Job ID = 9163461 sra ファイルのダウンロード中... Completed: 328071K bytes transferred in 6 seconds (415305K 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 12810866 spots for /home/okishinya/chipatlas/results/sacCer3/SRX717527/SRR1593222.sra Written 12810866 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: 00:02:01 12810866 reads; of these: 12810866 (100.00%) were unpaired; of these: 753242 (5.88%) aligned 0 times 10193568 (79.57%) aligned exactly 1 time 1864056 (14.55%) aligned >1 times 94.12% overall alignment rate Time searching: 00:02:01 Overall time: 00:02:01 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] 6814291 / 12057624 = 0.5651 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 10:49:34: # Command line: callpeak -t SRX717527.bam -f BAM -g 12100000 -n SRX717527.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX717527.10 # format = BAM # ChIP-seq file = ['SRX717527.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 10:49:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:49:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:49:34: # Command line: callpeak -t SRX717527.bam -f BAM -g 12100000 -n SRX717527.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX717527.05 # format = BAM # ChIP-seq file = ['SRX717527.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 10:49:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:49:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:49:34: # Command line: callpeak -t SRX717527.bam -f BAM -g 12100000 -n SRX717527.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX717527.20 # format = BAM # ChIP-seq file = ['SRX717527.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 10:49:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:49:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:49:42: 1000000 INFO @ Wed, 28 Jun 2017 10:49:42: 1000000 INFO @ Wed, 28 Jun 2017 10:49:42: 1000000 INFO @ Wed, 28 Jun 2017 10:49:49: 2000000 INFO @ Wed, 28 Jun 2017 10:49:51: 2000000 INFO @ Wed, 28 Jun 2017 10:49:51: 2000000 INFO @ Wed, 28 Jun 2017 10:49:57: 3000000 INFO @ Wed, 28 Jun 2017 10:49:59: 3000000 INFO @ Wed, 28 Jun 2017 10:49:59: 3000000 INFO @ Wed, 28 Jun 2017 10:50:05: 4000000 INFO @ Wed, 28 Jun 2017 10:50:07: 4000000 INFO @ Wed, 28 Jun 2017 10:50:07: 4000000 INFO @ Wed, 28 Jun 2017 10:50:14: 5000000 INFO @ Wed, 28 Jun 2017 10:50:15: 5000000 INFO @ Wed, 28 Jun 2017 10:50:15: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:50:15: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:50:15: #1 total tags in treatment: 5243333 INFO @ Wed, 28 Jun 2017 10:50:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:50:15: #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 10:50:15: #1 tags after filtering in treatment: 5243333 INFO @ Wed, 28 Jun 2017 10:50:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:50:15: #1 finished! INFO @ Wed, 28 Jun 2017 10:50:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:50:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:50:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:50:16: 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 10:50:16: Process for pairing-model is terminated! cat: SRX717527.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX717527.10_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 `SRX717527.10_*.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 `SRX717527.10_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 10:50:16: 5000000 INFO @ Wed, 28 Jun 2017 10:50:16: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:50:16: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:50:16: #1 total tags in treatment: 5243333 INFO @ Wed, 28 Jun 2017 10:50:16: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:50:16: #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 10:50:16: #1 tags after filtering in treatment: 5243333 INFO @ Wed, 28 Jun 2017 10:50:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:50:16: #1 finished! INFO @ Wed, 28 Jun 2017 10:50:16: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:50:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:50:17: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:50:17: 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 10:50:17: Process for pairing-model is terminated! cat: SRX717527.20_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 `SRX717527.20_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 `SRX717527.20_*.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 `SRX717527.20_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 10:50:18: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:50:18: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:50:18: #1 total tags in treatment: 5243333 INFO @ Wed, 28 Jun 2017 10:50:18: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:50:18: #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 10:50:18: #1 tags after filtering in treatment: 5243333 INFO @ Wed, 28 Jun 2017 10:50:18: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:50:18: #1 finished! INFO @ Wed, 28 Jun 2017 10:50:18: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:50:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:50:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:50:18: 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 10:50:18: Process for pairing-model is terminated! cat: SRX717527.05_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 `SRX717527.05_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 `SRX717527.05_*.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 `SRX717527.05_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。