Job ID = 10453718 sra ファイルのダウンロード中... Completed: 856606K bytes transferred in 10 seconds (650145K 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... Written 19463614 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3560267/SRR6470386.sra Written 19463614 spots total 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: 00:08:06 19463614 reads; of these: 19463614 (100.00%) were unpaired; of these: 1032803 (5.31%) aligned 0 times 16327814 (83.89%) aligned exactly 1 time 2102997 (10.80%) aligned >1 times 94.69% overall alignment rate Time searching: 00:08:06 Overall time: 00:08:06 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_sort_core] merging from 12 files... [bam_rmdupse_core] 7736718 / 18430811 = 0.4198 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 @ Thu, 08 Feb 2018 18:21:16: # Command line: callpeak -t SRX3560267.bam -f BAM -g 12100000 -n SRX3560267.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3560267.10 # format = BAM # ChIP-seq file = ['SRX3560267.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 @ Thu, 08 Feb 2018 18:21:16: # Command line: callpeak -t SRX3560267.bam -f BAM -g 12100000 -n SRX3560267.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3560267.20 # format = BAM # ChIP-seq file = ['SRX3560267.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 @ Thu, 08 Feb 2018 18:21:16: # Command line: callpeak -t SRX3560267.bam -f BAM -g 12100000 -n SRX3560267.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3560267.05 # format = BAM # ChIP-seq file = ['SRX3560267.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 @ Thu, 08 Feb 2018 18:21:16: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:21:16: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:21:16: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:21:16: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:21:16: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:21:16: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:21:24: 1000000 INFO @ Thu, 08 Feb 2018 18:21:24: 1000000 INFO @ Thu, 08 Feb 2018 18:21:24: 1000000 INFO @ Thu, 08 Feb 2018 18:21:32: 2000000 INFO @ Thu, 08 Feb 2018 18:21:32: 2000000 INFO @ Thu, 08 Feb 2018 18:21:33: 2000000 INFO @ Thu, 08 Feb 2018 18:21:39: 3000000 INFO @ Thu, 08 Feb 2018 18:21:41: 3000000 INFO @ Thu, 08 Feb 2018 18:21:43: 3000000 INFO @ Thu, 08 Feb 2018 18:21:47: 4000000 INFO @ Thu, 08 Feb 2018 18:21:50: 4000000 INFO @ Thu, 08 Feb 2018 18:21:52: 4000000 INFO @ Thu, 08 Feb 2018 18:21:55: 5000000 INFO @ Thu, 08 Feb 2018 18:21:59: 5000000 INFO @ Thu, 08 Feb 2018 18:22:01: 5000000 INFO @ Thu, 08 Feb 2018 18:22:03: 6000000 INFO @ Thu, 08 Feb 2018 18:22:07: 6000000 INFO @ Thu, 08 Feb 2018 18:22:11: 6000000 INFO @ Thu, 08 Feb 2018 18:22:11: 7000000 INFO @ Thu, 08 Feb 2018 18:22:16: 7000000 INFO @ Thu, 08 Feb 2018 18:22:19: 8000000 INFO @ Thu, 08 Feb 2018 18:22:20: 7000000 INFO @ Thu, 08 Feb 2018 18:22:24: 8000000 INFO @ Thu, 08 Feb 2018 18:22:27: 9000000 INFO @ Thu, 08 Feb 2018 18:22:29: 8000000 INFO @ Thu, 08 Feb 2018 18:22:33: 9000000 INFO @ Thu, 08 Feb 2018 18:22:35: 10000000 INFO @ Thu, 08 Feb 2018 18:22:38: 9000000 INFO @ Thu, 08 Feb 2018 18:22:40: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:22:40: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:22:40: #1 total tags in treatment: 10694093 INFO @ Thu, 08 Feb 2018 18:22:40: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:22:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:22:40: #1 tags after filtering in treatment: 10694093 INFO @ Thu, 08 Feb 2018 18:22:40: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:22:40: #1 finished! INFO @ Thu, 08 Feb 2018 18:22:40: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:22:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:22:41: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:22:41: Too few paired peaks (0) 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 @ Thu, 08 Feb 2018 18:22:41: Process for pairing-model is terminated! cat: SRX3560267.10_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 `SRX3560267.10_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 `SRX3560267.10_*.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 `SRX3560267.10_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 @ Thu, 08 Feb 2018 18:22:42: 10000000 INFO @ Thu, 08 Feb 2018 18:22:48: 10000000 INFO @ Thu, 08 Feb 2018 18:22:48: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:22:48: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:22:48: #1 total tags in treatment: 10694093 INFO @ Thu, 08 Feb 2018 18:22:48: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:22:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:22:48: #1 tags after filtering in treatment: 10694093 INFO @ Thu, 08 Feb 2018 18:22:48: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:22:48: #1 finished! INFO @ Thu, 08 Feb 2018 18:22:48: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:22:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:22:49: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:22:49: Too few paired peaks (0) 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 @ Thu, 08 Feb 2018 18:22:49: Process for pairing-model is terminated! cat: SRX3560267.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3560267.20_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 `SRX3560267.20_*.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 `SRX3560267.20_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 @ Thu, 08 Feb 2018 18:22:53: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:22:53: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:22:53: #1 total tags in treatment: 10694093 INFO @ Thu, 08 Feb 2018 18:22:53: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:22:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:22:54: #1 tags after filtering in treatment: 10694093 INFO @ Thu, 08 Feb 2018 18:22:54: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:22:54: #1 finished! INFO @ Thu, 08 Feb 2018 18:22:54: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:22:54: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:22:54: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:22:54: Too few paired peaks (0) 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 @ Thu, 08 Feb 2018 18:22:54: Process for pairing-model is terminated! cat: SRX3560267.05_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) rm: cannot remove `SRX3560267.05_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 `SRX3560267.05_*.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 `SRX3560267.05_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。