Job ID = 10937676 sra ファイルのダウンロード中... Completed: 111807K bytes transferred in 11 seconds (78794K 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 3368954 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463319/SRR6367858.sra Written 3368954 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463319/SRR6367858.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: 00:00:01 Multiseed full-index search: 00:00:41 3368954 reads; of these: 3368954 (100.00%) were unpaired; of these: 203323 (6.04%) aligned 0 times 2833785 (84.11%) aligned exactly 1 time 331846 (9.85%) aligned >1 times 93.96% overall alignment rate Time searching: 00:00:42 Overall time: 00:00:42 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] 1468587 / 3165631 = 0.4639 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 @ Fri, 10 Aug 2018 02:48:25: # Command line: callpeak -t SRX3463319.bam -f BAM -g 12100000 -n SRX3463319.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3463319.05 # format = BAM # ChIP-seq file = ['SRX3463319.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 @ Fri, 10 Aug 2018 02:48:25: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:48:25: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:48:25: # Command line: callpeak -t SRX3463319.bam -f BAM -g 12100000 -n SRX3463319.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3463319.20 # format = BAM # ChIP-seq file = ['SRX3463319.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 @ Fri, 10 Aug 2018 02:48:25: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:48:25: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:48:25: # Command line: callpeak -t SRX3463319.bam -f BAM -g 12100000 -n SRX3463319.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3463319.10 # format = BAM # ChIP-seq file = ['SRX3463319.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 @ Fri, 10 Aug 2018 02:48:25: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:48:25: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:48:32: 1000000 INFO @ Fri, 10 Aug 2018 02:48:32: 1000000 INFO @ Fri, 10 Aug 2018 02:48:33: 1000000 INFO @ Fri, 10 Aug 2018 02:48:38: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:48:38: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:48:38: #1 total tags in treatment: 1697044 INFO @ Fri, 10 Aug 2018 02:48:38: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:48:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:48:38: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:48:38: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:48:38: #1 total tags in treatment: 1697044 INFO @ Fri, 10 Aug 2018 02:48:38: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:48:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:48:38: #1 tags after filtering in treatment: 1697044 INFO @ Fri, 10 Aug 2018 02:48:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:48:38: #1 finished! INFO @ Fri, 10 Aug 2018 02:48:38: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:48:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:48:38: #1 tags after filtering in treatment: 1697044 INFO @ Fri, 10 Aug 2018 02:48:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:48:38: #1 finished! INFO @ Fri, 10 Aug 2018 02:48:38: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:48:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:48:38: #2 number of paired peaks: 30 WARNING @ Fri, 10 Aug 2018 02:48:38: Too few paired peaks (30) 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 @ Fri, 10 Aug 2018 02:48:38: Process for pairing-model is terminated! cat: SRX3463319.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Fri, 10 Aug 2018 02:48:38: #2 number of paired peaks: 30 WARNING @ Fri, 10 Aug 2018 02:48:38: Too few paired peaks (30) 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 @ Fri, 10 Aug 2018 02:48:38: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3463319.05_model.r'cat: SRX3463319.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません : 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 `SRX3463319.05_*.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 `SRX3463319.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3463319.20_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 `SRX3463319.20_*.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 `SRX3463319.20_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 @ Fri, 10 Aug 2018 02:48:39: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:48:39: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:48:39: #1 total tags in treatment: 1697044 INFO @ Fri, 10 Aug 2018 02:48:39: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:48:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:48:39: #1 tags after filtering in treatment: 1697044 INFO @ Fri, 10 Aug 2018 02:48:39: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:48:39: #1 finished! INFO @ Fri, 10 Aug 2018 02:48:39: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:48:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:48:39: #2 number of paired peaks: 30 WARNING @ Fri, 10 Aug 2018 02:48:39: Too few paired peaks (30) 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 @ Fri, 10 Aug 2018 02:48:39: Process for pairing-model is terminated! cat: SRX3463319.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3463319.10_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 `SRX3463319.10_*.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 `SRX3463319.10_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。