Job ID = 9162140 sra ファイルのダウンロード中... Completed: 1407630K bytes transferred in 13 seconds (841575K 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 23896778 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1702419/SRR3375884.sra Written 23896778 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: 00:10:13 23896778 reads; of these: 23896778 (100.00%) were unpaired; of these: 733623 (3.07%) aligned 0 times 20751477 (86.84%) aligned exactly 1 time 2411678 (10.09%) aligned >1 times 96.93% overall alignment rate Time searching: 00:10:13 Overall time: 00:10:13 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 20 files... [bam_rmdupse_core] 13266723 / 23163155 = 0.5728 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 @ Wed, 28 Jun 2017 06:30:46: # Command line: callpeak -t SRX1702419.bam -f BAM -g 12100000 -n SRX1702419.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1702419.10 # format = BAM # ChIP-seq file = ['SRX1702419.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 @ Wed, 28 Jun 2017 06:30:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:30:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:30:46: # Command line: callpeak -t SRX1702419.bam -f BAM -g 12100000 -n SRX1702419.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1702419.05 # format = BAM # ChIP-seq file = ['SRX1702419.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 @ Wed, 28 Jun 2017 06:30:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:30:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:30:46: # Command line: callpeak -t SRX1702419.bam -f BAM -g 12100000 -n SRX1702419.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1702419.20 # format = BAM # ChIP-seq file = ['SRX1702419.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 @ Wed, 28 Jun 2017 06:30:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:30:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:31:00: 1000000 INFO @ Wed, 28 Jun 2017 06:31:00: 1000000 INFO @ Wed, 28 Jun 2017 06:31:01: 1000000 INFO @ Wed, 28 Jun 2017 06:31:15: 2000000 INFO @ Wed, 28 Jun 2017 06:31:15: 2000000 INFO @ Wed, 28 Jun 2017 06:31:16: 2000000 INFO @ Wed, 28 Jun 2017 06:31:30: 3000000 INFO @ Wed, 28 Jun 2017 06:31:30: 3000000 INFO @ Wed, 28 Jun 2017 06:31:32: 3000000 INFO @ Wed, 28 Jun 2017 06:31:44: 4000000 INFO @ Wed, 28 Jun 2017 06:31:44: 4000000 INFO @ Wed, 28 Jun 2017 06:31:47: 4000000 INFO @ Wed, 28 Jun 2017 06:31:59: 5000000 INFO @ Wed, 28 Jun 2017 06:31:59: 5000000 INFO @ Wed, 28 Jun 2017 06:32:03: 5000000 INFO @ Wed, 28 Jun 2017 06:32:13: 6000000 INFO @ Wed, 28 Jun 2017 06:32:13: 6000000 INFO @ Wed, 28 Jun 2017 06:32:18: 6000000 INFO @ Wed, 28 Jun 2017 06:32:27: 7000000 INFO @ Wed, 28 Jun 2017 06:32:28: 7000000 INFO @ Wed, 28 Jun 2017 06:32:34: 7000000 INFO @ Wed, 28 Jun 2017 06:32:41: 8000000 INFO @ Wed, 28 Jun 2017 06:32:42: 8000000 INFO @ Wed, 28 Jun 2017 06:32:50: 8000000 INFO @ Wed, 28 Jun 2017 06:32:55: 9000000 INFO @ Wed, 28 Jun 2017 06:32:56: 9000000 INFO @ Wed, 28 Jun 2017 06:33:06: 9000000 INFO @ Wed, 28 Jun 2017 06:33:08: #1 tag size is determined as 138 bps INFO @ Wed, 28 Jun 2017 06:33:08: #1 tag size = 138 INFO @ Wed, 28 Jun 2017 06:33:08: #1 total tags in treatment: 9896432 INFO @ Wed, 28 Jun 2017 06:33:08: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:33:08: #1 tags after filtering in treatment: 9896432 INFO @ Wed, 28 Jun 2017 06:33:08: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:33:08: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:08: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:08: #1 tag size is determined as 138 bps INFO @ Wed, 28 Jun 2017 06:33:08: #1 tag size = 138 INFO @ Wed, 28 Jun 2017 06:33:08: #1 total tags in treatment: 9896432 INFO @ Wed, 28 Jun 2017 06:33:08: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:33:08: #1 tags after filtering in treatment: 9896432 INFO @ Wed, 28 Jun 2017 06:33:08: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:33:08: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:08: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:08: 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 @ Wed, 28 Jun 2017 06:33:08: Process for pairing-model is terminated! cat: SRX1702419.10_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 `SRX1702419.10_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 `SRX1702419.10_*.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 `SRX1702419.10_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 @ Wed, 28 Jun 2017 06:33:09: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:09: 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 @ Wed, 28 Jun 2017 06:33:09: Process for pairing-model is terminated! cat: SRX1702419.05_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 `SRX1702419.05_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 `SRX1702419.05_*.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 `SRX1702419.05_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 @ Wed, 28 Jun 2017 06:33:20: #1 tag size is determined as 138 bps INFO @ Wed, 28 Jun 2017 06:33:20: #1 tag size = 138 INFO @ Wed, 28 Jun 2017 06:33:20: #1 total tags in treatment: 9896432 INFO @ Wed, 28 Jun 2017 06:33:20: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:33:20: #1 tags after filtering in treatment: 9896432 INFO @ Wed, 28 Jun 2017 06:33:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:33:20: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:20: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:20: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:20: 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 @ Wed, 28 Jun 2017 06:33:20: Process for pairing-model is terminated! cat: SRX1702419.20_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 `SRX1702419.20_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 `SRX1702419.20_*.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 `SRX1702419.20_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。