Job ID = 11162590 sra ファイルのダウンロード中... Completed: 799144K bytes transferred in 9 seconds (668784K bits/sec), in 1 file. 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... Read 25931657 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585201/SRR6495901.sra Written 25931657 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585201/SRR6495901.sra rm: cannot remove `[DSE]RX*': 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 `[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: 00:04:23 25931657 reads; of these: 25931657 (100.00%) were unpaired; of these: 6846307 (26.40%) aligned 0 times 17376699 (67.01%) aligned exactly 1 time 1708651 (6.59%) aligned >1 times 73.60% overall alignment rate Time searching: 00:04:23 Overall time: 00:04:23 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] 9902536 / 19085350 = 0.5189 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, 05 Sep 2018 10:22:37: # Command line: callpeak -t SRX3585201.bam -f BAM -g 12100000 -n SRX3585201.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585201.20 # format = BAM # ChIP-seq file = ['SRX3585201.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, 05 Sep 2018 10:22:37: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:22:37: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:22:37: # Command line: callpeak -t SRX3585201.bam -f BAM -g 12100000 -n SRX3585201.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585201.05 # format = BAM # ChIP-seq file = ['SRX3585201.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, 05 Sep 2018 10:22:37: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:22:37: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:22:37: # Command line: callpeak -t SRX3585201.bam -f BAM -g 12100000 -n SRX3585201.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585201.10 # format = BAM # ChIP-seq file = ['SRX3585201.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, 05 Sep 2018 10:22:37: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:22:37: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:22:44: 1000000 INFO @ Wed, 05 Sep 2018 10:22:45: 1000000 INFO @ Wed, 05 Sep 2018 10:22:45: 1000000 INFO @ Wed, 05 Sep 2018 10:22:52: 2000000 INFO @ Wed, 05 Sep 2018 10:22:53: 2000000 INFO @ Wed, 05 Sep 2018 10:22:53: 2000000 INFO @ Wed, 05 Sep 2018 10:22:59: 3000000 INFO @ Wed, 05 Sep 2018 10:23:01: 3000000 INFO @ Wed, 05 Sep 2018 10:23:01: 3000000 INFO @ Wed, 05 Sep 2018 10:23:07: 4000000 INFO @ Wed, 05 Sep 2018 10:23:09: 4000000 INFO @ Wed, 05 Sep 2018 10:23:10: 4000000 INFO @ Wed, 05 Sep 2018 10:23:14: 5000000 INFO @ Wed, 05 Sep 2018 10:23:17: 5000000 INFO @ Wed, 05 Sep 2018 10:23:18: 5000000 INFO @ Wed, 05 Sep 2018 10:23:22: 6000000 INFO @ Wed, 05 Sep 2018 10:23:25: 6000000 INFO @ Wed, 05 Sep 2018 10:23:26: 6000000 INFO @ Wed, 05 Sep 2018 10:23:29: 7000000 INFO @ Wed, 05 Sep 2018 10:23:33: 7000000 INFO @ Wed, 05 Sep 2018 10:23:35: 7000000 INFO @ Wed, 05 Sep 2018 10:23:37: 8000000 INFO @ Wed, 05 Sep 2018 10:23:42: 8000000 INFO @ Wed, 05 Sep 2018 10:23:43: 8000000 INFO @ Wed, 05 Sep 2018 10:23:44: 9000000 INFO @ Wed, 05 Sep 2018 10:23:46: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:23:46: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:23:46: #1 total tags in treatment: 9182814 INFO @ Wed, 05 Sep 2018 10:23:46: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:23:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:23:46: #1 tags after filtering in treatment: 9182814 INFO @ Wed, 05 Sep 2018 10:23:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:23:46: #1 finished! INFO @ Wed, 05 Sep 2018 10:23:46: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:23:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:23:46: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:23:46: 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, 05 Sep 2018 10:23:46: Process for pairing-model is terminated! cat: SRX3585201.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585201.20_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 `SRX3585201.20_*.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 `SRX3585201.20_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, 05 Sep 2018 10:23:50: 9000000 INFO @ Wed, 05 Sep 2018 10:23:51: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:23:51: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:23:51: #1 total tags in treatment: 9182814 INFO @ Wed, 05 Sep 2018 10:23:51: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:23:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:23:51: #1 tags after filtering in treatment: 9182814 INFO @ Wed, 05 Sep 2018 10:23:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:23:51: #1 finished! INFO @ Wed, 05 Sep 2018 10:23:51: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:23:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:23:51: 9000000 INFO @ Wed, 05 Sep 2018 10:23:52: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:23:52: 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, 05 Sep 2018 10:23:52: Process for pairing-model is terminated! cat: SRX3585201.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585201.10_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 `SRX3585201.10_*.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 `SRX3585201.10_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, 05 Sep 2018 10:23:53: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:23:53: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:23:53: #1 total tags in treatment: 9182814 INFO @ Wed, 05 Sep 2018 10:23:53: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:23:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:23:53: #1 tags after filtering in treatment: 9182814 INFO @ Wed, 05 Sep 2018 10:23:53: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:23:53: #1 finished! INFO @ Wed, 05 Sep 2018 10:23:53: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:23:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:23:53: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:23:53: 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, 05 Sep 2018 10:23:53: Process for pairing-model is terminated! cat: SRX3585201.05_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585201.05_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 `SRX3585201.05_*.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 `SRX3585201.05_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。