17:35: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:17:35: #1 finished! INFO @ Wed, 28 Jun 2017 11:17:35: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:17:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:17:36: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:17:36: 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 11:17:36: Process for pairing-model is terminated! cat: SRX974680.10_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 `SRX974680.10_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 `SRX974680.10_*.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 `SRX974680.10_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。