Job ID = 10488205 sra ファイルのダウンロード中... Completed: 343374K bytes transferred in 29 seconds (95585K 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... Written 14979417 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3188106/SRR6039978.sra Written 14979417 spots total 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: 00:02:35 14979417 reads; of these: 14979417 (100.00%) were unpaired; of these: 740434 (4.94%) aligned 0 times 12850245 (85.79%) aligned exactly 1 time 1388738 (9.27%) aligned >1 times 95.06% overall alignment rate Time searching: 00:02:35 Overall time: 00:02:35 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] 5193667 / 14238983 = 0.3647 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 @ Sun, 18 Mar 2018 12:21:26: # Command line: callpeak -t SRX3188106.bam -f BAM -g 12100000 -n SRX3188106.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3188106.20 # format = BAM # ChIP-seq file = ['SRX3188106.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 @ Sun, 18 Mar 2018 12:21:26: #1 read tag files... INFO @ Sun, 18 Mar 2018 12:21:26: #1 read treatment tags... INFO @ Sun, 18 Mar 2018 12:21:26: # Command line: callpeak -t SRX3188106.bam -f BAM -g 12100000 -n SRX3188106.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3188106.10 # format = BAM # ChIP-seq file = ['SRX3188106.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 @ Sun, 18 Mar 2018 12:21:26: #1 read tag files... INFO @ Sun, 18 Mar 2018 12:21:26: # Command line: callpeak -t SRX3188106.bam -f BAM -g 12100000 -n SRX3188106.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3188106.05 # format = BAM # ChIP-seq file = ['SRX3188106.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 @ Sun, 18 Mar 2018 12:21:26: #1 read treatment tags... INFO @ Sun, 18 Mar 2018 12:21:26: #1 read tag files... INFO @ Sun, 18 Mar 2018 12:21:26: #1 read treatment tags... INFO @ Sun, 18 Mar 2018 12:21:32: 1000000 INFO @ Sun, 18 Mar 2018 12:21:33: 1000000 INFO @ Sun, 18 Mar 2018 12:21:33: 1000000 INFO @ Sun, 18 Mar 2018 12:21:39: 2000000 INFO @ Sun, 18 Mar 2018 12:21:40: 2000000 INFO @ Sun, 18 Mar 2018 12:21:40: 2000000 INFO @ Sun, 18 Mar 2018 12:21:45: 3000000 INFO @ Sun, 18 Mar 2018 12:21:46: 3000000 INFO @ Sun, 18 Mar 2018 12:21:47: 3000000 INFO @ Sun, 18 Mar 2018 12:21:52: 4000000 INFO @ Sun, 18 Mar 2018 12:21:53: 4000000 INFO @ Sun, 18 Mar 2018 12:21:53: 4000000 INFO @ Sun, 18 Mar 2018 12:21:58: 5000000 INFO @ Sun, 18 Mar 2018 12:22:00: 5000000 INFO @ Sun, 18 Mar 2018 12:22:00: 5000000 INFO @ Sun, 18 Mar 2018 12:22:04: 6000000 INFO @ Sun, 18 Mar 2018 12:22:07: 6000000 INFO @ Sun, 18 Mar 2018 12:22:07: 6000000 INFO @ Sun, 18 Mar 2018 12:22:11: 7000000 INFO @ Sun, 18 Mar 2018 12:22:13: 7000000 INFO @ Sun, 18 Mar 2018 12:22:14: 7000000 INFO @ Sun, 18 Mar 2018 12:22:17: 8000000 INFO @ Sun, 18 Mar 2018 12:22:20: 8000000 INFO @ Sun, 18 Mar 2018 12:22:21: 8000000 INFO @ Sun, 18 Mar 2018 12:22:23: 9000000 INFO @ Sun, 18 Mar 2018 12:22:23: #1 tag size is determined as 51 bps INFO @ Sun, 18 Mar 2018 12:22:23: #1 tag size = 51 INFO @ Sun, 18 Mar 2018 12:22:23: #1 total tags in treatment: 9045316 INFO @ Sun, 18 Mar 2018 12:22:23: #1 user defined the maximum tags... INFO @ Sun, 18 Mar 2018 12:22:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 18 Mar 2018 12:22:24: #1 tags after filtering in treatment: 9045316 INFO @ Sun, 18 Mar 2018 12:22:24: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 18 Mar 2018 12:22:24: #1 finished! INFO @ Sun, 18 Mar 2018 12:22:24: #2 Build Peak Model... INFO @ Sun, 18 Mar 2018 12:22:24: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 18 Mar 2018 12:22:24: #2 number of paired peaks: 0 WARNING @ Sun, 18 Mar 2018 12:22:24: 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 @ Sun, 18 Mar 2018 12:22:24: Process for pairing-model is terminated! cat: SRX3188106.10_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3188106.10_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 `SRX3188106.10_*.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 `SRX3188106.10_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 @ Sun, 18 Mar 2018 12:22:27: 9000000 INFO @ Sun, 18 Mar 2018 12:22:27: #1 tag size is determined as 51 bps INFO @ Sun, 18 Mar 2018 12:22:27: #1 tag size = 51 INFO @ Sun, 18 Mar 2018 12:22:27: #1 total tags in treatment: 9045316 INFO @ Sun, 18 Mar 2018 12:22:27: #1 user defined the maximum tags... INFO @ Sun, 18 Mar 2018 12:22:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 18 Mar 2018 12:22:27: 9000000 INFO @ Sun, 18 Mar 2018 12:22:27: #1 tags after filtering in treatment: 9045316 INFO @ Sun, 18 Mar 2018 12:22:27: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 18 Mar 2018 12:22:27: #1 finished! INFO @ Sun, 18 Mar 2018 12:22:27: #2 Build Peak Model... INFO @ Sun, 18 Mar 2018 12:22:27: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 18 Mar 2018 12:22:28: #1 tag size is determined as 51 bps INFO @ Sun, 18 Mar 2018 12:22:28: #1 tag size = 51 INFO @ Sun, 18 Mar 2018 12:22:28: #1 total tags in treatment: 9045316 INFO @ Sun, 18 Mar 2018 12:22:28: #1 user defined the maximum tags... INFO @ Sun, 18 Mar 2018 12:22:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 18 Mar 2018 12:22:28: #1 tags after filtering in treatment: 9045316 INFO @ Sun, 18 Mar 2018 12:22:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 18 Mar 2018 12:22:28: #1 finished! INFO @ Sun, 18 Mar 2018 12:22:28: #2 Build Peak Model... INFO @ Sun, 18 Mar 2018 12:22:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 18 Mar 2018 12:22:28: #2 number of paired peaks: 0 WARNING @ Sun, 18 Mar 2018 12:22:28: 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 @ Sun, 18 Mar 2018 12:22:28: Process for pairing-model is terminated! cat: SRX3188106.20_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 `SRX3188106.20_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 `SRX3188106.20_*.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 `SRX3188106.20_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 @ Sun, 18 Mar 2018 12:22:28: #2 number of paired peaks: 0 WARNING @ Sun, 18 Mar 2018 12:22:28: 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 @ Sun, 18 Mar 2018 12:22:28: Process for pairing-model is terminated! cat: SRX3188106.05_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 `SRX3188106.05_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 `SRX3188106.05_*.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 `SRX3188106.05_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。