Job ID = 9161737 sra ファイルのダウンロード中... Completed: 533805K bytes transferred in 8 seconds (528531K 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 21617592 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1004441/SRR1986259.sra Written 21617592 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: 00:04:05 21617592 reads; of these: 21617592 (100.00%) were unpaired; of these: 669614 (3.10%) aligned 0 times 18358607 (84.92%) aligned exactly 1 time 2589371 (11.98%) aligned >1 times 96.90% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 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] 13789115 / 20947978 = 0.6583 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 04:35:33: # Command line: callpeak -t SRX1004441.bam -f BAM -g 12100000 -n SRX1004441.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1004441.20 # format = BAM # ChIP-seq file = ['SRX1004441.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 04:35:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:35:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:35:33: # Command line: callpeak -t SRX1004441.bam -f BAM -g 12100000 -n SRX1004441.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1004441.10 # format = BAM # ChIP-seq file = ['SRX1004441.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 04:35:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:35:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:35:33: # Command line: callpeak -t SRX1004441.bam -f BAM -g 12100000 -n SRX1004441.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1004441.05 # format = BAM # ChIP-seq file = ['SRX1004441.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 04:35:33: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:35:33: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:35:40: 1000000 INFO @ Wed, 28 Jun 2017 04:35:40: 1000000 INFO @ Wed, 28 Jun 2017 04:35:40: 1000000 INFO @ Wed, 28 Jun 2017 04:35:46: 2000000 INFO @ Wed, 28 Jun 2017 04:35:47: 2000000 INFO @ Wed, 28 Jun 2017 04:35:47: 2000000 INFO @ Wed, 28 Jun 2017 04:35:52: 3000000 INFO @ Wed, 28 Jun 2017 04:35:54: 3000000 INFO @ Wed, 28 Jun 2017 04:35:54: 3000000 INFO @ Wed, 28 Jun 2017 04:35:59: 4000000 INFO @ Wed, 28 Jun 2017 04:36:01: 4000000 INFO @ Wed, 28 Jun 2017 04:36:01: 4000000 INFO @ Wed, 28 Jun 2017 04:36:05: 5000000 INFO @ Wed, 28 Jun 2017 04:36:08: 5000000 INFO @ Wed, 28 Jun 2017 04:36:08: 5000000 INFO @ Wed, 28 Jun 2017 04:36:12: 6000000 INFO @ Wed, 28 Jun 2017 04:36:16: 6000000 INFO @ Wed, 28 Jun 2017 04:36:16: 6000000 INFO @ Wed, 28 Jun 2017 04:36:19: 7000000 INFO @ Wed, 28 Jun 2017 04:36:20: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:36:20: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:36:20: #1 total tags in treatment: 7158863 INFO @ Wed, 28 Jun 2017 04:36:20: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:36:20: #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 04:36:21: #1 tags after filtering in treatment: 7158863 INFO @ Wed, 28 Jun 2017 04:36:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:36:21: #1 finished! INFO @ Wed, 28 Jun 2017 04:36:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:36:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:36:21: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:36:21: 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 04:36:21: Process for pairing-model is terminated! cat: SRX1004441.20_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 `SRX1004441.20_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 `SRX1004441.20_*.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 `SRX1004441.20_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 04:36:25: 7000000 INFO @ Wed, 28 Jun 2017 04:36:25: 7000000 INFO @ Wed, 28 Jun 2017 04:36:26: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:36:26: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:36:26: #1 total tags in treatment: 7158863 INFO @ Wed, 28 Jun 2017 04:36:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:36:26: #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 04:36:26: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 04:36:26: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 04:36:26: #1 total tags in treatment: 7158863 INFO @ Wed, 28 Jun 2017 04:36:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:36:26: #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 04:36:26: #1 tags after filtering in treatment: 7158863 INFO @ Wed, 28 Jun 2017 04:36:26: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:36:26: #1 finished! INFO @ Wed, 28 Jun 2017 04:36:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:36:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:36:26: #1 tags after filtering in treatment: 7158863 INFO @ Wed, 28 Jun 2017 04:36:26: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:36:26: #1 finished! INFO @ Wed, 28 Jun 2017 04:36:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:36:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:36:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:36:27: 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 04:36:27: Process for pairing-model is terminated! cat: SRX1004441.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 04:36:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:36:27: 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 04:36:27: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) cat: SRX1004441.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません rm: cannot remove `SRX1004441.10_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 `SRX1004441.10_*.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 `SRX1004441.10_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 `SRX1004441.05_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 `SRX1004441.05_*.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 `SRX1004441.05_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。