Job ID = 10608925 sra ファイルのダウンロード中... Completed: 553802K bytes transferred in 34 seconds (132165K 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 13834998 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2737495/SRR5448628.sra Written 13834998 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: 00:03:28 13834998 reads; of these: 13834998 (100.00%) were unpaired; of these: 1527202 (11.04%) aligned 0 times 10084883 (72.89%) aligned exactly 1 time 2222913 (16.07%) aligned >1 times 88.96% overall alignment rate Time searching: 00:03:28 Overall time: 00:03:28 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 8 files... [bam_rmdupse_core] 4304373 / 12307796 = 0.3497 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 22:53:20: # Command line: callpeak -t SRX2737495.bam -f BAM -g 12100000 -n SRX2737495.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2737495.10 # format = BAM # ChIP-seq file = ['SRX2737495.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 22:53:20: #1 read tag files... INFO @ Thu, 03 May 2018 22:53:20: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:53:20: # Command line: callpeak -t SRX2737495.bam -f BAM -g 12100000 -n SRX2737495.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2737495.20 # format = BAM # ChIP-seq file = ['SRX2737495.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 22:53:20: #1 read tag files... INFO @ Thu, 03 May 2018 22:53:20: # Command line: callpeak -t SRX2737495.bam -f BAM -g 12100000 -n SRX2737495.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2737495.05 # format = BAM # ChIP-seq file = ['SRX2737495.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 22:53:20: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:53:20: #1 read tag files... INFO @ Thu, 03 May 2018 22:53:20: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:53:27: 1000000 INFO @ Thu, 03 May 2018 22:53:27: 1000000 INFO @ Thu, 03 May 2018 22:53:27: 1000000 INFO @ Thu, 03 May 2018 22:53:34: 2000000 INFO @ Thu, 03 May 2018 22:53:34: 2000000 INFO @ Thu, 03 May 2018 22:53:34: 2000000 INFO @ Thu, 03 May 2018 22:53:41: 3000000 INFO @ Thu, 03 May 2018 22:53:42: 3000000 INFO @ Thu, 03 May 2018 22:53:42: 3000000 INFO @ Thu, 03 May 2018 22:53:48: 4000000 INFO @ Thu, 03 May 2018 22:53:49: 4000000 INFO @ Thu, 03 May 2018 22:53:50: 4000000 INFO @ Thu, 03 May 2018 22:53:55: 5000000 INFO @ Thu, 03 May 2018 22:53:56: 5000000 INFO @ Thu, 03 May 2018 22:53:57: 5000000 INFO @ Thu, 03 May 2018 22:54:03: 6000000 INFO @ Thu, 03 May 2018 22:54:03: 6000000 INFO @ Thu, 03 May 2018 22:54:04: 6000000 INFO @ Thu, 03 May 2018 22:54:10: 7000000 INFO @ Thu, 03 May 2018 22:54:11: 7000000 INFO @ Thu, 03 May 2018 22:54:12: 7000000 INFO @ Thu, 03 May 2018 22:54:17: 8000000 INFO @ Thu, 03 May 2018 22:54:17: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:54:17: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:54:17: #1 total tags in treatment: 8003423 INFO @ Thu, 03 May 2018 22:54:17: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:54:17: #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 22:54:17: #1 tags after filtering in treatment: 8003423 INFO @ Thu, 03 May 2018 22:54:17: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:54:17: #1 finished! INFO @ Thu, 03 May 2018 22:54:17: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:54:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:54:18: 8000000 INFO @ Thu, 03 May 2018 22:54:18: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:54:18: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:54:18: #1 total tags in treatment: 8003423 INFO @ Thu, 03 May 2018 22:54:18: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:54:18: #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 22:54:18: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:54:18: 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, 03 May 2018 22:54:18: Process for pairing-model is terminated! cat: SRX2737495.20_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 `SRX2737495.20_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 `SRX2737495.20_*.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 `SRX2737495.20_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 22:54:18: #1 tags after filtering in treatment: 8003423 INFO @ Thu, 03 May 2018 22:54:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:54:18: #1 finished! INFO @ Thu, 03 May 2018 22:54:18: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:54:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:54:18: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:54:18: 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, 03 May 2018 22:54:18: Process for pairing-model is terminated! cat: SRX2737495.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2737495.10_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 `SRX2737495.10_*.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 `SRX2737495.10_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, 03 May 2018 22:54:19: 8000000 INFO @ Thu, 03 May 2018 22:54:19: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:54:19: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:54:19: #1 total tags in treatment: 8003423 INFO @ Thu, 03 May 2018 22:54:19: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:54:19: #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 22:54:19: #1 tags after filtering in treatment: 8003423 INFO @ Thu, 03 May 2018 22:54:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:54:19: #1 finished! INFO @ Thu, 03 May 2018 22:54:19: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:54:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:54:20: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:54:20: 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, 03 May 2018 22:54:20: Process for pairing-model is terminated! cat: SRX2737495.05_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 `SRX2737495.05_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 `SRX2737495.05_*.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 `SRX2737495.05_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。