Job ID = 9161773 sra ファイルのダウンロード中... Completed: 563351K bytes transferred in 8 seconds (570119K 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 23686796 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1038540/SRR2040163.sra Written 23686796 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: 00:04:32 23686796 reads; of these: 23686796 (100.00%) were unpaired; of these: 1707504 (7.21%) aligned 0 times 19345488 (81.67%) aligned exactly 1 time 2633804 (11.12%) aligned >1 times 92.79% overall alignment rate Time searching: 00:04:32 Overall time: 00:04:32 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 12 files... [bam_rmdupse_core] 9226312 / 21979292 = 0.4198 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 04:42:53: # Command line: callpeak -t SRX1038540.bam -f BAM -g 12100000 -n SRX1038540.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1038540.20 # format = BAM # ChIP-seq file = ['SRX1038540.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 04:42:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:42:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:42:53: # Command line: callpeak -t SRX1038540.bam -f BAM -g 12100000 -n SRX1038540.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1038540.05 # format = BAM # ChIP-seq file = ['SRX1038540.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 04:42:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:42:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:42:53: # Command line: callpeak -t SRX1038540.bam -f BAM -g 12100000 -n SRX1038540.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1038540.10 # format = BAM # ChIP-seq file = ['SRX1038540.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 04:42:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:42:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:43:00: 1000000 INFO @ Wed, 28 Jun 2017 04:43:00: 1000000 INFO @ Wed, 28 Jun 2017 04:43:01: 1000000 INFO @ Wed, 28 Jun 2017 04:43:08: 2000000 INFO @ Wed, 28 Jun 2017 04:43:08: 2000000 INFO @ Wed, 28 Jun 2017 04:43:09: 2000000 INFO @ Wed, 28 Jun 2017 04:43:16: 3000000 INFO @ Wed, 28 Jun 2017 04:43:16: 3000000 INFO @ Wed, 28 Jun 2017 04:43:17: 3000000 INFO @ Wed, 28 Jun 2017 04:43:24: 4000000 INFO @ Wed, 28 Jun 2017 04:43:24: 4000000 INFO @ Wed, 28 Jun 2017 04:43:25: 4000000 INFO @ Wed, 28 Jun 2017 04:43:33: 5000000 INFO @ Wed, 28 Jun 2017 04:43:33: 5000000 INFO @ Wed, 28 Jun 2017 04:43:34: 5000000 INFO @ Wed, 28 Jun 2017 04:43:43: 6000000 INFO @ Wed, 28 Jun 2017 04:43:43: 6000000 INFO @ Wed, 28 Jun 2017 04:43:43: 6000000 INFO @ Wed, 28 Jun 2017 04:43:52: 7000000 INFO @ Wed, 28 Jun 2017 04:43:52: 7000000 INFO @ Wed, 28 Jun 2017 04:43:53: 7000000 INFO @ Wed, 28 Jun 2017 04:44:01: 8000000 INFO @ Wed, 28 Jun 2017 04:44:01: 8000000 INFO @ Wed, 28 Jun 2017 04:44:02: 8000000 INFO @ Wed, 28 Jun 2017 04:44:11: 9000000 INFO @ Wed, 28 Jun 2017 04:44:11: 9000000 INFO @ Wed, 28 Jun 2017 04:44:11: 9000000 INFO @ Wed, 28 Jun 2017 04:44:20: 10000000 INFO @ Wed, 28 Jun 2017 04:44:20: 10000000 INFO @ Wed, 28 Jun 2017 04:44:21: 10000000 INFO @ Wed, 28 Jun 2017 04:44:29: 11000000 INFO @ Wed, 28 Jun 2017 04:44:29: 11000000 INFO @ Wed, 28 Jun 2017 04:44:30: 11000000 INFO @ Wed, 28 Jun 2017 04:44:37: 12000000 INFO @ Wed, 28 Jun 2017 04:44:37: 12000000 INFO @ Wed, 28 Jun 2017 04:44:38: 12000000 INFO @ Wed, 28 Jun 2017 04:44:43: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:44:43: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:44:43: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:44:43: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:44:43: #1 total tags in treatment: 12752980 INFO @ Wed, 28 Jun 2017 04:44:43: #1 total tags in treatment: 12752980 INFO @ Wed, 28 Jun 2017 04:44:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:44:43: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:44:43: #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 04:44:43: #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 04:44:43: #1 tags after filtering in treatment: 12752980 INFO @ Wed, 28 Jun 2017 04:44:43: #1 tags after filtering in treatment: 12752980 INFO @ Wed, 28 Jun 2017 04:44:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:44:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:44:43: #1 finished! INFO @ Wed, 28 Jun 2017 04:44:43: #1 finished! INFO @ Wed, 28 Jun 2017 04:44:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:44:43: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:44:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:44:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:44:44: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:44:44: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:44:44: #1 total tags in treatment: 12752980 INFO @ Wed, 28 Jun 2017 04:44:44: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:44:44: #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 04:44:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:44:44: 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 04:44:44: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 04:44:44: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:44:44: 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 04:44:44: Process for pairing-model is terminated! cat: SRX1038540.10_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 cat: SRX1038540.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1038540.10_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 `SRX1038540.10_*.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 `SRX1038540.10_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1038540.05_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 `SRX1038540.05_*.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 `SRX1038540.05_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 04:44:44: #1 tags after filtering in treatment: 12752980 INFO @ Wed, 28 Jun 2017 04:44:44: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:44:44: #1 finished! INFO @ Wed, 28 Jun 2017 04:44:44: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:44:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:44:45: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:44:45: 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 04:44:45: Process for pairing-model is terminated! cat: SRX1038540.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1038540.20_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 `SRX1038540.20_*.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 `SRX1038540.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。