Job ID = 9158554 sra ファイルのダウンロード中... Completed: 1496809K bytes transferred in 14 seconds (864521K 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 36344419 spots for /home/okishinya/chipatlas/results/dm3/SRX1715675/SRR3405216.sra Written 36344419 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: 00:11:59 36344419 reads; of these: 36344419 (100.00%) were unpaired; of these: 1342543 (3.69%) aligned 0 times 29984496 (82.50%) aligned exactly 1 time 5017380 (13.81%) aligned >1 times 96.31% overall alignment rate Time searching: 00:11:59 Overall time: 00:11:59 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 10774393 / 35001876 = 0.3078 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 18:13:22: # Command line: callpeak -t SRX1715675.bam -f BAM -g dm -n SRX1715675.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1715675.10 # format = BAM # ChIP-seq file = ['SRX1715675.bam'] # control file = None # effective genome size = 1.20e+08 # 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 18:13:22: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:13:22: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:13:22: # Command line: callpeak -t SRX1715675.bam -f BAM -g dm -n SRX1715675.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1715675.20 # format = BAM # ChIP-seq file = ['SRX1715675.bam'] # control file = None # effective genome size = 1.20e+08 # 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 18:13:22: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:13:22: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:13:22: # Command line: callpeak -t SRX1715675.bam -f BAM -g dm -n SRX1715675.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1715675.05 # format = BAM # ChIP-seq file = ['SRX1715675.bam'] # control file = None # effective genome size = 1.20e+08 # 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 18:13:22: #1 read tag files... INFO @ Tue, 27 Jun 2017 18:13:22: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 18:13:30: 1000000 INFO @ Tue, 27 Jun 2017 18:13:30: 1000000 INFO @ Tue, 27 Jun 2017 18:13:30: 1000000 INFO @ Tue, 27 Jun 2017 18:13:37: 2000000 INFO @ Tue, 27 Jun 2017 18:13:37: 2000000 INFO @ Tue, 27 Jun 2017 18:13:37: 2000000 INFO @ Tue, 27 Jun 2017 18:13:44: 3000000 INFO @ Tue, 27 Jun 2017 18:13:44: 3000000 INFO @ Tue, 27 Jun 2017 18:13:45: 3000000 INFO @ Tue, 27 Jun 2017 18:13:51: 4000000 INFO @ Tue, 27 Jun 2017 18:13:51: 4000000 INFO @ Tue, 27 Jun 2017 18:13:52: 4000000 INFO @ Tue, 27 Jun 2017 18:13:58: 5000000 INFO @ Tue, 27 Jun 2017 18:13:58: 5000000 INFO @ Tue, 27 Jun 2017 18:13:59: 5000000 INFO @ Tue, 27 Jun 2017 18:14:05: 6000000 INFO @ Tue, 27 Jun 2017 18:14:06: 6000000 INFO @ Tue, 27 Jun 2017 18:14:07: 6000000 INFO @ Tue, 27 Jun 2017 18:14:13: 7000000 INFO @ Tue, 27 Jun 2017 18:14:13: 7000000 INFO @ Tue, 27 Jun 2017 18:14:14: 7000000 INFO @ Tue, 27 Jun 2017 18:14:20: 8000000 INFO @ Tue, 27 Jun 2017 18:14:20: 8000000 INFO @ Tue, 27 Jun 2017 18:14:22: 8000000 INFO @ Tue, 27 Jun 2017 18:14:27: 9000000 INFO @ Tue, 27 Jun 2017 18:14:27: 9000000 INFO @ Tue, 27 Jun 2017 18:14:29: 9000000 INFO @ Tue, 27 Jun 2017 18:14:34: 10000000 INFO @ Tue, 27 Jun 2017 18:14:34: 10000000 INFO @ Tue, 27 Jun 2017 18:14:37: 10000000 INFO @ Tue, 27 Jun 2017 18:14:41: 11000000 INFO @ Tue, 27 Jun 2017 18:14:42: 11000000 INFO @ Tue, 27 Jun 2017 18:14:44: 11000000 INFO @ Tue, 27 Jun 2017 18:14:49: 12000000 INFO @ Tue, 27 Jun 2017 18:14:49: 12000000 INFO @ Tue, 27 Jun 2017 18:14:52: 12000000 INFO @ Tue, 27 Jun 2017 18:14:56: 13000000 INFO @ Tue, 27 Jun 2017 18:14:56: 13000000 INFO @ Tue, 27 Jun 2017 18:14:59: 13000000 INFO @ Tue, 27 Jun 2017 18:15:03: 14000000 INFO @ Tue, 27 Jun 2017 18:15:04: 14000000 INFO @ Tue, 27 Jun 2017 18:15:07: 14000000 INFO @ Tue, 27 Jun 2017 18:15:10: 15000000 INFO @ Tue, 27 Jun 2017 18:15:11: 15000000 INFO @ Tue, 27 Jun 2017 18:15:13: 15000000 INFO @ Tue, 27 Jun 2017 18:15:17: 16000000 INFO @ Tue, 27 Jun 2017 18:15:18: 16000000 INFO @ Tue, 27 Jun 2017 18:15:21: 16000000 INFO @ Tue, 27 Jun 2017 18:15:25: 17000000 INFO @ Tue, 27 Jun 2017 18:15:26: 17000000 INFO @ Tue, 27 Jun 2017 18:15:28: 17000000 INFO @ Tue, 27 Jun 2017 18:15:32: 18000000 INFO @ Tue, 27 Jun 2017 18:15:33: 18000000 