Job ID = 9157348 sra ファイルのダウンロード中... Completed: 675059K bytes transferred in 11 seconds (496517K bits/sec), in 1 file, 2 directories. 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 27166289 spots for /home/okishinya/chipatlas/results/ce10/SRX059238/SRR190678.sra Written 27166289 spots total 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: 00:05:56 27166289 reads; of these: 27166289 (100.00%) were unpaired; of these: 525780 (1.94%) aligned 0 times 22841214 (84.08%) aligned exactly 1 time 3799295 (13.99%) aligned >1 times 98.06% overall alignment rate Time searching: 00:05:56 Overall time: 00:05:56 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3872753 / 26640509 = 0.1454 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 @ Tue, 27 Jun 2017 11:38:53: # Command line: callpeak -t SRX059238.bam -f BAM -g ce -n SRX059238.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX059238.05 # format = BAM # ChIP-seq file = ['SRX059238.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 27 Jun 2017 11:38:53: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:38:53: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:38:53: # Command line: callpeak -t SRX059238.bam -f BAM -g ce -n SRX059238.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX059238.10 # format = BAM # ChIP-seq file = ['SRX059238.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 27 Jun 2017 11:38:53: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:38:53: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:38:53: # Command line: callpeak -t SRX059238.bam -f BAM -g ce -n SRX059238.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX059238.20 # format = BAM # ChIP-seq file = ['SRX059238.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 27 Jun 2017 11:38:53: #1 read tag files... INFO @ Tue, 27 Jun 2017 11:38:53: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 11:39:01: 1000000 INFO @ Tue, 27 Jun 2017 11:39:01: 1000000 INFO @ Tue, 27 Jun 2017 11:39:02: 1000000 INFO @ Tue, 27 Jun 2017 11:39:08: 2000000 INFO @ Tue, 27 Jun 2017 11:39:08: 2000000 INFO @ Tue, 27 Jun 2017 11:39:12: 2000000 INFO @ Tue, 27 Jun 2017 11:39:15: 3000000 INFO @ Tue, 27 Jun 2017 11:39:15: 3000000 INFO @ Tue, 27 Jun 2017 11:39:20: 3000000 INFO @ Tue, 27 Jun 2017 11:39:22: 4000000 INFO @ Tue, 27 Jun 2017 11:39:22: 4000000 INFO @ Tue, 27 Jun 2017 11:39:27: 4000000 INFO @ Tue, 27 Jun 2017 11:39:29: 5000000 INFO @ Tue, 27 Jun 2017 11:39:29: 5000000 INFO @ Tue, 27 Jun 2017 11:39:34: 5000000 INFO @ Tue, 27 Jun 2017 11:39:35: 6000000 INFO @ Tue, 27 Jun 2017 11:39:35: 6000000 INFO @ Tue, 27 Jun 2017 11:39:41: 6000000 INFO @ Tue, 27 Jun 2017 11:39:42: 7000000 INFO @ Tue, 27 Jun 2017 11:39:42: 7000000 INFO @ Tue, 27 Jun 2017 11:39:48: 7000000 INFO @ Tue, 27 Jun 2017 11:39:49: 8000000 INFO @ Tue, 27 Jun 2017 11:39:49: 8000000 INFO @ Tue, 27 Jun 2017 11:39:55: 8000000 INFO @ Tue, 27 Jun 2017 11:39:56: 9000000 INFO @ Tue, 27 Jun 2017 11:39:56: 9000000 INFO @ Tue, 27 Jun 2017 11:40:02: 9000000 INFO @ Tue, 27 Jun 2017 11:40:03: 10000000 INFO @ Tue, 27 Jun 2017 11:40:03: 10000000 INFO @ Tue, 27 Jun 2017 11:40:09: 10000000 INFO @ Tue, 27 Jun 2017 11:40:10: 11000000 INFO @ Tue, 27 Jun 2017 11:40:10: 11000000 INFO @ Tue, 27 Jun 2017 11:40:16: 11000000 INFO @ Tue, 27 Jun 2017 11:40:17: 12000000 INFO @ Tue, 27 Jun 2017 11:40:17: 12000000 INFO @ Tue, 27 Jun 2017 11:40:23: 12000000 INFO @ Tue, 27 Jun 2017 11:40:23: 13000000 INFO @ Tue, 27 Jun 2017 11:40:23: 13000000 INFO @ Tue, 27 Jun 2017 11:40:30: 13000000 INFO @ Tue, 27 Jun 2017 11:40:30: 14000000 INFO @ Tue, 27 Jun 2017 11:40:30: 14000000 INFO @ Tue, 27 Jun 2017 11:40:36: 14000000 INFO @ Tue, 27 Jun 2017 11:40:37: 15000000 INFO @ Tue, 27 Jun 2017 11:40:37: 15000000 INFO @ Tue, 27 Jun 2017 11:40:43: 15000000 INFO @ Tue, 27 Jun 2017 11:40:44: 16000000 INFO @ Tue, 27 Jun 2017 11:40:44: 16000000 INFO @ Tue, 27 Jun 2017 11:40:50: 16000000 INFO @ Tue, 27 Jun 2017 11:40:50: 17000000 INFO @ Tue, 27 Jun 2017 11:40:50: 17000000 INFO @ Tue, 27 Jun 2017 11:40:57: 17000000 INFO @ Tue, 27 