Job ID = 11192630 sra ファイルのダウンロード中... Completed: 500061K bytes transferred in 7 seconds (552962K 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 17234211 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143284/SRR2156296.sra Written 17234211 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143284/SRR2156296.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: 00:04:30 17234211 reads; of these: 17234211 (100.00%) were unpaired; of these: 1309399 (7.60%) aligned 0 times 13805436 (80.10%) aligned exactly 1 time 2119376 (12.30%) aligned >1 times 92.40% overall alignment rate Time searching: 00:04:30 Overall time: 00:04:30 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] 5804584 / 15924812 = 0.3645 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 @ Sat, 15 Sep 2018 09:46:06: # Command line: callpeak -t SRX1143284.bam -f BAM -g 12100000 -n SRX1143284.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1143284.05 # format = BAM # ChIP-seq file = ['SRX1143284.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 @ Sat, 15 Sep 2018 09:46:06: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:46:06: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:46:06: # Command line: callpeak -t SRX1143284.bam -f BAM -g 12100000 -n SRX1143284.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1143284.10 # format = BAM # ChIP-seq file = ['SRX1143284.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 @ Sat, 15 Sep 2018 09:46:06: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:46:06: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:46:06: # Command line: callpeak -t SRX1143284.bam -f BAM -g 12100000 -n SRX1143284.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1143284.20 # format = BAM # ChIP-seq file = ['SRX1143284.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 @ Sat, 15 Sep 2018 09:46:06: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:46:06: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:46:13: 1000000 INFO @ Sat, 15 Sep 2018 09:46:13: 1000000 INFO @ Sat, 15 Sep 2018 09:46:13: 1000000 INFO @ Sat, 15 Sep 2018 09:46:20: 2000000 INFO @ Sat, 15 Sep 2018 09:46:20: 2000000 INFO @ Sat, 15 Sep 2018 09:46:20: 2000000 INFO @ Sat, 15 Sep 2018 09:46:27: 3000000 INFO @ Sat, 15 Sep 2018 09:46:27: 3000000 INFO @ Sat, 15 Sep 2018 09:46:27: 3000000 INFO @ Sat, 15 Sep 2018 09:46:34: 4000000 INFO @ Sat, 15 Sep 2018 09:46:34: 4000000 INFO @ Sat, 15 Sep 2018 09:46:35: 4000000 INFO @ Sat, 15 Sep 2018 09:46:41: 5000000 INFO @ Sat, 15 Sep 2018 09:46:41: 5000000 INFO @ Sat, 15 Sep 2018 09:46:43: 5000000 INFO @ Sat, 15 Sep 2018 09:46:48: 6000000 INFO @ Sat, 15 Sep 2018 09:46:48: 6000000 INFO @ Sat, 15 Sep 2018 09:46:50: 6000000 INFO @ Sat, 15 Sep 2018 09:46:55: 7000000 INFO @ Sat, 15 Sep 2018 09:46:56: 7000000 INFO @ Sat, 15 Sep 2018 09:46:58: 7000000 INFO @ Sat, 15 Sep 2018 09:47:03: 8000000 INFO @ Sat, 15 Sep 2018 09:47:03: 8000000 INFO @ Sat, 15 Sep 2018 09:47:05: 8000000 INFO @ Sat, 15 Sep 2018 09:47:10: 9000000 INFO @ Sat, 15 Sep 2018 09:47:10: 9000000 INFO @ Sat, 15 Sep 2018 09:47:13: 9000000 INFO @ Sat, 15 Sep 2018 09:47:17: 10000000 INFO @ Sat, 15 Sep 2018 09:47:18: 10000000 INFO @ Sat, 15 Sep 2018 09:47:18: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:47:18: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:47:18: #1 total tags in treatment: 10120228 INFO @ Sat, 15 Sep 2018 09:47:18: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:47:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:47:18: #1 tags after filtering in treatment: 10120228 INFO @ Sat, 15 Sep 2018 09:47:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:47:18: #1 finished! INFO @ Sat, 15 Sep 2018 09:47:18: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:47:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:47:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:47:19: 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 @ Sat, 15 Sep 2018 09:47:19: Process for pairing-model is terminated! INFO @ Sat, 15 Sep 2018 09:47:19: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:47:19: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:47:19: #1 total tags in treatment: 10120228 INFO @ Sat, 15 Sep 2018 09:47:19: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:47:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) cat: SRX1143284.05_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 `SRX1143284.05_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 `SRX1143284.05_*.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 `SRX1143284.05_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 INFO @ Sat, 15 Sep 2018 09:47:19: #1 tags after filtering in treatment: 10120228 INFO @ Sat, 15 Sep 2018 09:47:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:47:19: #1 finished! INFO @ Sat, 15 Sep 2018 09:47:19: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:47:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:47:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:47:20: 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 @ Sat, 15 Sep 2018 09:47:20: Process for pairing-model is terminated! cat: SRX1143284.10_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 `SRX1143284.10_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 `SRX1143284.10_*.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 `SRX1143284.10_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 @ Sat, 15 Sep 2018 09:47:20: 10000000 INFO @ Sat, 15 Sep 2018 09:47:21: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:47:21: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:47:21: #1 total tags in treatment: 10120228 INFO @ Sat, 15 Sep 2018 09:47:21: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:47:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 09:47:21: #1 tags after filtering in treatment: 10120228 INFO @ Sat, 15 Sep 2018 09:47:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:47:21: #1 finished! INFO @ Sat, 15 Sep 2018 09:47:21: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:47:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:47:22: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:47:22: 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 @ Sat, 15 Sep 2018 09:47:22: Process for pairing-model is terminated! cat: SRX1143284.20_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 `SRX1143284.20_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 `SRX1143284.20_*.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 `SRX1143284.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。