Job ID = 9162332 sra ファイルのダウンロード中... Completed: 320128K bytes transferred in 6 seconds (419612K 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 14146276 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2007807/SRR4011717.sra Written 14146276 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: 00:02:33 14146276 reads; of these: 14146276 (100.00%) were unpaired; of these: 710793 (5.02%) aligned 0 times 11670788 (82.50%) aligned exactly 1 time 1764695 (12.47%) aligned >1 times 94.98% overall alignment rate Time searching: 00:02:33 Overall time: 00:02:33 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] 7785310 / 13435483 = 0.5795 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 07:28:05: # Command line: callpeak -t SRX2007807.bam -f BAM -g 12100000 -n SRX2007807.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2007807.20 # format = BAM # ChIP-seq file = ['SRX2007807.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 07:28:05: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:28:05: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:28:05: # Command line: callpeak -t SRX2007807.bam -f BAM -g 12100000 -n SRX2007807.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2007807.05 # format = BAM # ChIP-seq file = ['SRX2007807.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 07:28:05: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:28:05: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:28:05: # Command line: callpeak -t SRX2007807.bam -f BAM -g 12100000 -n SRX2007807.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2007807.10 # format = BAM # ChIP-seq file = ['SRX2007807.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 07:28:05: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:28:05: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:28:11: 1000000 INFO @ Wed, 28 Jun 2017 07:28:11: 1000000 INFO @ Wed, 28 Jun 2017 07:28:12: 1000000 INFO @ Wed, 28 Jun 2017 07:28:17: 2000000 INFO @ Wed, 28 Jun 2017 07:28:17: 2000000 INFO @ Wed, 28 Jun 2017 07:28:18: 2000000 INFO @ Wed, 28 Jun 2017 07:28:23: 3000000 INFO @ Wed, 28 Jun 2017 07:28:23: 3000000 INFO @ Wed, 28 Jun 2017 07:28:25: 3000000 INFO @ Wed, 28 Jun 2017 07:28:29: 4000000 INFO @ Wed, 28 Jun 2017 07:28:30: 4000000 INFO @ Wed, 28 Jun 2017 07:28:32: 4000000 INFO @ Wed, 28 Jun 2017 07:28:35: 5000000 INFO @ Wed, 28 Jun 2017 07:28:36: 5000000 INFO @ Wed, 28 Jun 2017 07:28:38: 5000000 INFO @ Wed, 28 Jun 2017 07:28:40: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:28:40: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:28:40: #1 total tags in treatment: 5650173 INFO @ Wed, 28 Jun 2017 07:28:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:28:40: #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 07:28:40: #1 tags after filtering in treatment: 5650173 INFO @ Wed, 28 Jun 2017 07:28:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:28:40: #1 finished! INFO @ Wed, 28 Jun 2017 07:28:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:28:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:28:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:28:40: 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 07:28:40: Process for pairing-model is terminated! cat: SRX2007807.05_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 `SRX2007807.05_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 `SRX2007807.05_*.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 `SRX2007807.05_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 07:28:40: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:28:40: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:28:40: #1 total tags in treatment: 5650173 INFO @ Wed, 28 Jun 2017 07:28:40: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:28:40: #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 07:28:40: #1 tags after filtering in treatment: 5650173 INFO @ Wed, 28 Jun 2017 07:28:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:28:40: #1 finished! INFO @ Wed, 28 Jun 2017 07:28:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:28:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:28:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:28:41: 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 07:28:41: Process for pairing-model is terminated! cat: SRX2007807.20_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 `SRX2007807.20_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 `SRX2007807.20_*.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 `SRX2007807.20_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 07:28:43: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:28:43: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:28:43: #1 total tags in treatment: 5650173 INFO @ Wed, 28 Jun 2017 07:28:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:28:43: #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 07:28:43: #1 tags after filtering in treatment: 5650173 INFO @ Wed, 28 Jun 2017 07:28:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:28:43: #1 finished! INFO @ Wed, 28 Jun 2017 07:28:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:28:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:28:43: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:28:43: 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 07:28:43: Process for pairing-model is terminated! cat: SRX2007807.10_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 `SRX2007807.10_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 `SRX2007807.10_*.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 `SRX2007807.10_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。