Job ID = 11634619 sra ファイルのダウンロード中... Completed: 356020K bytes transferred in 6 seconds (440470K 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 7861626 spots for /home/okishinya/chipatlas/results/sacCer3/ERX671080/ERR727161.sra Written 7861626 spots for /home/okishinya/chipatlas/results/sacCer3/ERX671080/ERR727161.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: 00:00:55 7861626 reads; of these: 7861626 (100.00%) were unpaired; of these: 794496 (10.11%) aligned 0 times 5161210 (65.65%) aligned exactly 1 time 1905920 (24.24%) aligned >1 times 89.89% overall alignment rate Time searching: 00:00:55 Overall time: 00:00:55 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] 2487694 / 7067130 = 0.3520 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 10:18:23: # Command line: callpeak -t ERX671080.bam -f BAM -g 12100000 -n ERX671080.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX671080.20 # format = BAM # ChIP-seq file = ['ERX671080.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 10:18:23: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:18:23: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:18:23: # Command line: callpeak -t ERX671080.bam -f BAM -g 12100000 -n ERX671080.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX671080.05 # format = BAM # ChIP-seq file = ['ERX671080.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 10:18:23: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:18:23: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:18:23: # Command line: callpeak -t ERX671080.bam -f BAM -g 12100000 -n ERX671080.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX671080.10 # format = BAM # ChIP-seq file = ['ERX671080.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 10:18:23: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:18:23: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:18:29: 1000000 INFO @ Fri, 15 Feb 2019 10:18:29: 1000000 INFO @ Fri, 15 Feb 2019 10:18:29: 1000000 INFO @ Fri, 15 Feb 2019 10:18:35: 2000000 INFO @ Fri, 15 Feb 2019 10:18:35: 2000000 INFO @ Fri, 15 Feb 2019 10:18:35: 2000000 INFO @ Fri, 15 Feb 2019 10:18:40: 3000000 INFO @ Fri, 15 Feb 2019 10:18:41: 3000000 INFO @ Fri, 15 Feb 2019 10:18:41: 3000000 INFO @ Fri, 15 Feb 2019 10:18:46: 4000000 INFO @ Fri, 15 Feb 2019 10:18:47: 4000000 INFO @ Fri, 15 Feb 2019 10:18:47: 4000000 INFO @ Fri, 15 Feb 2019 10:18:49: #1 tag size is determined as 32 bps INFO @ Fri, 15 Feb 2019 10:18:49: #1 tag size = 32 INFO @ Fri, 15 Feb 2019 10:18:49: #1 total tags in treatment: 4579436 INFO @ Fri, 15 Feb 2019 10:18:49: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:18:49: #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 10:18:50: #1 tags after filtering in treatment: 4579436 INFO @ Fri, 15 Feb 2019 10:18:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:18:50: #1 finished! INFO @ Fri, 15 Feb 2019 10:18:50: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:18:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:18:50: #2 number of paired peaks: 27 WARNING @ Fri, 15 Feb 2019 10:18:50: Too few paired peaks (27) 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 10:18:50: Process for pairing-model is terminated! cat: ERX671080.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX671080.20_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 `ERX671080.20_*.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 `ERX671080.20_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, 15 Feb 2019 10:18:51: #1 tag size is determined as 32 bps INFO @ Fri, 15 Feb 2019 10:18:51: #1 tag size = 32 INFO @ Fri, 15 Feb 2019 10:18:51: #1 total tags in treatment: 4579436 INFO @ Fri, 15 Feb 2019 10:18:51: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:18:51: #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 10:18:51: #1 tag size is determined as 32 bps INFO @ Fri, 15 Feb 2019 10:18:51: #1 tag size = 32 INFO @ Fri, 15 Feb 2019 10:18:51: #1 total tags in treatment: 4579436 INFO @ Fri, 15 Feb 2019 10:18:51: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:18:51: #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 10:18:51: #1 tags after filtering in treatment: 4579436 INFO @ Fri, 15 Feb 2019 10:18:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:18:51: #1 finished! INFO @ Fri, 15 Feb 2019 10:18:51: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:18:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:18:51: #1 tags after filtering in treatment: 4579436 INFO @ Fri, 15 Feb 2019 10:18:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:18:51: #1 finished! INFO @ Fri, 15 Feb 2019 10:18:51: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:18:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:18:51: #2 number of paired peaks: 27 WARNING @ Fri, 15 Feb 2019 10:18:51: Too few paired peaks (27) 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 10:18:51: Process for pairing-model is terminated! cat: ERX671080.05_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX671080.05_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 `ERX671080.05_*.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 `ERX671080.05_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 @ Fri, 15 Feb 2019 10:18:51: #2 number of paired peaks: 27 WARNING @ Fri, 15 Feb 2019 10:18:51: Too few paired peaks (27) 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 10:18:51: Process for pairing-model is terminated! cat: ERX671080.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX671080.10_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 `ERX671080.10_*.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 `ERX671080.10_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。