Job ID = 9383999 sra ファイルのダウンロード中... Completed: 242181K bytes transferred in 49 seconds (39780K 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 8263667 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2174489/SRR4254717.sra Written 8263667 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: 00:01:43 8263667 reads; of these: 8263667 (100.00%) were unpaired; of these: 898887 (10.88%) aligned 0 times 6533101 (79.06%) aligned exactly 1 time 831679 (10.06%) aligned >1 times 89.12% overall alignment rate Time searching: 00:01:43 Overall time: 00:01:43 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_rmdupse_core] 3348421 / 7364780 = 0.4547 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 @ Sat, 05 Aug 2017 23:32:20: # Command line: callpeak -t SRX2174489.bam -f BAM -g 12100000 -n SRX2174489.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2174489.10 # format = BAM # ChIP-seq file = ['SRX2174489.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 @ Sat, 05 Aug 2017 23:32:20: #1 read tag files... INFO @ Sat, 05 Aug 2017 23:32:20: #1 read treatment tags... INFO @ Sat, 05 Aug 2017 23:32:20: # Command line: callpeak -t SRX2174489.bam -f BAM -g 12100000 -n SRX2174489.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2174489.20 # format = BAM # ChIP-seq file = ['SRX2174489.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 @ Sat, 05 Aug 2017 23:32:20: #1 read tag files... INFO @ Sat, 05 Aug 2017 23:32:20: #1 read treatment tags... INFO @ Sat, 05 Aug 2017 23:32:20: # Command line: callpeak -t SRX2174489.bam -f BAM -g 12100000 -n SRX2174489.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2174489.05 # format = BAM # ChIP-seq file = ['SRX2174489.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 @ Sat, 05 Aug 2017 23:32:20: #1 read tag files... INFO @ Sat, 05 Aug 2017 23:32:20: #1 read treatment tags... INFO @ Sat, 05 Aug 2017 23:32:28: 1000000 INFO @ Sat, 05 Aug 2017 23:32:28: 1000000 INFO @ Sat, 05 Aug 2017 23:32:28: 1000000 INFO @ Sat, 05 Aug 2017 23:32:35: 2000000 INFO @ Sat, 05 Aug 2017 23:32:35: 2000000 INFO @ Sat, 05 Aug 2017 23:32:35: 2000000 INFO @ Sat, 05 Aug 2017 23:32:42: 3000000 INFO @ Sat, 05 Aug 2017 23:32:42: 3000000 INFO @ Sat, 05 Aug 2017 23:32:42: 3000000 INFO @ Sat, 05 Aug 2017 23:32:49: 4000000 INFO @ Sat, 05 Aug 2017 23:32:49: #1 tag size is determined as 51 bps INFO @ Sat, 05 Aug 2017 23:32:49: #1 tag size = 51 INFO @ Sat, 05 Aug 2017 23:32:49: #1 total tags in treatment: 4016359 INFO @ Sat, 05 Aug 2017 23:32:49: #1 user defined the maximum tags... INFO @ Sat, 05 Aug 2017 23:32:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 05 Aug 2017 23:32:49: #1 tags after filtering in treatment: 4016359 INFO @ Sat, 05 Aug 2017 23:32:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 05 Aug 2017 23:32:49: #1 finished! INFO @ Sat, 05 Aug 2017 23:32:49: #2 Build Peak Model... INFO @ Sat, 05 Aug 2017 23:32:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 05 Aug 2017 23:32:49: #2 number of paired peaks: 90 WARNING @ Sat, 05 Aug 2017 23:32:49: Too few paired peaks (90) 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 @ Sat, 05 Aug 2017 23:32:49: Process for pairing-model is terminated! cat: SRX2174489.10_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 `SRX2174489.10_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 `SRX2174489.10_*.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 `SRX2174489.10_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 @ Sat, 05 Aug 2017 23:32:50: 4000000 INFO @ Sat, 05 Aug 2017 23:32:50: 4000000 INFO @ Sat, 05 Aug 2017 23:32:50: #1 tag size is determined as 51 bps INFO @ Sat, 05 Aug 2017 23:32:50: #1 tag size = 51 INFO @ Sat, 05 Aug 2017 23:32:50: #1 total tags in treatment: 4016359 INFO @ Sat, 05 Aug 2017 23:32:50: #1 user defined the maximum tags... INFO @ Sat, 05 Aug 2017 23:32:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 05 Aug 2017 23:32:50: #1 tag size is determined as 51 bps INFO @ Sat, 05 Aug 2017 23:32:50: #1 tag size = 51 INFO @ Sat, 05 Aug 2017 23:32:50: #1 total tags in treatment: 4016359 INFO @ Sat, 05 Aug 2017 23:32:50: #1 user defined the maximum tags... INFO @ Sat, 05 Aug 2017 23:32:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 05 Aug 2017 23:32:50: #1 tags after filtering in treatment: 4016359 INFO @ Sat, 05 Aug 2017 23:32:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 05 Aug 2017 23:32:50: #1 finished! INFO @ Sat, 05 Aug 2017 23:32:50: #2 Build Peak Model... INFO @ Sat, 05 Aug 2017 23:32:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 05 Aug 2017 23:32:50: #1 tags after filtering in treatment: 4016359 INFO @ Sat, 05 Aug 2017 23:32:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 05 Aug 2017 23:32:50: #1 finished! INFO @ Sat, 05 Aug 2017 23:32:50: #2 Build Peak Model... INFO @ Sat, 05 Aug 2017 23:32:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 05 Aug 2017 23:32:50: #2 number of paired peaks: 90 WARNING @ Sat, 05 Aug 2017 23:32:50: Too few paired peaks (90) 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 @ Sat, 05 Aug 2017 23:32:50: Process for pairing-model is terminated! INFO @ Sat, 05 Aug 2017 23:32:50: #2 number of paired peaks: 90 WARNING @ Sat, 05 Aug 2017 23:32:50: Too few paired peaks (90) 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 @ Sat, 05 Aug 2017 23:32:50: Process for pairing-model is terminated! cat: SRX2174489.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2174489.20_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 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2174489.05_model.r'rm: cannot remove `SRX2174489.20_model.r': そのようなファイルやディレクトリはありません : 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 `SRX2174489.05_*.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 `SRX2174489.20_*.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 `SRX2174489.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2174489.20_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 CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。