Job ID = 9161771 sra ファイルのダウンロード中... Completed: 250850K bytes transferred in 5 seconds (377695K 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 7819071 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1038538/SRR2040161.sra Written 7819071 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: 00:01:22 7819071 reads; of these: 7819071 (100.00%) were unpaired; of these: 384605 (4.92%) aligned 0 times 5763966 (73.72%) aligned exactly 1 time 1670500 (21.36%) aligned >1 times 95.08% overall alignment rate Time searching: 00:01:22 Overall time: 00:01:22 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_rmdupse_core] 3372391 / 7434466 = 0.4536 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 04:34:46: # Command line: callpeak -t SRX1038538.bam -f BAM -g 12100000 -n SRX1038538.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1038538.05 # format = BAM # ChIP-seq file = ['SRX1038538.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 04:34:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:34:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:34:46: # Command line: callpeak -t SRX1038538.bam -f BAM -g 12100000 -n SRX1038538.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1038538.10 # format = BAM # ChIP-seq file = ['SRX1038538.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 04:34:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:34:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:34:46: # Command line: callpeak -t SRX1038538.bam -f BAM -g 12100000 -n SRX1038538.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1038538.20 # format = BAM # ChIP-seq file = ['SRX1038538.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 04:34:46: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:34:46: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:34:53: 1000000 INFO @ Wed, 28 Jun 2017 04:34:53: 1000000 INFO @ Wed, 28 Jun 2017 04:34:53: 1000000 INFO @ Wed, 28 Jun 2017 04:35:00: 2000000 INFO @ Wed, 28 Jun 2017 04:35:01: 2000000 INFO @ Wed, 28 Jun 2017 04:35:01: 2000000 INFO @ Wed, 28 Jun 2017 04:35:07: 3000000 INFO @ Wed, 28 Jun 2017 04:35:09: 3000000 INFO @ Wed, 28 Jun 2017 04:35:09: 3000000 INFO @ Wed, 28 Jun 2017 04:35:14: 4000000 INFO @ Wed, 28 Jun 2017 04:35:14: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:35:14: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:35:14: #1 total tags in treatment: 4062075 INFO @ Wed, 28 Jun 2017 04:35:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:35:14: #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 04:35:14: #1 tags after filtering in treatment: 4062075 INFO @ Wed, 28 Jun 2017 04:35:14: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:35:14: #1 finished! INFO @ Wed, 28 Jun 2017 04:35:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:35:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:35:14: #2 number of paired peaks: 30 WARNING @ Wed, 28 Jun 2017 04:35:14: Too few paired peaks (30) 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 04:35:14: Process for pairing-model is terminated! cat: SRX1038538.20_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 `SRX1038538.20_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 `SRX1038538.20_*.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 `SRX1038538.20_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 04:35:16: 4000000 INFO @ Wed, 28 Jun 2017 04:35:16: 4000000 INFO @ Wed, 28 Jun 2017 04:35:16: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:35:16: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:35:16: #1 total tags in treatment: 4062075 INFO @ Wed, 28 Jun 2017 04:35:16: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:35:16: #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 04:35:16: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 04:35:16: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 04:35:16: #1 total tags in treatment: 4062075 INFO @ Wed, 28 Jun 2017 04:35:16: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:35:16: #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 04:35:16: #1 tags after filtering in treatment: 4062075 INFO @ Wed, 28 Jun 2017 04:35:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:35:16: #1 finished! INFO @ Wed, 28 Jun 2017 04:35:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:35:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:35:16: #1 tags after filtering in treatment: 4062075 INFO @ Wed, 28 Jun 2017 04:35:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:35:16: #1 finished! INFO @ Wed, 28 Jun 2017 04:35:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:35:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:35:17: #2 number of paired peaks: 30 WARNING @ Wed, 28 Jun 2017 04:35:17: Too few paired peaks (30) 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 04:35:17: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 04:35:17: #2 number of paired peaks: 30 WARNING @ Wed, 28 Jun 2017 04:35:17: Too few paired peaks (30) 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 04:35:17: Process for pairing-model is terminated! cat: SRX1038538.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1038538.05_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 `SRX1038538.10_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 `SRX1038538.10_*.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 `SRX1038538.10_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 `SRX1038538.05_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 `SRX1038538.05_*.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 `SRX1038538.05_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。