Jun 2017 11:40:57: 18000000 INFO @ Tue, 27 Jun 2017 11:40:57: 18000000 INFO @ Tue, 27 Jun 2017 11:41:03: 18000000 INFO @ Tue, 27 Jun 2017 11:41:04: 19000000 INFO @ Tue, 27 Jun 2017 11:41:04: 19000000 INFO @ Tue, 27 Jun 2017 11:41:10: 19000000 INFO @ Tue, 27 Jun 2017 11:41:10: 20000000 INFO @ Tue, 27 Jun 2017 11:41:10: 20000000 INFO @ Tue, 27 Jun 2017 11:41:17: 20000000 INFO @ Tue, 27 Jun 2017 11:41:17: 21000000 INFO @ Tue, 27 Jun 2017 11:41:17: 21000000 INFO @ Tue, 27 Jun 2017 11:41:24: 21000000 INFO @ Tue, 27 Jun 2017 11:41:24: 22000000 INFO @ Tue, 27 Jun 2017 11:41:24: 22000000 INFO @ Tue, 27 Jun 2017 11:41:30: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 11:41:30: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 11:41:30: #1 total tags in treatment: 22767756 INFO @ Tue, 27 Jun 2017 11:41:30: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:41:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:41:30: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 11:41:30: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 11:41:30: #1 total tags in treatment: 22767756 INFO @ Tue, 27 Jun 2017 11:41:30: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:41:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:41:30: #1 tags after filtering in treatment: 22767756 INFO @ Tue, 27 Jun 2017 11:41:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:41:30: #1 finished! INFO @ Tue, 27 Jun 2017 11:41:30: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:41:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:41:30: #1 tags after filtering in treatment: 22767756 INFO @ Tue, 27 Jun 2017 11:41:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:41:30: #1 finished! INFO @ Tue, 27 Jun 2017 11:41:30: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:41:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:41:31: 22000000 INFO @ Tue, 27 Jun 2017 11:41:32: #2 number of paired peaks: 94 WARNING @ Tue, 27 Jun 2017 11:41:32: Too few paired peaks (94) 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 @ Tue, 27 Jun 2017 11:41:32: Process for pairing-model is terminated! INFO @ Tue, 27 Jun 2017 11:41:32: #2 number of paired peaks: 94 WARNING @ Tue, 27 Jun 2017 11:41:32: Too few paired peaks (94) 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 @ Tue, 27 Jun 2017 11:41:32: Process for pairing-model is terminated! cat: SRX059238.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX059238.05_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 `SRX059238.20_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 `SRX059238.20_*.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 `SRX059238.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX059238.05_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 `SRX059238.05_*.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 `SRX059238.05_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 @ Tue, 27 Jun 2017 11:41:36: #1 tag size is determined as 36 bps INFO @ Tue, 27 Jun 2017 11:41:36: #1 tag size = 36 INFO @ Tue, 27 Jun 2017 11:41:36: #1 total tags in treatment: 22767756 INFO @ Tue, 27 Jun 2017 11:41:36: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 11:41:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 11:41:36: #1 tags after filtering in treatment: 22767756 INFO @ Tue, 27 Jun 2017 11:41:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 11:41:36: #1 finished! INFO @ Tue, 27 Jun 2017 11:41:36: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 11:41:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 11:41:38: #2 number of paired peaks: 94 WARNING @ Tue, 27 Jun 2017 11:41:38: Too few paired peaks (94) 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 @ Tue, 27 Jun 2017 11:41:38: Process for pairing-model is terminated! cat: SRX059238.10_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 `SRX059238.10_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 `SRX059238.10_*.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 `SRX059238.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。