INFO @ Tue, 27 Jun 2017 18:15:36: 18000000 INFO @ Tue, 27 Jun 2017 18:15:39: 19000000 INFO @ Tue, 27 Jun 2017 18:15:41: 19000000 INFO @ Tue, 27 Jun 2017 18:15:43: 19000000 INFO @ Tue, 27 Jun 2017 18:15:47: 20000000 INFO @ Tue, 27 Jun 2017 18:15:48: 20000000 INFO @ Tue, 27 Jun 2017 18:15:51: 20000000 INFO @ Tue, 27 Jun 2017 18:15:54: 21000000 INFO @ Tue, 27 Jun 2017 18:15:55: 21000000 INFO @ Tue, 27 Jun 2017 18:15:59: 21000000 INFO @ Tue, 27 Jun 2017 18:16:00: 22000000 INFO @ Tue, 27 Jun 2017 18:16:02: 22000000 INFO @ Tue, 27 Jun 2017 18:16:06: 22000000 INFO @ Tue, 27 Jun 2017 18:16:07: 23000000 INFO @ Tue, 27 Jun 2017 18:16:09: 23000000 INFO @ Tue, 27 Jun 2017 18:16:14: 24000000 INFO @ Tue, 27 Jun 2017 18:16:14: 23000000 INFO @ Tue, 27 Jun 2017 18:16:15: 24000000 INFO @ Tue, 27 Jun 2017 18:16:16: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:16:16: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:16:16: #1 total tags in treatment: 24227483 INFO @ Tue, 27 Jun 2017 18:16:16: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:16:16: #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 18:16:16: #1 tags after filtering in treatment: 24227483 INFO @ Tue, 27 Jun 2017 18:16:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:16:16: #1 finished! INFO @ Tue, 27 Jun 2017 18:16:16: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:16:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:16:17: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:16:17: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:16:17: #1 total tags in treatment: 24227483 INFO @ Tue, 27 Jun 2017 18:16:17: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:16:17: #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 18:16:18: #1 tags after filtering in treatment: 24227483 INFO @ Tue, 27 Jun 2017 18:16:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:16:18: #1 finished! INFO @ Tue, 27 Jun 2017 18:16:18: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:16:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:16:18: #2 number of paired peaks: 3 WARNING @ Tue, 27 Jun 2017 18:16:18: Too few paired peaks (3) 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 18:16:18: Process for pairing-model is terminated! cat: SRX1715675.20_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 `SRX1715675.20_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 `SRX1715675.20_*.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 `SRX1715675.20_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 @ Tue, 27 Jun 2017 18:16:19: #2 number of paired peaks: 3 WARNING @ Tue, 27 Jun 2017 18:16:19: Too few paired peaks (3) 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 18:16:19: Process for pairing-model is terminated! cat: SRX1715675.10_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 `SRX1715675.10_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 `SRX1715675.10_*.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 `SRX1715675.10_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 @ Tue, 27 Jun 2017 18:16:22: 24000000 INFO @ Tue, 27 Jun 2017 18:16:24: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 18:16:24: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 18:16:24: #1 total tags in treatment: 24227483 INFO @ Tue, 27 Jun 2017 18:16:24: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 18:16:24: #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 18:16:24: #1 tags after filtering in treatment: 24227483 INFO @ Tue, 27 Jun 2017 18:16:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 18:16:24: #1 finished! INFO @ Tue, 27 Jun 2017 18:16:24: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 18:16:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 18:16:26: #2 number of paired peaks: 3 WARNING @ Tue, 27 Jun 2017 18:16:26: Too few paired peaks (3) 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 18:16:26: Process for pairing-model is terminated! cat: SRX1715675.05_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 `SRX1715675.05_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 `SRX1715675.05_*.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 `SRX1715675.05_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。