Job ID = 10608996 sra ファイルのダウンロード中... Completed: 513155K bytes transferred in 61 seconds (68879K 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 8998667 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2745398/SRR5457338.sra Written 8998667 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: 00:02:18 8998667 reads; of these: 8998667 (100.00%) were unpaired; of these: 1724693 (19.17%) aligned 0 times 4273913 (47.49%) aligned exactly 1 time 3000061 (33.34%) aligned >1 times 80.83% overall alignment rate Time searching: 00:02:18 Overall time: 00:02:18 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] 3825941 / 7273974 = 0.5260 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, 03 May 2018 23:01:48: # Command line: callpeak -t SRX2745398.bam -f BAM -g 12100000 -n SRX2745398.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2745398.10 # format = BAM # ChIP-seq file = ['SRX2745398.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, 03 May 2018 23:01:48: #1 read tag files... INFO @ Thu, 03 May 2018 23:01:48: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:01:48: # Command line: callpeak -t SRX2745398.bam -f BAM -g 12100000 -n SRX2745398.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2745398.05 # format = BAM # ChIP-seq file = ['SRX2745398.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, 03 May 2018 23:01:48: #1 read tag files... INFO @ Thu, 03 May 2018 23:01:48: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:01:48: # Command line: callpeak -t SRX2745398.bam -f BAM -g 12100000 -n SRX2745398.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2745398.20 # format = BAM # ChIP-seq file = ['SRX2745398.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, 03 May 2018 23:01:48: #1 read tag files... INFO @ Thu, 03 May 2018 23:01:48: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:01:57: 1000000 INFO @ Thu, 03 May 2018 23:01:57: 1000000 INFO @ Thu, 03 May 2018 23:01:57: 1000000 INFO @ Thu, 03 May 2018 23:02:06: 2000000 INFO @ Thu, 03 May 2018 23:02:06: 2000000 INFO @ Thu, 03 May 2018 23:02:07: 2000000 INFO @ Thu, 03 May 2018 23:02:15: 3000000 INFO @ Thu, 03 May 2018 23:02:15: 3000000 INFO @ Thu, 03 May 2018 23:02:16: 3000000 INFO @ Thu, 03 May 2018 23:02:18: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 23:02:18: #1 tag size = 101 INFO @ Thu, 03 May 2018 23:02:18: #1 total tags in treatment: 3448033 INFO @ Thu, 03 May 2018 23:02:18: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:02:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:02:19: #1 tags after filtering in treatment: 3448033 INFO @ Thu, 03 May 2018 23:02:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:02:19: #1 finished! INFO @ Thu, 03 May 2018 23:02:19: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:02:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:02:19: #2 number of paired peaks: 30 WARNING @ Thu, 03 May 2018 23:02:19: Too few paired peaks (30) 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, 03 May 2018 23:02:19: Process for pairing-model is terminated! cat: SRX2745398.05_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 `SRX2745398.05_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 `SRX2745398.05_*.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 `SRX2745398.05_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 @ Thu, 03 May 2018 23:02:20: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 23:02:20: #1 tag size = 101 INFO @ Thu, 03 May 2018 23:02:20: #1 total tags in treatment: 3448033 INFO @ Thu, 03 May 2018 23:02:20: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:02:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:02:20: #1 tags after filtering in treatment: 3448033 INFO @ Thu, 03 May 2018 23:02:20: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:02:20: #1 finished! INFO @ Thu, 03 May 2018 23:02:20: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:02:20: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:02:20: #2 number of paired peaks: 30 WARNING @ Thu, 03 May 2018 23:02:20: Too few paired peaks (30) 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, 03 May 2018 23:02:20: Process for pairing-model is terminated! cat: SRX2745398.20_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 `SRX2745398.20_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 `SRX2745398.20_*.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 `SRX2745398.20_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, 03 May 2018 23:02:20: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 23:02:20: #1 tag size = 101 INFO @ Thu, 03 May 2018 23:02:20: #1 total tags in treatment: 3448033 INFO @ Thu, 03 May 2018 23:02:20: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:02:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:02:21: #1 tags after filtering in treatment: 3448033 INFO @ Thu, 03 May 2018 23:02:21: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:02:21: #1 finished! INFO @ Thu, 03 May 2018 23:02:21: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:02:21: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:02:21: #2 number of paired peaks: 30 WARNING @ Thu, 03 May 2018 23:02:21: Too few paired peaks (30) 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, 03 May 2018 23:02:21: Process for pairing-model is terminated! cat: SRX2745398.10_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 `SRX2745398.10_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 `SRX2745398.10_*.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 `SRX2745398.10_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。