Job ID = 11633781 sra ファイルのダウンロード中... Completed: 8019K bytes transferred in 2 seconds (24141K 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 243856 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1420400/ERR1348876.sra Written 243856 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1420400/ERR1348876.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: 00:00:02 243856 reads; of these: 243856 (100.00%) were unpaired; of these: 140107 (57.45%) aligned 0 times 94103 (38.59%) aligned exactly 1 time 9646 (3.96%) aligned >1 times 42.55% overall alignment rate Time searching: 00:00:02 Overall time: 00:00:02 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] 1575 / 103749 = 0.0152 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, 15 Feb 2019 09:11:55: # Command line: callpeak -t ERX1420400.bam -f BAM -g 12100000 -n ERX1420400.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX1420400.05 # format = BAM # ChIP-seq file = ['ERX1420400.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, 15 Feb 2019 09:11:55: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:11:55: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:11:55: # Command line: callpeak -t ERX1420400.bam -f BAM -g 12100000 -n ERX1420400.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX1420400.10 # format = BAM # ChIP-seq file = ['ERX1420400.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, 15 Feb 2019 09:11:55: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:11:55: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:11:56: # Command line: callpeak -t ERX1420400.bam -f BAM -g 12100000 -n ERX1420400.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX1420400.20 # format = BAM # ChIP-seq file = ['ERX1420400.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, 15 Feb 2019 09:11:56: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:11:56: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:11:56: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:11:56: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:11:56: #1 total tags in treatment: 102174 INFO @ Fri, 15 Feb 2019 09:11:56: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:11:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:11:56: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:11:56: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:11:56: #1 total tags in treatment: 102174 INFO @ Fri, 15 Feb 2019 09:11:56: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:11:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:11:56: #1 tags after filtering in treatment: 102174 INFO @ Fri, 15 Feb 2019 09:11:56: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:11:56: #1 finished! INFO @ Fri, 15 Feb 2019 09:11:56: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:11:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:11:56: #1 tags after filtering in treatment: 102174 INFO @ Fri, 15 Feb 2019 09:11:56: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:11:56: #1 finished! INFO @ Fri, 15 Feb 2019 09:11:56: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:11:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:11:56: #2 number of paired peaks: 56 WARNING @ Fri, 15 Feb 2019 09:11:56: Too few paired peaks (56) 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, 15 Feb 2019 09:11:56: Process for pairing-model is terminated! INFO @ Fri, 15 Feb 2019 09:11:56: #2 number of paired peaks: 56 WARNING @ Fri, 15 Feb 2019 09:11:56: Too few paired peaks (56) 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, 15 Feb 2019 09:11:56: Process for pairing-model is terminated! cat: ERX1420400.05_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: ERX1420400.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Fri, 15 Feb 2019 09:11:56: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:11:56: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:11:56: #1 total tags in treatment: 102174 INFO @ Fri, 15 Feb 2019 09:11:56: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:11:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:11:56: #1 tags after filtering in treatment: 102174 INFO @ Fri, 15 Feb 2019 09:11:56: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:11:56: #1 finished! INFO @ Fri, 15 Feb 2019 09:11:56: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:11:56: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) INFO @ Fri, 15 Feb 2019 09:11:56: #2 number of paired peaks: 56 WARNING @ Fri, 15 Feb 2019 09:11:56: Too few paired peaks (56) 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, 15 Feb 2019 09:11:56: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 7 millis rm: cannot remove `ERX1420400.05_model.r': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1420400.05_*.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 `ERX1420400.05_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 cat: ERX1420400.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません rm: cannot remove `ERX1420400.10_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 `ERX1420400.10_*.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 `ERX1420400.10_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 pass1 - making usageList (0 chroms): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1420400.20_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 `ERX1420400.20_*.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 `ERX1420400.20_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。