Job ID = 9162265 sra ファイルのダウンロード中... Completed: 989439K bytes transferred in 8 seconds (927857K 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 29617530 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1791131/SRR3568003.sra Written 29617530 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: 00:06:47 29617530 reads; of these: 29617530 (100.00%) were unpaired; of these: 3811827 (12.87%) aligned 0 times 20312084 (68.58%) aligned exactly 1 time 5493619 (18.55%) aligned >1 times 87.13% overall alignment rate Time searching: 00:06:47 Overall time: 00:06:47 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] 13555884 / 25805703 = 0.5253 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 07:19:48: # Command line: callpeak -t SRX1791131.bam -f BAM -g 12100000 -n SRX1791131.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1791131.10 # format = BAM # ChIP-seq file = ['SRX1791131.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 07:19:48: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:19:48: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:19:48: # Command line: callpeak -t SRX1791131.bam -f BAM -g 12100000 -n SRX1791131.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1791131.05 # format = BAM # ChIP-seq file = ['SRX1791131.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 07:19:48: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:19:48: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:19:48: # Command line: callpeak -t SRX1791131.bam -f BAM -g 12100000 -n SRX1791131.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1791131.20 # format = BAM # ChIP-seq file = ['SRX1791131.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 07:19:48: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:19:48: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:19:55: 1000000 INFO @ Wed, 28 Jun 2017 07:19:56: 1000000 INFO @ Wed, 28 Jun 2017 07:19:56: 1000000 INFO @ Wed, 28 Jun 2017 07:20:02: 2000000 INFO @ Wed, 28 Jun 2017 07:20:03: 2000000 INFO @ Wed, 28 Jun 2017 07:20:03: 2000000 INFO @ Wed, 28 Jun 2017 07:20:09: 3000000 INFO @ Wed, 28 Jun 2017 07:20:11: 3000000 INFO @ Wed, 28 Jun 2017 07:20:11: 3000000 INFO @ Wed, 28 Jun 2017 07:20:16: 4000000 INFO @ Wed, 28 Jun 2017 07:20:18: 4000000 INFO @ Wed, 28 Jun 2017 07:20:19: 4000000 INFO @ Wed, 28 Jun 2017 07:20:23: 5000000 INFO @ Wed, 28 Jun 2017 07:20:26: 5000000 INFO @ Wed, 28 Jun 2017 07:20:27: 5000000 INFO @ Wed, 28 Jun 2017 07:20:30: 6000000 INFO @ Wed, 28 Jun 2017 07:20:34: 6000000 INFO @ Wed, 28 Jun 2017 07:20:35: 6000000 INFO @ Wed, 28 Jun 2017 07:20:36: 7000000 INFO @ Wed, 28 Jun 2017 07:20:42: 7000000 INFO @ Wed, 28 Jun 2017 07:20:42: 7000000 INFO @ Wed, 28 Jun 2017 07:20:43: 8000000 INFO @ Wed, 28 Jun 2017 07:20:49: 8000000 INFO @ Wed, 28 Jun 2017 07:20:50: 9000000 INFO @ Wed, 28 Jun 2017 07:20:50: 8000000 INFO @ Wed, 28 Jun 2017 07:20:57: 10000000 INFO @ Wed, 28 Jun 2017 07:20:57: 9000000 INFO @ Wed, 28 Jun 2017 07:20:58: 9000000 INFO @ Wed, 28 Jun 2017 07:21:04: 11000000 INFO @ Wed, 28 Jun 2017 07:21:04: 10000000 INFO @ Wed, 28 Jun 2017 07:21:07: 10000000 INFO @ Wed, 28 Jun 2017 07:21:11: 11000000 INFO @ Wed, 28 Jun 2017 07:21:12: 12000000 INFO @ Wed, 28 Jun 2017 07:21:14: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:21:14: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:21:14: #1 total tags in treatment: 12249819 INFO @ Wed, 28 Jun 2017 07:21:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:21:14: #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 07:21:14: #1 tags after filtering in treatment: 12249819 INFO @ Wed, 28 Jun 2017 07:21:14: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:21:14: #1 finished! INFO @ Wed, 28 Jun 2017 07:21:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:21:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:21:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:21:15: 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 07:21:15: Process for pairing-model is terminated! cat: SRX1791131.10_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 `SRX1791131.10_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 `SRX1791131.10_*.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 `SRX1791131.10_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 07:21:15: 11000000 INFO @ Wed, 28 Jun 2017 07:21:19: 12000000 INFO @ Wed, 28 Jun 2017 07:21:21: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:21:21: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:21:21: #1 total tags in treatment: 12249819 INFO @ Wed, 28 Jun 2017 07:21:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:21:21: #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 07:21:21: #1 tags after filtering in treatment: 12249819 INFO @ Wed, 28 Jun 2017 07:21:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:21:21: #1 finished! INFO @ Wed, 28 Jun 2017 07:21:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:21:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:21:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:21:22: 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 07:21:22: Process for pairing-model is terminated! cat: SRX1791131.05_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 `SRX1791131.05_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 `SRX1791131.05_*.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 `SRX1791131.05_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 07:21:22: 12000000 INFO @ Wed, 28 Jun 2017 07:21:24: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:21:24: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:21:24: #1 total tags in treatment: 12249819 INFO @ Wed, 28 Jun 2017 07:21:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:21:24: #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 07:21:24: #1 tags after filtering in treatment: 12249819 INFO @ Wed, 28 Jun 2017 07:21:24: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:21:24: #1 finished! INFO @ Wed, 28 Jun 2017 07:21:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:21:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:21:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:21:25: 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 07:21:25: Process for pairing-model is terminated! cat: SRX1791131.20_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 `SRX1791131.20_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 `SRX1791131.20_*.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 `SRX1791131.20_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。