Job ID = 9161909 sra ファイルのダウンロード中... Completed: 470209K bytes transferred in 6 seconds (556774K 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 18493194 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1305408/SRR2559346.sra Written 18493194 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:20 18493194 reads; of these: 18493194 (100.00%) were unpaired; of these: 789204 (4.27%) aligned 0 times 14487381 (78.34%) aligned exactly 1 time 3216609 (17.39%) aligned >1 times 95.73% overall alignment rate Time searching: 00:03:21 Overall time: 00:03:21 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] 11060559 / 17703990 = 0.6247 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 05:03:03: # Command line: callpeak -t SRX1305408.bam -f BAM -g 12100000 -n SRX1305408.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1305408.05 # format = BAM # ChIP-seq file = ['SRX1305408.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 05:03:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:03:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:03:03: # Command line: callpeak -t SRX1305408.bam -f BAM -g 12100000 -n SRX1305408.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1305408.20 # format = BAM # ChIP-seq file = ['SRX1305408.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 05:03:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:03:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:03:03: # Command line: callpeak -t SRX1305408.bam -f BAM -g 12100000 -n SRX1305408.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1305408.10 # format = BAM # ChIP-seq file = ['SRX1305408.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 05:03:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:03:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:03:10: 1000000 INFO @ Wed, 28 Jun 2017 05:03:10: 1000000 INFO @ Wed, 28 Jun 2017 05:03:11: 1000000 INFO @ Wed, 28 Jun 2017 05:03:17: 2000000 INFO @ Wed, 28 Jun 2017 05:03:18: 2000000 INFO @ Wed, 28 Jun 2017 05:03:18: 2000000 INFO @ Wed, 28 Jun 2017 05:03:24: 3000000 INFO @ Wed, 28 Jun 2017 05:03:24: 3000000 INFO @ Wed, 28 Jun 2017 05:03:25: 3000000 INFO @ Wed, 28 Jun 2017 05:03:31: 4000000 INFO @ Wed, 28 Jun 2017 05:03:31: 4000000 INFO @ Wed, 28 Jun 2017 05:03:32: 4000000 INFO @ Wed, 28 Jun 2017 05:03:37: 5000000 INFO @ Wed, 28 Jun 2017 05:03:38: 5000000 INFO @ Wed, 28 Jun 2017 05:03:40: 5000000 INFO @ Wed, 28 Jun 2017 05:03:43: 6000000 INFO @ Wed, 28 Jun 2017 05:03:45: 6000000 INFO @ Wed, 28 Jun 2017 05:03:47: 6000000 INFO @ Wed, 28 Jun 2017 05:03:47: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 05:03:47: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 05:03:47: #1 total tags in treatment: 6643431 INFO @ Wed, 28 Jun 2017 05:03:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:03:47: #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 05:03:48: #1 tags after filtering in treatment: 6643431 INFO @ Wed, 28 Jun 2017 05:03:48: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:03:48: #1 finished! INFO @ Wed, 28 Jun 2017 05:03:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:03:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:03:48: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:03:48: 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 05:03:48: Process for pairing-model is terminated! cat: SRX1305408.20_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 `SRX1305408.20_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 `SRX1305408.20_*.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 `SRX1305408.20_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 05:03:49: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 05:03:49: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 05:03:49: #1 total tags in treatment: 6643431 INFO @ Wed, 28 Jun 2017 05:03:49: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:03:49: #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 05:03:49: #1 tags after filtering in treatment: 6643431 INFO @ Wed, 28 Jun 2017 05:03:49: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:03:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:03:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:03:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:03:50: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:03:50: 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 05:03:50: Process for pairing-model is terminated! cat: SRX1305408.05_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 `SRX1305408.05_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 `SRX1305408.05_*.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 `SRX1305408.05_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 05:03:52: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 05:03:52: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 05:03:52: #1 total tags in treatment: 6643431 INFO @ Wed, 28 Jun 2017 05:03:52: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:03:52: #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 05:03:52: #1 tags after filtering in treatment: 6643431 INFO @ Wed, 28 Jun 2017 05:03:52: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 05:03:52: #1 finished! INFO @ Wed, 28 Jun 2017 05:03:52: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:03:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:03:52: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:03:52: 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 05:03:52: Process for pairing-model is terminated! cat: SRX1305408.10_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 `SRX1305408.10_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 `SRX1305408.10_*.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 `SRX1305408.10_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。