Job ID = 11244843 sra ファイルのダウンロード中... Completed: 51849K bytes transferred in 3 seconds (120048K bits/sec), in 1 file. Completed: 163771K bytes transferred in 4 seconds (275591K 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 1741384 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732402/SRR6759908.sra Written 1741384 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732402/SRR6759908.sra Read 5435822 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732402/SRR6759909.sra Written 5435822 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3732402/SRR6759909.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 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: 00:01:10 7177206 reads; of these: 7177206 (100.00%) were unpaired; of these: 1369902 (19.09%) aligned 0 times 4874632 (67.92%) aligned exactly 1 time 932672 (12.99%) aligned >1 times 80.91% overall alignment rate Time searching: 00:01:10 Overall time: 00:01:10 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] 2935818 / 5807304 = 0.5055 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 @ Tue, 09 Oct 2018 22:05:57: # Command line: callpeak -t SRX3732402.bam -f BAM -g 12100000 -n SRX3732402.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3732402.20 # format = BAM # ChIP-seq file = ['SRX3732402.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 @ Tue, 09 Oct 2018 22:05:57: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:05:57: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:05:57: # Command line: callpeak -t SRX3732402.bam -f BAM -g 12100000 -n SRX3732402.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3732402.05 # format = BAM # ChIP-seq file = ['SRX3732402.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 @ Tue, 09 Oct 2018 22:05:57: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:05:57: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:05:57: # Command line: callpeak -t SRX3732402.bam -f BAM -g 12100000 -n SRX3732402.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3732402.10 # format = BAM # ChIP-seq file = ['SRX3732402.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 @ Tue, 09 Oct 2018 22:05:57: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:05:57: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:06:04: 1000000 INFO @ Tue, 09 Oct 2018 22:06:04: 1000000 INFO @ Tue, 09 Oct 2018 22:06:04: 1000000 INFO @ Tue, 09 Oct 2018 22:06:10: 2000000 INFO @ Tue, 09 Oct 2018 22:06:10: 2000000 INFO @ Tue, 09 Oct 2018 22:06:10: 2000000 INFO @ Tue, 09 Oct 2018 22:06:16: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:06:16: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:06:16: #1 total tags in treatment: 2871486 INFO @ Tue, 09 Oct 2018 22:06:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:06:16: #1 tags after filtering in treatment: 2871486 INFO @ Tue, 09 Oct 2018 22:06:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:06:16: #1 finished! INFO @ Tue, 09 Oct 2018 22:06:16: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:06:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:06:16: #2 number of paired peaks: 87 WARNING @ Tue, 09 Oct 2018 22:06:16: Too few paired peaks (87) 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 @ Tue, 09 Oct 2018 22:06:16: Process for pairing-model is terminated! cat: SRX3732402.10_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 `SRX3732402.10_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 `SRX3732402.10_*.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 `SRX3732402.10_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 @ Tue, 09 Oct 2018 22:06:16: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:06:16: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:06:16: #1 total tags in treatment: 2871486 INFO @ Tue, 09 Oct 2018 22:06:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:06:16: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 22:06:16: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 22:06:16: #1 total tags in treatment: 2871486 INFO @ Tue, 09 Oct 2018 22:06:16: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:06:16: #1 tags after filtering in treatment: 2871486 INFO @ Tue, 09 Oct 2018 22:06:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:06:16: #1 finished! INFO @ Tue, 09 Oct 2018 22:06:16: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:06:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:06:16: #1 tags after filtering in treatment: 2871486 INFO @ Tue, 09 Oct 2018 22:06:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:06:16: #1 finished! INFO @ Tue, 09 Oct 2018 22:06:16: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:06:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:06:16: #2 number of paired peaks: 87 WARNING @ Tue, 09 Oct 2018 22:06:16: Too few paired peaks (87) 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 @ Tue, 09 Oct 2018 22:06:16: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 22:06:16: #2 number of paired peaks: 87 WARNING @ Tue, 09 Oct 2018 22:06:16: Too few paired peaks (87) 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 @ Tue, 09 Oct 2018 22:06:16: Process for pairing-model is terminated! cat: SRX3732402.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3732402.05_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) pass1 - making usageList (0 chroms): 1 millis rm: cannot remove `SRX3732402.20_model.r'needLargeMem: trying to allocate 0 bytes (limit: 17179869184) : 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 `SRX3732402.20_*.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 `SRX3732402.20_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 rm: cannot remove `SRX3732402.05_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 `SRX3732402.05_*.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 `SRX3732402.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。