Job ID = 11192628 sra ファイルのダウンロード中... Completed: 431645K bytes transferred in 7 seconds (472725K 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 14841415 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143282/SRR2156294.sra Written 14841415 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1143282/SRR2156294.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: 00:04:08 14841415 reads; of these: 14841415 (100.00%) were unpaired; of these: 1507640 (10.16%) aligned 0 times 11687327 (78.75%) aligned exactly 1 time 1646448 (11.09%) aligned >1 times 89.84% overall alignment rate Time searching: 00:04:08 Overall time: 00:04:08 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] 7344556 / 13333775 = 0.5508 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 09:43:26: # Command line: callpeak -t SRX1143282.bam -f BAM -g 12100000 -n SRX1143282.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1143282.10 # format = BAM # ChIP-seq file = ['SRX1143282.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 09:43:26: # Command line: callpeak -t SRX1143282.bam -f BAM -g 12100000 -n SRX1143282.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1143282.20 # format = BAM # ChIP-seq file = ['SRX1143282.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 09:43:26: # Command line: callpeak -t SRX1143282.bam -f BAM -g 12100000 -n SRX1143282.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1143282.05 # format = BAM # ChIP-seq file = ['SRX1143282.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 09:43:26: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:43:26: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:43:26: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:43:26: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:43:26: #1 read tag files... INFO @ Sat, 15 Sep 2018 09:43:26: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 09:43:32: 1000000 INFO @ Sat, 15 Sep 2018 09:43:33: 1000000 INFO @ Sat, 15 Sep 2018 09:43:33: 1000000 INFO @ Sat, 15 Sep 2018 09:43:39: 2000000 INFO @ Sat, 15 Sep 2018 09:43:40: 2000000 INFO @ Sat, 15 Sep 2018 09:43:41: 2000000 INFO @ Sat, 15 Sep 2018 09:43:46: 3000000 INFO @ Sat, 15 Sep 2018 09:43:47: 3000000 INFO @ Sat, 15 Sep 2018 09:43:48: 3000000 INFO @ Sat, 15 Sep 2018 09:43:53: 4000000 INFO @ Sat, 15 Sep 2018 09:43:55: 4000000 INFO @ Sat, 15 Sep 2018 09:43:56: 4000000 INFO @ Sat, 15 Sep 2018 09:44:01: 5000000 INFO @ Sat, 15 Sep 2018 09:44:02: 5000000 INFO @ Sat, 15 Sep 2018 09:44:03: 5000000 INFO @ Sat, 15 Sep 2018 09:44:08: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:44:08: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:44:08: #1 total tags in treatment: 5989219 INFO @ Sat, 15 Sep 2018 09:44:08: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:44:08: #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 09:44:08: #1 tags after filtering in treatment: 5989219 INFO @ Sat, 15 Sep 2018 09:44:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:44:08: #1 finished! INFO @ Sat, 15 Sep 2018 09:44:08: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:44:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:44:09: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:44:09: 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 09:44:09: Process for pairing-model is terminated! cat: SRX1143282.10_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 `SRX1143282.10_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 `SRX1143282.10_*.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 `SRX1143282.10_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 09:44:10: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:44:10: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:44:10: #1 total tags in treatment: 5989219 INFO @ Sat, 15 Sep 2018 09:44:10: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:44:10: #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 09:44:10: #1 tags after filtering in treatment: 5989219 INFO @ Sat, 15 Sep 2018 09:44:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:44:10: #1 finished! INFO @ Sat, 15 Sep 2018 09:44:10: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:44:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:44:10: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:44:10: 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 09:44:10: Process for pairing-model is terminated! cat: SRX1143282.20_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 `SRX1143282.20_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 `SRX1143282.20_*.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 `SRX1143282.20_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 @ Sat, 15 Sep 2018 09:44:11: #1 tag size is determined as 78 bps INFO @ Sat, 15 Sep 2018 09:44:11: #1 tag size = 78 INFO @ Sat, 15 Sep 2018 09:44:11: #1 total tags in treatment: 5989219 INFO @ Sat, 15 Sep 2018 09:44:11: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 09:44:11: #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 09:44:11: #1 tags after filtering in treatment: 5989219 INFO @ Sat, 15 Sep 2018 09:44:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 09:44:11: #1 finished! INFO @ Sat, 15 Sep 2018 09:44:11: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 09:44:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 09:44:11: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 09:44:11: 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 09:44:11: Process for pairing-model is terminated! cat: SRX1143282.05_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 `SRX1143282.05_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 `SRX1143282.05_*.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 `SRX1143282.05_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。