Job ID = 9162232 sra ファイルのダウンロード中... Completed: 314937K bytes transferred in 5 seconds (504413K 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 15206608 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738706/SRR3471237.sra Written 15206608 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: 00:03:41 15206608 reads; of these: 15206608 (100.00%) were unpaired; of these: 489874 (3.22%) aligned 0 times 13218002 (86.92%) aligned exactly 1 time 1498732 (9.86%) aligned >1 times 96.78% overall alignment rate Time searching: 00:03:41 Overall time: 00:03:41 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] 4584205 / 14716734 = 0.3115 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 07:00:40: # Command line: callpeak -t SRX1738706.bam -f BAM -g 12100000 -n SRX1738706.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738706.20 # format = BAM # ChIP-seq file = ['SRX1738706.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 07:00:40: # Command line: callpeak -t SRX1738706.bam -f BAM -g 12100000 -n SRX1738706.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738706.10 # format = BAM # ChIP-seq file = ['SRX1738706.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 07:00:40: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:00:40: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:00:40: # Command line: callpeak -t SRX1738706.bam -f BAM -g 12100000 -n SRX1738706.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738706.05 # format = BAM # ChIP-seq file = ['SRX1738706.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 07:00:40: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:00:40: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:00:40: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:00:40: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:00:46: 1000000 INFO @ Wed, 28 Jun 2017 07:00:46: 1000000 INFO @ Wed, 28 Jun 2017 07:00:47: 1000000 INFO @ Wed, 28 Jun 2017 07:00:53: 2000000 INFO @ Wed, 28 Jun 2017 07:00:53: 2000000 INFO @ Wed, 28 Jun 2017 07:00:53: 2000000 INFO @ Wed, 28 Jun 2017 07:00:59: 3000000 INFO @ Wed, 28 Jun 2017 07:00:59: 3000000 INFO @ Wed, 28 Jun 2017 07:01:00: 3000000 INFO @ Wed, 28 Jun 2017 07:01:05: 4000000 INFO @ Wed, 28 Jun 2017 07:01:06: 4000000 INFO @ Wed, 28 Jun 2017 07:01:06: 4000000 INFO @ Wed, 28 Jun 2017 07:01:12: 5000000 INFO @ Wed, 28 Jun 2017 07:01:12: 5000000 INFO @ Wed, 28 Jun 2017 07:01:13: 5000000 INFO @ Wed, 28 Jun 2017 07:01:19: 6000000 INFO @ Wed, 28 Jun 2017 07:01:19: 6000000 INFO @ Wed, 28 Jun 2017 07:01:20: 6000000 INFO @ Wed, 28 Jun 2017 07:01:26: 7000000 INFO @ Wed, 28 Jun 2017 07:01:26: 7000000 INFO @ Wed, 28 Jun 2017 07:01:28: 7000000 INFO @ Wed, 28 Jun 2017 07:01:33: 8000000 INFO @ Wed, 28 Jun 2017 07:01:33: 8000000 INFO @ Wed, 28 Jun 2017 07:01:35: 8000000 INFO @ Wed, 28 Jun 2017 07:01:40: 9000000 INFO @ Wed, 28 Jun 2017 07:01:40: 9000000 INFO @ Wed, 28 Jun 2017 07:01:42: 9000000 INFO @ Wed, 28 Jun 2017 07:01:47: 10000000 INFO @ Wed, 28 Jun 2017 07:01:47: 10000000 INFO @ Wed, 28 Jun 2017 07:01:48: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:01:48: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:01:48: #1 total tags in treatment: 10132529 INFO @ Wed, 28 Jun 2017 07:01:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:01:48: #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 07:01:48: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:01:48: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:01:48: #1 total tags in treatment: 10132529 INFO @ Wed, 28 Jun 2017 07:01:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:01:48: #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 07:01:48: #1 tags after filtering in treatment: 10132529 INFO @ Wed, 28 Jun 2017 07:01:48: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:01:48: #1 finished! INFO @ Wed, 28 Jun 2017 07:01:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:01:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:01:48: #1 tags after filtering in treatment: 10132529 INFO @ Wed, 28 Jun 2017 07:01:48: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:01:48: #1 finished! INFO @ Wed, 28 Jun 2017 07:01:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:01:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:01:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:01:49: 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 @ Wed, 28 Jun 2017 07:01:49: Process for pairing-model is terminated! cat: SRX1738706.20_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 `SRX1738706.20_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 `SRX1738706.20_*.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 `SRX1738706.20_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 @ Wed, 28 Jun 2017 07:01:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:01:49: 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 @ Wed, 28 Jun 2017 07:01:49: Process for pairing-model is terminated! cat: SRX1738706.05_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 `SRX1738706.05_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 `SRX1738706.05_*.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 `SRX1738706.05_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 07:01:49: 10000000 INFO @ Wed, 28 Jun 2017 07:01:50: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:01:50: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:01:50: #1 total tags in treatment: 10132529 INFO @ Wed, 28 Jun 2017 07:01:50: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:01:50: #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 07:01:51: #1 tags after filtering in treatment: 10132529 INFO @ Wed, 28 Jun 2017 07:01:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:01:51: #1 finished! INFO @ Wed, 28 Jun 2017 07:01:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:01:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:01:51: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:01:51: 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 07:01:51: Process for pairing-model is terminated! cat: SRX1738706.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1738706.10_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 `SRX1738706.10_*.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 `SRX1738706.10_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。