Job ID = 9161816 sra ファイルのダウンロード中... Completed: 500833K bytes transferred in 7 seconds (532748K 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 16157863 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1066340/SRR2071172.sra Written 16157863 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: 00:02:59 16157863 reads; of these: 16157863 (100.00%) were unpaired; of these: 864098 (5.35%) aligned 0 times 13140617 (81.33%) aligned exactly 1 time 2153148 (13.33%) aligned >1 times 94.65% overall alignment rate Time searching: 00:02:59 Overall time: 00:02:59 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] 6826292 / 15293765 = 0.4463 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 04:45:52: # Command line: callpeak -t SRX1066340.bam -f BAM -g 12100000 -n SRX1066340.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1066340.05 # format = BAM # ChIP-seq file = ['SRX1066340.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 04:45:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:45:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:45:52: # Command line: callpeak -t SRX1066340.bam -f BAM -g 12100000 -n SRX1066340.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1066340.20 # format = BAM # ChIP-seq file = ['SRX1066340.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 04:45:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:45:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:45:52: # Command line: callpeak -t SRX1066340.bam -f BAM -g 12100000 -n SRX1066340.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1066340.10 # format = BAM # ChIP-seq file = ['SRX1066340.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 04:45:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:45:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:45:58: 1000000 INFO @ Wed, 28 Jun 2017 04:45:59: 1000000 INFO @ Wed, 28 Jun 2017 04:45:59: 1000000 INFO @ Wed, 28 Jun 2017 04:46:04: 2000000 INFO @ Wed, 28 Jun 2017 04:46:06: 2000000 INFO @ Wed, 28 Jun 2017 04:46:06: 2000000 INFO @ Wed, 28 Jun 2017 04:46:11: 3000000 INFO @ Wed, 28 Jun 2017 04:46:12: 3000000 INFO @ Wed, 28 Jun 2017 04:46:13: 3000000 INFO @ Wed, 28 Jun 2017 04:46:17: 4000000 INFO @ Wed, 28 Jun 2017 04:46:19: 4000000 INFO @ Wed, 28 Jun 2017 04:46:20: 4000000 INFO @ Wed, 28 Jun 2017 04:46:23: 5000000 INFO @ Wed, 28 Jun 2017 04:46:26: 5000000 INFO @ Wed, 28 Jun 2017 04:46:27: 5000000 INFO @ Wed, 28 Jun 2017 04:46:29: 6000000 INFO @ Wed, 28 Jun 2017 04:46:34: 6000000 INFO @ Wed, 28 Jun 2017 04:46:35: 6000000 INFO @ Wed, 28 Jun 2017 04:46:35: 7000000 INFO @ Wed, 28 Jun 2017 04:46:41: 7000000 INFO @ Wed, 28 Jun 2017 04:46:41: 8000000 INFO @ Wed, 28 Jun 2017 04:46:42: 7000000 INFO @ Wed, 28 Jun 2017 04:46:44: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:46:44: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:46:44: #1 total tags in treatment: 8467473 INFO @ Wed, 28 Jun 2017 04:46:44: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:46:44: #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 04:46:44: #1 tags after filtering in treatment: 8467473 INFO @ Wed, 28 Jun 2017 04:46:44: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:46:44: #1 finished! INFO @ Wed, 28 Jun 2017 04:46:44: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:46:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:46:45: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:46:45: 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 04:46:45: Process for pairing-model is terminated! cat: SRX1066340.05_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 `SRX1066340.05_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 `SRX1066340.05_*.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 `SRX1066340.05_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 04:46:48: 8000000 INFO @ Wed, 28 Jun 2017 04:46:50: 8000000 INFO @ Wed, 28 Jun 2017 04:46:51: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:46:51: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:46:51: #1 total tags in treatment: 8467473 INFO @ Wed, 28 Jun 2017 04:46:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:46:51: #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 04:46:51: #1 tags after filtering in treatment: 8467473 INFO @ Wed, 28 Jun 2017 04:46:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:46:51: #1 finished! INFO @ Wed, 28 Jun 2017 04:46:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:46:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:46:52: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:46:52: 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 04:46:52: Process for pairing-model is terminated! cat: SRX1066340.20_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 `SRX1066340.20_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 `SRX1066340.20_*.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 `SRX1066340.20_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 04:46:53: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:46:53: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:46:53: #1 total tags in treatment: 8467473 INFO @ Wed, 28 Jun 2017 04:46:53: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:46:53: #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 04:46:53: #1 tags after filtering in treatment: 8467473 INFO @ Wed, 28 Jun 2017 04:46:53: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:46:53: #1 finished! INFO @ Wed, 28 Jun 2017 04:46:53: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:46:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:46:54: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:46:54: 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 04:46:54: Process for pairing-model is terminated! cat: SRX1066340.10_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 `SRX1066340.10_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 `SRX1066340.10_*.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 `SRX1066340.10_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。