Job ID = 10175234 sra ファイルのダウンロード中... Completed: 666911K bytes transferred in 41 seconds (133029K 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 37018724 spots for /home/okishinya/chipatlas/results/dm3/SRX2804213/SRR5534641.sra Written 37018724 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: 00:16:56 37018724 reads; of these: 37018724 (100.00%) were unpaired; of these: 966805 (2.61%) aligned 0 times 24896388 (67.25%) aligned exactly 1 time 11155531 (30.13%) aligned >1 times 97.39% overall alignment rate Time searching: 00:16:56 Overall time: 00:16:56 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 4090832 / 36051919 = 0.1135 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 @ Mon, 06 Nov 2017 12:09:42: # Command line: callpeak -t SRX2804213.bam -f BAM -g dm -n SRX2804213.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2804213.05 # format = BAM # ChIP-seq file = ['SRX2804213.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 @ Mon, 06 Nov 2017 12:09:42: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:09:42: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:09:42: # Command line: callpeak -t SRX2804213.bam -f BAM -g dm -n SRX2804213.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2804213.10 # format = BAM # ChIP-seq file = ['SRX2804213.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 @ Mon, 06 Nov 2017 12:09:42: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:09:42: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:09:42: # Command line: callpeak -t SRX2804213.bam -f BAM -g dm -n SRX2804213.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2804213.20 # format = BAM # ChIP-seq file = ['SRX2804213.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 @ Mon, 06 Nov 2017 12:09:42: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:09:42: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:09:49: 1000000 INFO @ Mon, 06 Nov 2017 12:09:49: 1000000 INFO @ Mon, 06 Nov 2017 12:09:49: 1000000 INFO @ Mon, 06 Nov 2017 12:09:56: 2000000 INFO @ Mon, 06 Nov 2017 12:09:56: 2000000 INFO @ Mon, 06 Nov 2017 12:09:56: 2000000 INFO @ Mon, 06 Nov 2017 12:10:04: 3000000 INFO @ Mon, 06 Nov 2017 12:10:04: 3000000 INFO @ Mon, 06 Nov 2017 12:10:04: 3000000 INFO @ Mon, 06 Nov 2017 12:10:11: 4000000 INFO @ Mon, 06 Nov 2017 12:10:12: 4000000 INFO @ Mon, 06 Nov 2017 12:10:12: 4000000 INFO @ Mon, 06 Nov 2017 12:10:18: 5000000 INFO @ Mon, 06 Nov 2017 12:10:19: 5000000 INFO @ Mon, 06 Nov 2017 12:10:19: 5000000 INFO @ Mon, 06 Nov 2017 12:10:25: 6000000 INFO @ Mon, 06 Nov 2017 12:10:27: 6000000 INFO @ Mon, 06 Nov 2017 12:10:27: 6000000 INFO @ Mon, 06 Nov 2017 12:10:33: 7000000 INFO @ Mon, 06 Nov 2017 12:10:34: 7000000 INFO @ Mon, 06 Nov 2017 12:10:34: 7000000 INFO @ Mon, 06 Nov 2017 12:10:40: 8000000 INFO @ Mon, 06 Nov 2017 12:10:41: 8000000 INFO @ Mon, 06 Nov 2017 12:10:42: 8000000 INFO @ Mon, 06 Nov 2017 12:10:48: 9000000 INFO @ Mon, 06 Nov 2017 12:10:49: 9000000 INFO @ Mon, 06 Nov 2017 12:10:49: 9000000 INFO @ Mon, 06 Nov 2017 12:10:55: 10000000 INFO @ Mon, 06 Nov 2017 12:10:56: 10000000 INFO @ Mon, 06 Nov 2017 12:10:57: 10000000 INFO @ Mon, 06 Nov 2017 12:11:02: 11000000 INFO @ Mon, 06 Nov 2017 12:11:03: 11000000 INFO @ Mon, 06 Nov 2017 12:11:04: 11000000 INFO @ Mon, 06 Nov 2017 12:11:10: 12000000 INFO @ Mon, 06 Nov 2017 12:11:11: 12000000 INFO @ Mon, 06 Nov 2017 12:11:12: 12000000 INFO @ Mon, 06 Nov 2017 12:11:17: 13000000 INFO @ Mon, 06 Nov 2017 12:11:18: 13000000 INFO @ Mon, 06 Nov 2017 12:11:19: 13000000 INFO @ Mon, 06 Nov 2017 12:11:25: 14000000 INFO @ Mon, 06 Nov 2017 12:11:26: 14000000 INFO @ Mon, 06 Nov 2017 12:11:27: 14000000 INFO @ Mon, 06 Nov 2017 12:11:32: 15000000 INFO @ Mon, 06 Nov 2017 12:11:33: 15000000 INFO @ Mon, 06 Nov 2017 12:11:34: 15000000 INFO @ Mon, 06 Nov 2017 12:11:40: 16000000 INFO @ Mon, 06 Nov 2017 12:11:40: 16000000 INFO @ Mon, 06 Nov 2017 12:11:42: 16000000 INFO @ Mon, 06 Nov 2017 12:11:47: 17000000 INFO @ Mon, 06 Nov 2017 12:11:48: 17000000 INFO @ Mon, 06 Nov 2017 12:11:50: 17000000 INFO @ Mon, 06 Nov 2017 12:11:54: 18000000 INFO @ Mon, 06 Nov 2017 12:11:55: 18000000 INFO @ Mon, 06 Nov 2017 12:11:58: 18000000 INFO @ Mon, 06 Nov 2017 12:12:02: 19000000 INFO @ Mon, 06 Nov 2017 12:12:03: 19000000 INFO @ Mon, 06 Nov 2017 12:12:06: 19000000 INFO @ Mon, 06 Nov 2017 12:12:09: 20000000 INFO @ Mon, 06 Nov 2017 12:12:11: 20000000 INFO @ Mon, 06 Nov 2017 12:12:13: 20000000 INFO @ Mon, 06 Nov 2017 12:12:17: 21000000 INFO @ Mon, 06 Nov 2017 12:12:19: 21000000 INFO @ Mon, 06 Nov 2017 12:12:22: 21000000 INFO @ Mon, 06 Nov 2017 12:12:25: 22000000 INFO @ Mon, 06 Nov 2017 12:12:27: 22000000 INFO @ Mon, 06 Nov 2017 12:12:30: 22000000 INFO @ Mon, 06 Nov 2017 12:12:32: 23000000 INFO @ Mon, 06 Nov 2017 12:12:35: 23000000 INFO @ Mon, 06 Nov 2017 12:12:38: 23000000 INFO @ Mon, 06 Nov 2017 12:12:40: 24000000 INFO @ Mon, 06 Nov 2017 12:12:43: 24000000 INFO @ Mon, 06 Nov 2017 12:12:46: 24000000 INFO @ Mon, 06 Nov 2017 12:12:47: 25000000 INFO @ Mon, 06 Nov 2017 12:12:51: 25000000 INFO @ Mon, 06 Nov 2017 12:12:54: 25000000 INFO @ Mon, 06 Nov 2017 12:12:55: 26000000 INFO @ Mon, 06 Nov 2017 12:12:59: 26000000 INFO @ Mon, 06 Nov 2017 12:13:02: 26000000 INFO @ Mon, 06 Nov 2017 12:13:03: 27000000 INFO @ Mon, 06 Nov 2017 12:13:07: 27000000 INFO @ Mon, 06 Nov 2017 12:13:10: 27000000 INFO @ Mon, 06 Nov 2017 12:13:10: 28000000 INFO @ Mon, 06 Nov 2017 12:13:15: 28000000 INFO @ Mon, 06 Nov 2017 12:13:18: 29000000 INFO @ Mon, 06 Nov 2017 12:13:18: 28000000 INFO @ Mon, 06 Nov 2017 12:13:23: 29000000 INFO @ Mon, 06 Nov 2017 12:13:26: 30000000 INFO @ Mon, 06 Nov 2017 12:13:26: 29000000 INFO @ Mon, 06 Nov 2017 12:13:30: 30000000 INFO @ Mon, 06 Nov 2017 12:13:33: 31000000 INFO @ Mon, 06 Nov 2017 12:13:33: 30000000 INFO @ Mon, 06 Nov 2017 12:13:38: 31000000 INFO @ Mon, 06 Nov 2017 12:13:40: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:13:40: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:13:40: #1 total tags in treatment: 31961087 INFO @ Mon, 06 Nov 2017 12:13:40: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:13:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 12:13:41: #1 tags after filtering in treatment: 31961087 INFO @ Mon, 06 Nov 2017 12:13:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:13:41: #1 finished! INFO @ Mon, 06 Nov 2017 12:13:41: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:13:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:13:42: 31000000 INFO @ Mon, 06 Nov 2017 12:13:43: #2 number of paired peaks: 51 WARNING @ Mon, 06 Nov 2017 12:13:43: Too few paired peaks (51) 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 @ Mon, 06 Nov 2017 12:13:43: Process for pairing-model is terminated! cat: SRX2804213.05_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 `SRX2804213.05_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 `SRX2804213.05_*.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 `SRX2804213.05_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 @ Mon, 06 Nov 2017 12:13:46: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:13:46: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:13:46: #1 total tags in treatment: 31961087 INFO @ Mon, 06 Nov 2017 12:13:46: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:13:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 12:13:46: #1 tags after filtering in treatment: 31961087 INFO @ Mon, 06 Nov 2017 12:13:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:13:46: #1 finished! INFO @ Mon, 06 Nov 2017 12:13:46: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:13:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:13:49: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:13:49: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:13:49: #1 total tags in treatment: 31961087 INFO @ Mon, 06 Nov 2017 12:13:49: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:13:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 12:13:49: #2 number of paired peaks: 51 WARNING @ Mon, 06 Nov 2017 12:13:49: Too few paired peaks (51) 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 @ Mon, 06 Nov 2017 12:13:49: Process for pairing-model is terminated! cat: SRX2804213.10_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 `SRX2804213.10_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 `SRX2804213.10_*.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 `SRX2804213.10_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 @ Mon, 06 Nov 2017 12:13:49: #1 tags after filtering in treatment: 31961087 INFO @ Mon, 06 Nov 2017 12:13:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:13:49: #1 finished! INFO @ Mon, 06 Nov 2017 12:13:49: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:13:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:13:52: #2 number of paired peaks: 51 WARNING @ Mon, 06 Nov 2017 12:13:52: Too few paired peaks (51) 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 @ Mon, 06 Nov 2017 12:13:52: Process for pairing-model is terminated! cat: SRX2804213.20_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 `SRX2804213.20_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 `SRX2804213.20_*.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 `SRX2804213.20_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。