Job ID = 9163625 sra ファイルのダウンロード中... Completed: 536513K bytes transferred in 7 seconds (559716K bits/sec), in 2 files, 3 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 8628376 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974674/SRR1948306.sra Written 8628376 spots total Written 8833853 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974674/SRR1948307.sra Written 8833853 spots total 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: 00:03:27 17462229 reads; of these: 17462229 (100.00%) were unpaired; of these: 350489 (2.01%) aligned 0 times 14768949 (84.58%) aligned exactly 1 time 2342791 (13.42%) aligned >1 times 97.99% overall alignment rate Time searching: 00:03:27 Overall time: 00:03:27 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] 8110192 / 17111740 = 0.4740 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 11:15:21: # Command line: callpeak -t SRX974674.bam -f BAM -g 12100000 -n SRX974674.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX974674.10 # format = BAM # ChIP-seq file = ['SRX974674.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 11:15:21: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:15:21: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:15:21: # Command line: callpeak -t SRX974674.bam -f BAM -g 12100000 -n SRX974674.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX974674.20 # format = BAM # ChIP-seq file = ['SRX974674.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 11:15:21: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:15:21: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:15:21: # Command line: callpeak -t SRX974674.bam -f BAM -g 12100000 -n SRX974674.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX974674.05 # format = BAM # ChIP-seq file = ['SRX974674.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 11:15:21: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:15:21: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:15:27: 1000000 INFO @ Wed, 28 Jun 2017 11:15:28: 1000000 INFO @ Wed, 28 Jun 2017 11:15:28: 1000000 INFO @ Wed, 28 Jun 2017 11:15:34: 2000000 INFO @ Wed, 28 Jun 2017 11:15:34: 2000000 INFO @ Wed, 28 Jun 2017 11:15:34: 2000000 INFO @ Wed, 28 Jun 2017 11:15:40: 3000000 INFO @ Wed, 28 Jun 2017 11:15:41: 3000000 INFO @ Wed, 28 Jun 2017 11:15:41: 3000000 INFO @ Wed, 28 Jun 2017 11:15:46: 4000000 INFO @ Wed, 28 Jun 2017 11:15:47: 4000000 INFO @ Wed, 28 Jun 2017 11:15:48: 4000000 INFO @ Wed, 28 Jun 2017 11:15:52: 5000000 INFO @ Wed, 28 Jun 2017 11:15:54: 5000000 INFO @ Wed, 28 Jun 2017 11:15:55: 5000000 INFO @ Wed, 28 Jun 2017 11:15:58: 6000000 INFO @ Wed, 28 Jun 2017 11:16:01: 6000000 INFO @ Wed, 28 Jun 2017 11:16:02: 6000000 INFO @ Wed, 28 Jun 2017 11:16:04: 7000000 INFO @ Wed, 28 Jun 2017 11:16:08: 7000000 INFO @ Wed, 28 Jun 2017 11:16:09: 7000000 INFO @ Wed, 28 Jun 2017 11:16:10: 8000000 INFO @ Wed, 28 Jun 2017 11:16:14: 8000000 INFO @ Wed, 28 Jun 2017 11:16:16: 9000000 INFO @ Wed, 28 Jun 2017 11:16:16: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:16:16: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:16:16: #1 total tags in treatment: 9001548 INFO @ Wed, 28 Jun 2017 11:16:16: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:16:16: #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 11:16:16: 8000000 INFO @ Wed, 28 Jun 2017 11:16:16: #1 tags after filtering in treatment: 9001548 INFO @ Wed, 28 Jun 2017 11:16:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:16:16: #1 finished! INFO @ Wed, 28 Jun 2017 11:16:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:16:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:16:17: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:16:17: 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 11:16:17: Process for pairing-model is terminated! cat: SRX974674.10_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 `SRX974674.10_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 `SRX974674.10_*.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 `SRX974674.10_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 11:16:21: 9000000 INFO @ Wed, 28 Jun 2017 11:16:21: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:16:21: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:16:21: #1 total tags in treatment: 9001548 INFO @ Wed, 28 Jun 2017 11:16:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:16:21: #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 11:16:21: #1 tags after filtering in treatment: 9001548 INFO @ Wed, 28 Jun 2017 11:16:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:16:21: #1 finished! INFO @ Wed, 28 Jun 2017 11:16:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:16:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:16:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:16:22: 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 11:16:22: Process for pairing-model is terminated! cat: SRX974674.20_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 `SRX974674.20_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 `SRX974674.20_*.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 `SRX974674.20_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 11:16:23: 9000000 INFO @ Wed, 28 Jun 2017 11:16:23: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:16:23: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:16:23: #1 total tags in treatment: 9001548 INFO @ Wed, 28 Jun 2017 11:16:23: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:16:23: #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 11:16:23: #1 tags after filtering in treatment: 9001548 INFO @ Wed, 28 Jun 2017 11:16:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:16:23: #1 finished! INFO @ Wed, 28 Jun 2017 11:16:23: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:16:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:16:24: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:16:24: 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 11:16:24: Process for pairing-model is terminated! cat: SRX974674.05_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 `SRX974674.05_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 `SRX974674.05_*.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 `SRX974674.05_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。