Job ID = 11192936 sra ファイルのダウンロード中... Completed: 113420K bytes transferred in 13 seconds (68916K 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... Read 5702172 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3242052/SRR6129610.sra Written 5702172 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3242052/SRR6129610.sra 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: 00:01:00 5702172 reads; of these: 5702172 (100.00%) were unpaired; of these: 1823488 (31.98%) aligned 0 times 3424482 (60.06%) aligned exactly 1 time 454202 (7.97%) aligned >1 times 68.02% overall alignment rate Time searching: 00:01:00 Overall time: 00:01:00 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] 1266810 / 3878684 = 0.3266 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, 15 Sep 2018 10:34:42: # Command line: callpeak -t SRX3242052.bam -f BAM -g 12100000 -n SRX3242052.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3242052.20 # format = BAM # ChIP-seq file = ['SRX3242052.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, 15 Sep 2018 10:34:42: # Command line: callpeak -t SRX3242052.bam -f BAM -g 12100000 -n SRX3242052.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3242052.05 # format = BAM # ChIP-seq file = ['SRX3242052.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, 15 Sep 2018 10:34:42: # Command line: callpeak -t SRX3242052.bam -f BAM -g 12100000 -n SRX3242052.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3242052.10 # format = BAM # ChIP-seq file = ['SRX3242052.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, 15 Sep 2018 10:34:42: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:34:42: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:34:42: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:34:42: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:34:42: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:34:42: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:34:48: 1000000 INFO @ Sat, 15 Sep 2018 10:34:48: 1000000 INFO @ Sat, 15 Sep 2018 10:34:48: 1000000 INFO @ Sat, 15 Sep 2018 10:34:54: 2000000 INFO @ Sat, 15 Sep 2018 10:34:54: 2000000 INFO @ Sat, 15 Sep 2018 10:34:54: 2000000 INFO @ Sat, 15 Sep 2018 10:34:58: #1 tag size is determined as 51 bps INFO @ Sat, 15 Sep 2018 10:34:58: #1 tag size = 51 INFO @ Sat, 15 Sep 2018 10:34:58: #1 total tags in treatment: 2611874 INFO @ Sat, 15 Sep 2018 10:34:58: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:34:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:34:58: #1 tags after filtering in treatment: 2611874 INFO @ Sat, 15 Sep 2018 10:34:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:34:58: #1 finished! INFO @ Sat, 15 Sep 2018 10:34:58: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:34:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:34:58: #2 number of paired peaks: 82 WARNING @ Sat, 15 Sep 2018 10:34:58: Too few paired peaks (82) 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, 15 Sep 2018 10:34:58: Process for pairing-model is terminated! cat: SRX3242052.05_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 `SRX3242052.05_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 `SRX3242052.05_*.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 `SRX3242052.05_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 @ Sat, 15 Sep 2018 10:34:58: #1 tag size is determined as 51 bps INFO @ Sat, 15 Sep 2018 10:34:58: #1 tag size = 51 INFO @ Sat, 15 Sep 2018 10:34:58: #1 total tags in treatment: 2611874 INFO @ Sat, 15 Sep 2018 10:34:58: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:34:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:34:58: #1 tags after filtering in treatment: 2611874 INFO @ Sat, 15 Sep 2018 10:34:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:34:58: #1 finished! INFO @ Sat, 15 Sep 2018 10:34:58: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:34:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:34:58: #1 tag size is determined as 51 bps INFO @ Sat, 15 Sep 2018 10:34:58: #1 tag size = 51 INFO @ Sat, 15 Sep 2018 10:34:58: #1 total tags in treatment: 2611874 INFO @ Sat, 15 Sep 2018 10:34:58: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:34:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:34:58: #1 tags after filtering in treatment: 2611874 INFO @ Sat, 15 Sep 2018 10:34:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:34:58: #1 finished! INFO @ Sat, 15 Sep 2018 10:34:58: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:34:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:34:58: #2 number of paired peaks: 82 WARNING @ Sat, 15 Sep 2018 10:34:58: Too few paired peaks (82) 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, 15 Sep 2018 10:34:58: Process for pairing-model is terminated! cat: SRX3242052.10_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 `SRX3242052.10_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 `SRX3242052.10_*.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 `SRX3242052.10_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, 15 Sep 2018 10:34:58: #2 number of paired peaks: 82 WARNING @ Sat, 15 Sep 2018 10:34:58: Too few paired peaks (82) 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, 15 Sep 2018 10:34:58: Process for pairing-model is terminated! cat: SRX3242052.20_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 `SRX3242052.20_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 `SRX3242052.20_*.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 `SRX3242052.20_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。