Job ID = 9162231 sra ファイルのダウンロード中... Completed: 283785K bytes transferred in 5 seconds (406371K 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 13727386 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738705/SRR3471236.sra Written 13727386 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: 00:02:31 13727386 reads; of these: 13727386 (100.00%) were unpaired; of these: 327332 (2.38%) aligned 0 times 12031801 (87.65%) aligned exactly 1 time 1368253 (9.97%) aligned >1 times 97.62% overall alignment rate Time searching: 00:02:31 Overall time: 00:02:31 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] 3855355 / 13400054 = 0.2877 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 06:58:38: # Command line: callpeak -t SRX1738705.bam -f BAM -g 12100000 -n SRX1738705.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738705.20 # format = BAM # ChIP-seq file = ['SRX1738705.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 06:58:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:58:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:58:38: # Command line: callpeak -t SRX1738705.bam -f BAM -g 12100000 -n SRX1738705.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738705.10 # format = BAM # ChIP-seq file = ['SRX1738705.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 06:58:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:58:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:58:38: # Command line: callpeak -t SRX1738705.bam -f BAM -g 12100000 -n SRX1738705.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738705.05 # format = BAM # ChIP-seq file = ['SRX1738705.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 06:58:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:58:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:58:44: 1000000 INFO @ Wed, 28 Jun 2017 06:58:44: 1000000 INFO @ Wed, 28 Jun 2017 06:58:44: 1000000 INFO @ Wed, 28 Jun 2017 06:58:50: 2000000 INFO @ Wed, 28 Jun 2017 06:58:50: 2000000 INFO @ Wed, 28 Jun 2017 06:58:50: 2000000 INFO @ Wed, 28 Jun 2017 06:58:55: 3000000 INFO @ Wed, 28 Jun 2017 06:58:56: 3000000 INFO @ Wed, 28 Jun 2017 06:58:56: 3000000 INFO @ Wed, 28 Jun 2017 06:59:01: 4000000 INFO @ Wed, 28 Jun 2017 06:59:01: 4000000 INFO @ Wed, 28 Jun 2017 06:59:02: 4000000 INFO @ Wed, 28 Jun 2017 06:59:07: 5000000 INFO @ Wed, 28 Jun 2017 06:59:07: 5000000 INFO @ Wed, 28 Jun 2017 06:59:08: 5000000 INFO @ Wed, 28 Jun 2017 06:59:12: 6000000 INFO @ Wed, 28 Jun 2017 06:59:13: 6000000 INFO @ Wed, 28 Jun 2017 06:59:14: 6000000 INFO @ Wed, 28 Jun 2017 06:59:19: 7000000 INFO @ Wed, 28 Jun 2017 06:59:20: 7000000 INFO @ Wed, 28 Jun 2017 06:59:20: 7000000 INFO @ Wed, 28 Jun 2017 06:59:25: 8000000 INFO @ Wed, 28 Jun 2017 06:59:26: 8000000 INFO @ Wed, 28 Jun 2017 06:59:26: 8000000 INFO @ Wed, 28 Jun 2017 06:59:30: 9000000 INFO @ Wed, 28 Jun 2017 06:59:32: 9000000 INFO @ Wed, 28 Jun 2017 06:59:32: 9000000 INFO @ Wed, 28 Jun 2017 06:59:34: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:59:34: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:59:34: #1 total tags in treatment: 9544699 INFO @ Wed, 28 Jun 2017 06:59:34: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:59:34: #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 06:59:34: #1 tags after filtering in treatment: 9544699 INFO @ Wed, 28 Jun 2017 06:59:34: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:59:34: #1 finished! INFO @ Wed, 28 Jun 2017 06:59:34: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:59:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:59:35: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:59:35: 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 06:59:35: Process for pairing-model is terminated! cat: SRX1738705.20_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 `SRX1738705.20_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 `SRX1738705.20_*.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 `SRX1738705.20_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 06:59:36: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:59:36: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:59:36: #1 total tags in treatment: 9544699 INFO @ Wed, 28 Jun 2017 06:59:36: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:59:36: #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 06:59:36: #1 tags after filtering in treatment: 9544699 INFO @ Wed, 28 Jun 2017 06:59:36: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:59:36: #1 finished! INFO @ Wed, 28 Jun 2017 06:59:36: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:59:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:59:36: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:59:36: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:59:36: #1 total tags in treatment: 9544699 INFO @ Wed, 28 Jun 2017 06:59:36: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:59:36: #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 06:59:36: #1 tags after filtering in treatment: 9544699 INFO @ Wed, 28 Jun 2017 06:59:36: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:59:36: #1 finished! INFO @ Wed, 28 Jun 2017 06:59:36: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:59:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:59:36: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:59:36: 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 06:59:36: Process for pairing-model is terminated! cat: SRX1738705.05_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 `SRX1738705.05_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 `SRX1738705.05_*.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 `SRX1738705.05_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 06:59:37: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:59:37: 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 06:59:37: Process for pairing-model is terminated! cat: SRX1738705.10_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 `SRX1738705.10_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 `SRX1738705.10_*.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 `SRX1738705.10_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。