Job ID = 11162575 sra ファイルのダウンロード中... Completed: 631969K bytes transferred in 8 seconds (592420K 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 19244801 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585189/SRR6495889.sra Written 19244801 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585189/SRR6495889.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: 00:03:38 19244801 reads; of these: 19244801 (100.00%) were unpaired; of these: 2175795 (11.31%) aligned 0 times 14951004 (77.69%) aligned exactly 1 time 2118002 (11.01%) aligned >1 times 88.69% overall alignment rate Time searching: 00:03:38 Overall time: 00:03:38 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] 6601735 / 17069006 = 0.3868 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 10:14:26: # Command line: callpeak -t SRX3585189.bam -f BAM -g 12100000 -n SRX3585189.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585189.10 # format = BAM # ChIP-seq file = ['SRX3585189.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 10:14:26: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:14:26: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:14:26: # Command line: callpeak -t SRX3585189.bam -f BAM -g 12100000 -n SRX3585189.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585189.20 # format = BAM # ChIP-seq file = ['SRX3585189.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 10:14:26: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:14:26: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:14:26: # Command line: callpeak -t SRX3585189.bam -f BAM -g 12100000 -n SRX3585189.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585189.05 # format = BAM # ChIP-seq file = ['SRX3585189.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 10:14:26: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:14:26: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:14:33: 1000000 INFO @ Wed, 05 Sep 2018 10:14:34: 1000000 INFO @ Wed, 05 Sep 2018 10:14:34: 1000000 INFO @ Wed, 05 Sep 2018 10:14:40: 2000000 INFO @ Wed, 05 Sep 2018 10:14:41: 2000000 INFO @ Wed, 05 Sep 2018 10:14:41: 2000000 INFO @ Wed, 05 Sep 2018 10:14:47: 3000000 INFO @ Wed, 05 Sep 2018 10:14:49: 3000000 INFO @ Wed, 05 Sep 2018 10:14:49: 3000000 INFO @ Wed, 05 Sep 2018 10:14:54: 4000000 INFO @ Wed, 05 Sep 2018 10:14:56: 4000000 INFO @ Wed, 05 Sep 2018 10:14:57: 4000000 INFO @ Wed, 05 Sep 2018 10:15:01: 5000000 INFO @ Wed, 05 Sep 2018 10:15:04: 5000000 INFO @ Wed, 05 Sep 2018 10:15:04: 5000000 INFO @ Wed, 05 Sep 2018 10:15:08: 6000000 INFO @ Wed, 05 Sep 2018 10:15:12: 6000000 INFO @ Wed, 05 Sep 2018 10:15:12: 6000000 INFO @ Wed, 05 Sep 2018 10:15:15: 7000000 INFO @ Wed, 05 Sep 2018 10:15:19: 7000000 INFO @ Wed, 05 Sep 2018 10:15:20: 7000000 INFO @ Wed, 05 Sep 2018 10:15:22: 8000000 INFO @ Wed, 05 Sep 2018 10:15:27: 8000000 INFO @ Wed, 05 Sep 2018 10:15:28: 8000000 INFO @ Wed, 05 Sep 2018 10:15:29: 9000000 INFO @ Wed, 05 Sep 2018 10:15:35: 9000000 INFO @ Wed, 05 Sep 2018 10:15:36: 10000000 INFO @ Wed, 05 Sep 2018 10:15:36: 9000000 INFO @ Wed, 05 Sep 2018 10:15:39: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:15:39: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:15:39: #1 total tags in treatment: 10467271 INFO @ Wed, 05 Sep 2018 10:15:39: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:15:39: #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 10:15:39: #1 tags after filtering in treatment: 10467271 INFO @ Wed, 05 Sep 2018 10:15:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:15:39: #1 finished! INFO @ Wed, 05 Sep 2018 10:15:39: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:15:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:15:40: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:15:40: 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 10:15:40: Process for pairing-model is terminated! cat: SRX3585189.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585189.10_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 `SRX3585189.10_*.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 `SRX3585189.10_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 10:15:42: 10000000 INFO @ Wed, 05 Sep 2018 10:15:44: 10000000 INFO @ Wed, 05 Sep 2018 10:15:46: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:15:46: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:15:46: #1 total tags in treatment: 10467271 INFO @ Wed, 05 Sep 2018 10:15:46: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:15:46: #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 10:15:46: #1 tags after filtering in treatment: 10467271 INFO @ Wed, 05 Sep 2018 10:15:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:15:46: #1 finished! INFO @ Wed, 05 Sep 2018 10:15:46: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:15:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:15:47: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:15:47: 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 10:15:47: Process for pairing-model is terminated! cat: SRX3585189.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585189.20_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 `SRX3585189.20_*.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 `SRX3585189.20_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 10:15:48: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:15:48: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:15:48: #1 total tags in treatment: 10467271 INFO @ Wed, 05 Sep 2018 10:15:48: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:15:48: #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 10:15:48: #1 tags after filtering in treatment: 10467271 INFO @ Wed, 05 Sep 2018 10:15:48: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:15:48: #1 finished! INFO @ Wed, 05 Sep 2018 10:15:48: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:15:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:15:49: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:15:49: 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 10:15:49: Process for pairing-model is terminated! cat: SRX3585189.05_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 `SRX3585189.05_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 `SRX3585189.05_*.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 `SRX3585189.05_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。