Job ID = 9384012 sra ファイルのダウンロード中... Completed: 370759K bytes transferred in 13 seconds (228294K bits/sec), in 1 file, 2 directories. 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 12784190 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2174502/SRR4254730.sra Written 12784190 spots total 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: 00:02:41 12784190 reads; of these: 12784190 (100.00%) were unpaired; of these: 1383644 (10.82%) aligned 0 times 10189391 (79.70%) aligned exactly 1 time 1211155 (9.47%) aligned >1 times 89.18% overall alignment rate Time searching: 00:02:41 Overall time: 00:02:41 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] 6713396 / 11400546 = 0.5889 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 @ Sun, 06 Aug 2017 00:03:42: # Command line: callpeak -t SRX2174502.bam -f BAM -g 12100000 -n SRX2174502.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2174502.05 # format = BAM # ChIP-seq file = ['SRX2174502.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 @ Sun, 06 Aug 2017 00:03:42: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:03:42: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:03:42: # Command line: callpeak -t SRX2174502.bam -f BAM -g 12100000 -n SRX2174502.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2174502.10 # format = BAM # ChIP-seq file = ['SRX2174502.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 @ Sun, 06 Aug 2017 00:03:42: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:03:42: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:03:42: # Command line: callpeak -t SRX2174502.bam -f BAM -g 12100000 -n SRX2174502.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2174502.20 # format = BAM # ChIP-seq file = ['SRX2174502.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 @ Sun, 06 Aug 2017 00:03:42: #1 read tag files... INFO @ Sun, 06 Aug 2017 00:03:42: #1 read treatment tags... INFO @ Sun, 06 Aug 2017 00:03:50: 1000000 INFO @ Sun, 06 Aug 2017 00:03:50: 1000000 INFO @ Sun, 06 Aug 2017 00:03:50: 1000000 INFO @ Sun, 06 Aug 2017 00:03:57: 2000000 INFO @ Sun, 06 Aug 2017 00:03:57: 2000000 INFO @ Sun, 06 Aug 2017 00:03:59: 2000000 INFO @ Sun, 06 Aug 2017 00:04:05: 3000000 INFO @ Sun, 06 Aug 2017 00:04:05: 3000000 INFO @ Sun, 06 Aug 2017 00:04:08: 3000000 INFO @ Sun, 06 Aug 2017 00:04:13: 4000000 INFO @ Sun, 06 Aug 2017 00:04:13: 4000000 INFO @ Sun, 06 Aug 2017 00:04:16: 4000000 INFO @ Sun, 06 Aug 2017 00:04:18: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:04:18: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:04:18: #1 total tags in treatment: 4687150 INFO @ Sun, 06 Aug 2017 00:04:18: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:04:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 00:04:18: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:04:18: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:04:18: #1 total tags in treatment: 4687150 INFO @ Sun, 06 Aug 2017 00:04:18: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:04:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 00:04:19: #1 tags after filtering in treatment: 4687150 INFO @ Sun, 06 Aug 2017 00:04:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:04:19: #1 finished! INFO @ Sun, 06 Aug 2017 00:04:19: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:04:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:04:19: #1 tags after filtering in treatment: 4687150 INFO @ Sun, 06 Aug 2017 00:04:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:04:19: #1 finished! INFO @ Sun, 06 Aug 2017 00:04:19: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:04:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:04:19: #2 number of paired peaks: 45 WARNING @ Sun, 06 Aug 2017 00:04:19: Too few paired peaks (45) 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 @ Sun, 06 Aug 2017 00:04:19: Process for pairing-model is terminated! cat: SRX2174502.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Sun, 06 Aug 2017 00:04:19: #2 number of paired peaks: 45 WARNING @ Sun, 06 Aug 2017 00:04:19: Too few paired peaks (45) 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 @ Sun, 06 Aug 2017 00:04:19: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2174502.05_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 `SRX2174502.05_*.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 `SRX2174502.05_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 cat: SRX2174502.10_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 `SRX2174502.10_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 `SRX2174502.10_*.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 `SRX2174502.10_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 @ Sun, 06 Aug 2017 00:04:22: #1 tag size is determined as 51 bps INFO @ Sun, 06 Aug 2017 00:04:22: #1 tag size = 51 INFO @ Sun, 06 Aug 2017 00:04:22: #1 total tags in treatment: 4687150 INFO @ Sun, 06 Aug 2017 00:04:22: #1 user defined the maximum tags... INFO @ Sun, 06 Aug 2017 00:04:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 06 Aug 2017 00:04:22: #1 tags after filtering in treatment: 4687150 INFO @ Sun, 06 Aug 2017 00:04:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 06 Aug 2017 00:04:22: #1 finished! INFO @ Sun, 06 Aug 2017 00:04:22: #2 Build Peak Model... INFO @ Sun, 06 Aug 2017 00:04:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 06 Aug 2017 00:04:23: #2 number of paired peaks: 45 WARNING @ Sun, 06 Aug 2017 00:04:23: Too few paired peaks (45) 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 @ Sun, 06 Aug 2017 00:04:23: Process for pairing-model is terminated! cat: SRX2174502.20_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 `SRX2174502.20_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 `SRX2174502.20_*.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 `SRX2174502.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。