Job ID = 10937686 sra ファイルのダウンロード中... Completed: 273418K bytes transferred in 7 seconds (294962K 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 8190797 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463329/SRR6367868.sra Written 8190797 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463329/SRR6367868.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: 00:01:04 8190797 reads; of these: 8190797 (100.00%) were unpaired; of these: 4786186 (58.43%) aligned 0 times 2956738 (36.10%) aligned exactly 1 time 447873 (5.47%) aligned >1 times 41.57% overall alignment rate Time searching: 00:01:04 Overall time: 00:01:04 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] 1457296 / 3404611 = 0.4280 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 02:51:22: # Command line: callpeak -t SRX3463329.bam -f BAM -g 12100000 -n SRX3463329.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3463329.20 # format = BAM # ChIP-seq file = ['SRX3463329.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 02:51:22: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:51:22: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:51:22: # Command line: callpeak -t SRX3463329.bam -f BAM -g 12100000 -n SRX3463329.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3463329.05 # format = BAM # ChIP-seq file = ['SRX3463329.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 02:51:22: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:51:22: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:51:22: # Command line: callpeak -t SRX3463329.bam -f BAM -g 12100000 -n SRX3463329.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3463329.10 # format = BAM # ChIP-seq file = ['SRX3463329.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 02:51:22: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:51:22: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:51:28: 1000000 INFO @ Fri, 10 Aug 2018 02:51:29: 1000000 INFO @ Fri, 10 Aug 2018 02:51:30: 1000000 INFO @ Fri, 10 Aug 2018 02:51:35: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:51:35: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:51:35: #1 total tags in treatment: 1947315 INFO @ Fri, 10 Aug 2018 02:51:35: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:51:35: #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 02:51:35: #1 tags after filtering in treatment: 1947315 INFO @ Fri, 10 Aug 2018 02:51:35: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:51:35: #1 finished! INFO @ Fri, 10 Aug 2018 02:51:35: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:51:35: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:51:35: #2 number of paired peaks: 35 WARNING @ Fri, 10 Aug 2018 02:51:35: Too few paired peaks (35) 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 02:51:35: Process for pairing-model is terminated! cat: SRX3463329.20_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 `SRX3463329.20_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 `SRX3463329.20_*.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 `SRX3463329.20_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 02:51:36: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:51:36: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:51:36: #1 total tags in treatment: 1947315 INFO @ Fri, 10 Aug 2018 02:51:36: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:51:36: #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 02:51:36: #1 tags after filtering in treatment: 1947315 INFO @ Fri, 10 Aug 2018 02:51:36: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:51:36: #1 finished! INFO @ Fri, 10 Aug 2018 02:51:36: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:51:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:51:36: #2 number of paired peaks: 35 WARNING @ Fri, 10 Aug 2018 02:51:36: Too few paired peaks (35) 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 02:51:36: Process for pairing-model is terminated! cat: SRX3463329.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3463329.05_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 `SRX3463329.05_*.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 `SRX3463329.05_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, 10 Aug 2018 02:51:37: #1 tag size is determined as 51 bps INFO @ Fri, 10 Aug 2018 02:51:37: #1 tag size = 51 INFO @ Fri, 10 Aug 2018 02:51:37: #1 total tags in treatment: 1947315 INFO @ Fri, 10 Aug 2018 02:51:37: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:51:37: #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 02:51:37: #1 tags after filtering in treatment: 1947315 INFO @ Fri, 10 Aug 2018 02:51:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:51:37: #1 finished! INFO @ Fri, 10 Aug 2018 02:51:37: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:51:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:51:38: #2 number of paired peaks: 35 WARNING @ Fri, 10 Aug 2018 02:51:38: Too few paired peaks (35) 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 02:51:38: Process for pairing-model is terminated! cat: SRX3463329.10_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 `SRX3463329.10_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 `SRX3463329.10_*.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 `SRX3463329.10_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。