Job ID = 10488215 sra ファイルのダウンロード中... Completed: 105899K bytes transferred in 5 seconds (158181K bits/sec), in 1 file. 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 6183677 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3451532/SRR6354922.sra Written 6183677 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:00:51 6183677 reads; of these: 6183677 (100.00%) were unpaired; of these: 785605 (12.70%) aligned 0 times 4316121 (69.80%) aligned exactly 1 time 1081951 (17.50%) aligned >1 times 87.30% overall alignment rate Time searching: 00:00:51 Overall time: 00:00:51 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] 2978614 / 5398072 = 0.5518 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 @ Sun, 18 Mar 2018 12:20:35: # Command line: callpeak -t SRX3451532.bam -f BAM -g 12100000 -n SRX3451532.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3451532.20 # format = BAM # ChIP-seq file = ['SRX3451532.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 @ Sun, 18 Mar 2018 12:20:35: #1 read tag files... INFO @ Sun, 18 Mar 2018 12:20:35: #1 read treatment tags... INFO @ Sun, 18 Mar 2018 12:20:35: # Command line: callpeak -t SRX3451532.bam -f BAM -g 12100000 -n SRX3451532.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3451532.05 # format = BAM # ChIP-seq file = ['SRX3451532.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 @ Sun, 18 Mar 2018 12:20:35: #1 read tag files... INFO @ Sun, 18 Mar 2018 12:20:35: #1 read treatment tags... INFO @ Sun, 18 Mar 2018 12:20:35: # Command line: callpeak -t SRX3451532.bam -f BAM -g 12100000 -n SRX3451532.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3451532.10 # format = BAM # ChIP-seq file = ['SRX3451532.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 @ Sun, 18 Mar 2018 12:20:35: #1 read tag files... INFO @ Sun, 18 Mar 2018 12:20:35: #1 read treatment tags... INFO @ Sun, 18 Mar 2018 12:20:41: 1000000 INFO @ Sun, 18 Mar 2018 12:20:41: 1000000 INFO @ Sun, 18 Mar 2018 12:20:41: 1000000 INFO @ Sun, 18 Mar 2018 12:20:47: 2000000 INFO @ Sun, 18 Mar 2018 12:20:47: 2000000 INFO @ Sun, 18 Mar 2018 12:20:48: 2000000 INFO @ Sun, 18 Mar 2018 12:20:50: #1 tag size is determined as 40 bps INFO @ Sun, 18 Mar 2018 12:20:50: #1 tag size = 40 INFO @ Sun, 18 Mar 2018 12:20:50: #1 total tags in treatment: 2419458 INFO @ Sun, 18 Mar 2018 12:20:50: #1 user defined the maximum tags... INFO @ Sun, 18 Mar 2018 12:20:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 18 Mar 2018 12:20:50: #1 tags after filtering in treatment: 2419458 INFO @ Sun, 18 Mar 2018 12:20:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 18 Mar 2018 12:20:50: #1 finished! INFO @ Sun, 18 Mar 2018 12:20:50: #2 Build Peak Model... INFO @ Sun, 18 Mar 2018 12:20:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 18 Mar 2018 12:20:50: #1 tag size is determined as 40 bps INFO @ Sun, 18 Mar 2018 12:20:50: #1 tag size = 40 INFO @ Sun, 18 Mar 2018 12:20:50: #1 total tags in treatment: 2419458 INFO @ Sun, 18 Mar 2018 12:20:50: #1 user defined the maximum tags... INFO @ Sun, 18 Mar 2018 12:20:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 18 Mar 2018 12:20:50: #1 tags after filtering in treatment: 2419458 INFO @ Sun, 18 Mar 2018 12:20:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 18 Mar 2018 12:20:50: #1 finished! INFO @ Sun, 18 Mar 2018 12:20:50: #2 Build Peak Model... INFO @ Sun, 18 Mar 2018 12:20:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 18 Mar 2018 12:20:50: #2 number of paired peaks: 33 WARNING @ Sun, 18 Mar 2018 12:20:50: Too few paired peaks (33) 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 @ Sun, 18 Mar 2018 12:20:50: Process for pairing-model is terminated! cat: SRX3451532.20_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 `SRX3451532.20_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 `SRX3451532.20_*.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 `SRX3451532.20_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 @ Sun, 18 Mar 2018 12:20:50: #1 tag size is determined as 40 bps INFO @ Sun, 18 Mar 2018 12:20:50: #1 tag size = 40 INFO @ Sun, 18 Mar 2018 12:20:50: #1 total tags in treatment: 2419458 INFO @ Sun, 18 Mar 2018 12:20:50: #1 user defined the maximum tags... INFO @ Sun, 18 Mar 2018 12:20:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 18 Mar 2018 12:20:50: #2 number of paired peaks: 33 WARNING @ Sun, 18 Mar 2018 12:20:50: Too few paired peaks (33) 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 @ Sun, 18 Mar 2018 12:20:50: Process for pairing-model is terminated! cat: SRX3451532.05_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) INFO @ Sun, 18 Mar 2018 12:20:50: #1 tags after filtering in treatment: 2419458 rm: INFO @ Sun, 18 Mar 2018 12:20:50: #1 Redundant rate of treatment: 0.00 cannot remove `SRX3451532.05_model.r'INFO @ Sun, 18 Mar 2018 12:20:50: #1 finished! INFO @ Sun, 18 Mar 2018 12:20:50: #2 Build Peak Model... : そのようなファイルやディレクトリはありません INFO @ Sun, 18 Mar 2018 12:20:50: #2 looking for paired plus/minus strand peaks... rm: cannot remove `SRX3451532.05_*.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 `SRX3451532.05_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 @ Sun, 18 Mar 2018 12:20:50: #2 number of paired peaks: 33 WARNING @ Sun, 18 Mar 2018 12:20:50: Too few paired peaks (33) 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 @ Sun, 18 Mar 2018 12:20:50: Process for pairing-model is terminated! cat: SRX3451532.10_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 `SRX3451532.10_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 `SRX3451532.10_*.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 `SRX3451532.10_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。