Job ID = 9163633 sra ファイルのダウンロード中... Completed: 592940K bytes transferred in 9 seconds (533549K 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 9515560 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974681/SRR1948320.sra Written 9515560 spots total Written 9699734 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974681/SRR1948321.sra Written 9699734 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: 00:03:29 19215294 reads; of these: 19215294 (100.00%) were unpaired; of these: 733614 (3.82%) aligned 0 times 15197121 (79.09%) aligned exactly 1 time 3284559 (17.09%) aligned >1 times 96.18% overall alignment rate Time searching: 00:03:29 Overall time: 00:03:29 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] 7259268 / 18481680 = 0.3928 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 11:17:23: # Command line: callpeak -t SRX974681.bam -f BAM -g 12100000 -n SRX974681.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX974681.05 # format = BAM # ChIP-seq file = ['SRX974681.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 11:17:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:17:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:23: # Command line: callpeak -t SRX974681.bam -f BAM -g 12100000 -n SRX974681.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX974681.10 # format = BAM # ChIP-seq file = ['SRX974681.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 11:17:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:17:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:23: # Command line: callpeak -t SRX974681.bam -f BAM -g 12100000 -n SRX974681.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX974681.20 # format = BAM # ChIP-seq file = ['SRX974681.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 11:17:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:17:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:30: 1000000 INFO @ Wed, 28 Jun 2017 11:17:30: 1000000 INFO @ Wed, 28 Jun 2017 11:17:30: 1000000 INFO @ Wed, 28 Jun 2017 11:17:36: 2000000 INFO @ Wed, 28 Jun 2017 11:17:37: 2000000 INFO @ Wed, 28 Jun 2017 11:17:37: 2000000 INFO @ Wed, 28 Jun 2017 11:17:43: 3000000 INFO @ Wed, 28 Jun 2017 11:17:43: 3000000 INFO @ Wed, 28 Jun 2017 11:17:43: 3000000 INFO @ Wed, 28 Jun 2017 11:17:50: 4000000 INFO @ Wed, 28 Jun 2017 11:17:50: 4000000 INFO @ Wed, 28 Jun 2017 11:17:50: 4000000 INFO @ Wed, 28 Jun 2017 11:17:56: 5000000 INFO @ Wed, 28 Jun 2017 11:17:57: 5000000 INFO @ Wed, 28 Jun 2017 11:17:57: 5000000 INFO @ Wed, 28 Jun 2017 11:18:03: 6000000 INFO @ Wed, 28 Jun 2017 11:18:04: 6000000 INFO @ Wed, 28 Jun 2017 11:18:04: 6000000 INFO @ Wed, 28 Jun 2017 11:18:10: 7000000 INFO @ Wed, 28 Jun 2017 11:18:11: 7000000 INFO @ Wed, 28 Jun 2017 11:18:11: 7000000 INFO @ Wed, 28 Jun 2017 11:18:17: 8000000 INFO @ Wed, 28 Jun 2017 11:18:17: 8000000 INFO @ Wed, 28 Jun 2017 11:18:18: 8000000 INFO @ Wed, 28 Jun 2017 11:18:24: 9000000 INFO @ Wed, 28 Jun 2017 11:18:24: 9000000 INFO @ Wed, 28 Jun 2017 11:18:25: 9000000 INFO @ Wed, 28 Jun 2017 11:18:30: 10000000 INFO @ Wed, 28 Jun 2017 11:18:31: 10000000 INFO @ Wed, 28 Jun 2017 11:18:32: 10000000 INFO @ Wed, 28 Jun 2017 11:18:37: 11000000 INFO @ Wed, 28 Jun 2017 11:18:37: 11000000 INFO @ Wed, 28 Jun 2017 11:18:39: 11000000 INFO @ Wed, 28 Jun 2017 11:18:39: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:39: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:39: #1 total tags in treatment: 11222412 INFO @ Wed, 28 Jun 2017 11:18:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:39: #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 11:18:39: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:39: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:39: #1 total tags in treatment: 11222412 INFO @ Wed, 28 Jun 2017 11:18:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:39: #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 11:18:39: #1 tags after filtering in treatment: 11222412 INFO @ Wed, 28 Jun 2017 11:18:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:39: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:39: #1 tags after filtering in treatment: 11222412 INFO @ Wed, 28 Jun 2017 11:18:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:39: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:40: 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 11:18:40: Process for pairing-model is terminated! cat: SRX974681.10_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 `SRX974681.10_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 `SRX974681.10_*.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 `SRX974681.10_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 11:18:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:40: 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 11:18:40: Process for pairing-model is terminated! cat: SRX974681.20_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 `SRX974681.20_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 `SRX974681.20_*.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 `SRX974681.20_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 11:18:40: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:40: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:40: #1 total tags in treatment: 11222412 INFO @ Wed, 28 Jun 2017 11:18:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:40: #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 11:18:40: #1 tags after filtering in treatment: 11222412 INFO @ Wed, 28 Jun 2017 11:18:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:40: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:41: 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 11:18:41: Process for pairing-model is terminated! cat: SRX974681.05_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 `SRX974681.05_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 `SRX974681.05_*.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 `SRX974681.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。