Job ID = 9162351 sra ファイルのダウンロード中... Completed: 645351K bytes transferred in 8 seconds (619418K 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 19785498 spots for /home/okishinya/chipatlas/results/sacCer3/SRX211418/SRR636669.sra Written 19785498 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: 00:04:07 19785498 reads; of these: 19785498 (100.00%) were unpaired; of these: 2388381 (12.07%) aligned 0 times 14485311 (73.21%) aligned exactly 1 time 2911806 (14.72%) aligned >1 times 87.93% overall alignment rate Time searching: 00:04:07 Overall time: 00:04:07 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] 12599268 / 17397117 = 0.7242 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 07:36:57: # Command line: callpeak -t SRX211418.bam -f BAM -g 12100000 -n SRX211418.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX211418.20 # format = BAM # ChIP-seq file = ['SRX211418.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 07:36:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:36:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:36:57: # Command line: callpeak -t SRX211418.bam -f BAM -g 12100000 -n SRX211418.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX211418.10 # format = BAM # ChIP-seq file = ['SRX211418.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 07:36:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:36:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:36:57: # Command line: callpeak -t SRX211418.bam -f BAM -g 12100000 -n SRX211418.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX211418.05 # format = BAM # ChIP-seq file = ['SRX211418.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 07:36:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:36:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:37:04: 1000000 INFO @ Wed, 28 Jun 2017 07:37:04: 1000000 INFO @ Wed, 28 Jun 2017 07:37:04: 1000000 INFO @ Wed, 28 Jun 2017 07:37:11: 2000000 INFO @ Wed, 28 Jun 2017 07:37:12: 2000000 INFO @ Wed, 28 Jun 2017 07:37:12: 2000000 INFO @ Wed, 28 Jun 2017 07:37:18: 3000000 INFO @ Wed, 28 Jun 2017 07:37:18: 3000000 INFO @ Wed, 28 Jun 2017 07:37:19: 3000000 INFO @ Wed, 28 Jun 2017 07:37:25: 4000000 INFO @ Wed, 28 Jun 2017 07:37:25: 4000000 INFO @ Wed, 28 Jun 2017 07:37:25: 4000000 INFO @ Wed, 28 Jun 2017 07:37:30: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:37:30: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:37:30: #1 total tags in treatment: 4797849 INFO @ Wed, 28 Jun 2017 07:37:30: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:37:30: #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 07:37:30: #1 tags after filtering in treatment: 4797849 INFO @ Wed, 28 Jun 2017 07:37:30: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:37:30: #1 finished! INFO @ Wed, 28 Jun 2017 07:37:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:37:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:37:30: #2 number of paired peaks: 27 WARNING @ Wed, 28 Jun 2017 07:37:30: Too few paired peaks (27) 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 07:37:30: Process for pairing-model is terminated! cat: SRX211418.20_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 `SRX211418.20_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 `SRX211418.20_*.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 `SRX211418.20_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 07:37:31: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:37:31: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:37:31: #1 total tags in treatment: 4797849 INFO @ Wed, 28 Jun 2017 07:37:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:37:31: #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 07:37:31: #1 tags after filtering in treatment: 4797849 INFO @ Wed, 28 Jun 2017 07:37:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:37:31: #1 finished! INFO @ Wed, 28 Jun 2017 07:37:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:37:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:37:31: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:37:31: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:37:31: #1 total tags in treatment: 4797849 INFO @ Wed, 28 Jun 2017 07:37:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:37:31: #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 07:37:31: #1 tags after filtering in treatment: 4797849 INFO @ Wed, 28 Jun 2017 07:37:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:37:31: #1 finished! INFO @ Wed, 28 Jun 2017 07:37:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:37:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:37:31: #2 number of paired peaks: 27 WARNING @ Wed, 28 Jun 2017 07:37:31: Too few paired peaks (27) 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 07:37:31: Process for pairing-model is terminated! cat: SRX211418.10_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 `SRX211418.10_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 `SRX211418.10_*.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 `SRX211418.10_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 07:37:31: #2 number of paired peaks: 27 WARNING @ Wed, 28 Jun 2017 07:37:31: Too few paired peaks (27) 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 07:37:31: Process for pairing-model is terminated! cat: SRX211418.05_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 `SRX211418.05_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 `SRX211418.05_*.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 `SRX211418.05_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。