Job ID = 9162179 sra ファイルのダウンロード中... Completed: 575534K bytes transferred in 8 seconds (582626K 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 23553746 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738609/SRR3471140.sra Written 23553746 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: 00:05:00 23553746 reads; of these: 23553746 (100.00%) were unpaired; of these: 11604921 (49.27%) aligned 0 times 10493448 (44.55%) aligned exactly 1 time 1455377 (6.18%) aligned >1 times 50.73% overall alignment rate Time searching: 00:05:00 Overall time: 00:05:00 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] 3768139 / 11948825 = 0.3154 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 06:48:18: # Command line: callpeak -t SRX1738609.bam -f BAM -g 12100000 -n SRX1738609.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738609.20 # format = BAM # ChIP-seq file = ['SRX1738609.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 06:48:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:48:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:48:18: # Command line: callpeak -t SRX1738609.bam -f BAM -g 12100000 -n SRX1738609.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738609.05 # format = BAM # ChIP-seq file = ['SRX1738609.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 06:48:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:48:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:48:18: # Command line: callpeak -t SRX1738609.bam -f BAM -g 12100000 -n SRX1738609.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738609.10 # format = BAM # ChIP-seq file = ['SRX1738609.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 06:48:18: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:48:18: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:48:28: 1000000 INFO @ Wed, 28 Jun 2017 06:48:28: 1000000 INFO @ Wed, 28 Jun 2017 06:48:28: 1000000 INFO @ Wed, 28 Jun 2017 06:48:36: 2000000 INFO @ Wed, 28 Jun 2017 06:48:36: 2000000 INFO @ Wed, 28 Jun 2017 06:48:37: 2000000 INFO @ Wed, 28 Jun 2017 06:48:44: 3000000 INFO @ Wed, 28 Jun 2017 06:48:45: 3000000 INFO @ Wed, 28 Jun 2017 06:48:46: 3000000 INFO @ Wed, 28 Jun 2017 06:48:53: 4000000 INFO @ Wed, 28 Jun 2017 06:48:53: 4000000 INFO @ Wed, 28 Jun 2017 06:48:55: 4000000 INFO @ Wed, 28 Jun 2017 06:49:01: 5000000 INFO @ Wed, 28 Jun 2017 06:49:02: 5000000 INFO @ Wed, 28 Jun 2017 06:49:05: 5000000 INFO @ Wed, 28 Jun 2017 06:49:10: 6000000 INFO @ Wed, 28 Jun 2017 06:49:11: 6000000 INFO @ Wed, 28 Jun 2017 06:49:15: 6000000 INFO @ Wed, 28 Jun 2017 06:49:19: 7000000 INFO @ Wed, 28 Jun 2017 06:49:20: 7000000 INFO @ Wed, 28 Jun 2017 06:49:24: 7000000 INFO @ Wed, 28 Jun 2017 06:49:27: 8000000 INFO @ Wed, 28 Jun 2017 06:49:29: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:49:29: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:49:29: #1 total tags in treatment: 8180686 INFO @ Wed, 28 Jun 2017 06:49:29: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:49:29: #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 06:49:29: #1 tags after filtering in treatment: 8180686 INFO @ Wed, 28 Jun 2017 06:49:29: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:49:29: #1 finished! INFO @ Wed, 28 Jun 2017 06:49:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:49:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:49:29: 8000000 INFO @ Wed, 28 Jun 2017 06:49:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:49:29: 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 06:49:29: Process for pairing-model is terminated! cat: SRX1738609.10_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 `SRX1738609.10_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 `SRX1738609.10_*.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 `SRX1738609.10_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 06:49:30: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:49:30: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:49:30: #1 total tags in treatment: 8180686 INFO @ Wed, 28 Jun 2017 06:49:30: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:49:30: #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 06:49:31: #1 tags after filtering in treatment: 8180686 INFO @ Wed, 28 Jun 2017 06:49:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:49:31: #1 finished! INFO @ Wed, 28 Jun 2017 06:49:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:49:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:49:31: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:49:31: 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 06:49:31: Process for pairing-model is terminated! cat: SRX1738609.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1738609.20_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 `SRX1738609.20_*.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 `SRX1738609.20_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 06:49:33: 8000000 INFO @ Wed, 28 Jun 2017 06:49:34: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:49:34: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:49:34: #1 total tags in treatment: 8180686 INFO @ Wed, 28 Jun 2017 06:49:34: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:49:34: #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 06:49:34: #1 tags after filtering in treatment: 8180686 INFO @ Wed, 28 Jun 2017 06:49:34: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:49:34: #1 finished! INFO @ Wed, 28 Jun 2017 06:49:34: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:49:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:49:35: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:49:35: 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 06:49:35: Process for pairing-model is terminated! cat: SRX1738609.05_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 `SRX1738609.05_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 `SRX1738609.05_*.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 `SRX1738609.05_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。