Job ID = 9162340 sra ファイルのダウンロード中... Completed: 513270K bytes transferred in 7 seconds (575073K 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 15077789 spots for /home/okishinya/chipatlas/results/sacCer3/SRX211369/SRR636620.sra Written 15077789 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: 00:02:03 15077789 reads; of these: 15077789 (100.00%) were unpaired; of these: 9070901 (60.16%) aligned 0 times 4811984 (31.91%) aligned exactly 1 time 1194904 (7.92%) aligned >1 times 39.84% overall alignment rate Time searching: 00:02:03 Overall time: 00:02:03 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_rmdupse_core] 2529305 / 6006888 = 0.4211 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 07:30:23: # Command line: callpeak -t SRX211369.bam -f BAM -g 12100000 -n SRX211369.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX211369.20 # format = BAM # ChIP-seq file = ['SRX211369.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 07:30:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:30:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:30:23: # Command line: callpeak -t SRX211369.bam -f BAM -g 12100000 -n SRX211369.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX211369.05 # format = BAM # ChIP-seq file = ['SRX211369.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 07:30:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:30:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:30:23: # Command line: callpeak -t SRX211369.bam -f BAM -g 12100000 -n SRX211369.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX211369.10 # format = BAM # ChIP-seq file = ['SRX211369.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 07:30:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:30:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:30:30: 1000000 INFO @ Wed, 28 Jun 2017 07:30:30: 1000000 INFO @ Wed, 28 Jun 2017 07:30:30: 1000000 INFO @ Wed, 28 Jun 2017 07:30:37: 2000000 INFO @ Wed, 28 Jun 2017 07:30:37: 2000000 INFO @ Wed, 28 Jun 2017 07:30:37: 2000000 INFO @ Wed, 28 Jun 2017 07:30:44: 3000000 INFO @ Wed, 28 Jun 2017 07:30:44: 3000000 INFO @ Wed, 28 Jun 2017 07:30:44: 3000000 INFO @ Wed, 28 Jun 2017 07:30:47: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:30:47: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:30:47: #1 total tags in treatment: 3477583 INFO @ Wed, 28 Jun 2017 07:30:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:30:47: #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 07:30:47: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:30:47: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:30:47: #1 total tags in treatment: 3477583 INFO @ Wed, 28 Jun 2017 07:30:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:30:47: #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 07:30:47: #1 tags after filtering in treatment: 3477583 INFO @ Wed, 28 Jun 2017 07:30:47: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:30:47: #1 finished! INFO @ Wed, 28 Jun 2017 07:30:47: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:30:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:30:47: #1 tags after filtering in treatment: 3477583 INFO @ Wed, 28 Jun 2017 07:30:47: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:30:47: #1 finished! INFO @ Wed, 28 Jun 2017 07:30:47: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:30:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:30:47: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:30:47: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:30:47: #1 total tags in treatment: 3477583 INFO @ Wed, 28 Jun 2017 07:30:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:30:47: #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 07:30:47: #1 tags after filtering in treatment: 3477583 INFO @ Wed, 28 Jun 2017 07:30:47: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:30:47: #1 finished! INFO @ Wed, 28 Jun 2017 07:30:47: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:30:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:30:47: #2 number of paired peaks: 33 WARNING @ Wed, 28 Jun 2017 07:30:47: Too few paired peaks (33) 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 07:30:47: Process for pairing-model is terminated! cat: SRX211369.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 07:30:48: #2 number of paired peaks: 33 WARNING @ Wed, 28 Jun 2017 07:30:48: Too few paired peaks (33) 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 07:30:48: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) cat: rm: SRX211369.10_peaks.narrowPeakcannot remove `SRX211369.20_model.r': そのようなファイルやディレクトリはありません : 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 `SRX211369.20_*.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 `SRX211369.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX211369.10_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 `SRX211369.10_*.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 `SRX211369.10_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 07:30:48: #2 number of paired peaks: 33 WARNING @ Wed, 28 Jun 2017 07:30:48: Too few paired peaks (33) 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 07:30:48: Process for pairing-model is terminated! cat: SRX211369.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX211369.05_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 `SRX211369.05_*.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 `SRX211369.05_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。