Job ID = 10175250 sra ファイルのダウンロード中... Completed: 548826K bytes transferred in 13 seconds (322256K 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 32306620 spots for /home/okishinya/chipatlas/results/dm3/SRX2804228/SRR5534656.sra Written 32306620 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: 00:14:09 32306620 reads; of these: 32306620 (100.00%) were unpaired; of these: 751266 (2.33%) aligned 0 times 20972170 (64.92%) aligned exactly 1 time 10583184 (32.76%) aligned >1 times 97.67% overall alignment rate Time searching: 00:14:09 Overall time: 00:14:09 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] 5861960 / 31555354 = 0.1858 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 12:20:01: # Command line: callpeak -t SRX2804228.bam -f BAM -g dm -n SRX2804228.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2804228.10 # format = BAM # ChIP-seq file = ['SRX2804228.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 12:20:01: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:20:01: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:20:01: # Command line: callpeak -t SRX2804228.bam -f BAM -g dm -n SRX2804228.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2804228.20 # format = BAM # ChIP-seq file = ['SRX2804228.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 12:20:01: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:20:01: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:20:01: # Command line: callpeak -t SRX2804228.bam -f BAM -g dm -n SRX2804228.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2804228.05 # format = BAM # ChIP-seq file = ['SRX2804228.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 12:20:01: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:20:01: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:20:07: 1000000 INFO @ Mon, 06 Nov 2017 12:20:07: 1000000 INFO @ Mon, 06 Nov 2017 12:20:08: 1000000 INFO @ Mon, 06 Nov 2017 12:20:14: 2000000 INFO @ Mon, 06 Nov 2017 12:20:14: 2000000 INFO @ Mon, 06 Nov 2017 12:20:14: 2000000 INFO @ Mon, 06 Nov 2017 12:20:20: 3000000 INFO @ Mon, 06 Nov 2017 12:20:20: 3000000 INFO @ Mon, 06 Nov 2017 12:20:20: 3000000 INFO @ Mon, 06 Nov 2017 12:20:26: 4000000 INFO @ Mon, 06 Nov 2017 12:20:26: 4000000 INFO @ Mon, 06 Nov 2017 12:20:27: 4000000 INFO @ Mon, 06 Nov 2017 12:20:33: 5000000 INFO @ Mon, 06 Nov 2017 12:20:33: 5000000 INFO @ Mon, 06 Nov 2017 12:20:34: 5000000 INFO @ Mon, 06 Nov 2017 12:20:39: 6000000 INFO @ Mon, 06 Nov 2017 12:20:39: 6000000 INFO @ Mon, 06 Nov 2017 12:20:40: 6000000 INFO @ Mon, 06 Nov 2017 12:20:45: 7000000 INFO @ Mon, 06 Nov 2017 12:20:46: 7000000 INFO @ Mon, 06 Nov 2017 12:20:47: 7000000 INFO @ Mon, 06 Nov 2017 12:20:52: 8000000 INFO @ Mon, 06 Nov 2017 12:20:52: 8000000 INFO @ Mon, 06 Nov 2017 12:20:53: 8000000 INFO @ Mon, 06 Nov 2017 12:20:58: 9000000 INFO @ Mon, 06 Nov 2017 12:20:58: 9000000 INFO @ Mon, 06 Nov 2017 12:21:00: 9000000 INFO @ Mon, 06 Nov 2017 12:21:04: 10000000 INFO @ Mon, 06 Nov 2017 12:21:05: 10000000 INFO @ Mon, 06 Nov 2017 12:21:07: 10000000 INFO @ Mon, 06 Nov 2017 12:21:11: 11000000 INFO @ Mon, 06 Nov 2017 12:21:11: 11000000 INFO @ Mon, 06 Nov 2017 12:21:13: 11000000 INFO @ Mon, 06 Nov 2017 12:21:17: 12000000 INFO @ Mon, 06 Nov 2017 12:21:18: 12000000 INFO @ Mon, 06 Nov 2017 12:21:20: 12000000 INFO @ Mon, 06 Nov 2017 12:21:24: 13000000 INFO @ Mon, 06 Nov 2017 12:21:24: 13000000 INFO @ Mon, 06 Nov 2017 12:21:27: 13000000 INFO @ Mon, 06 Nov 2017 12:21:31: 14000000 INFO @ Mon, 06 Nov 2017 12:21:31: 14000000 INFO @ Mon, 06 Nov 2017 12:21:34: 14000000 INFO @ Mon, 06 Nov 2017 12:21:37: 15000000 INFO @ Mon, 06 Nov 2017 12:21:37: 15000000 INFO @ Mon, 06 Nov 2017 12:21:40: 15000000 INFO @ Mon, 06 Nov 2017 12:21:44: 16000000 INFO @ Mon, 06 Nov 2017 12:21:44: 16000000 INFO @ Mon, 06 Nov 2017 12:21:47: 16000000 INFO @ Mon, 06 Nov 2017 12:21:50: 17000000 INFO @ Mon, 06 Nov 2017 12:21:50: 17000000 INFO @ Mon, 06 Nov 2017 12:21:54: 17000000 INFO @ Mon, 06 Nov 2017 12:21:57: 18000000 INFO @ Mon, 06 Nov 2017 12:21:57: 18000000 INFO @ Mon, 06 Nov 2017 12:22:01: 18000000 INFO @ Mon, 06 Nov 2017 12:22:03: 19000000 INFO @ Mon, 06 Nov 2017 12:22:04: 19000000 INFO @ Mon, 06 Nov 2017 12:22:08: 19000000 INFO @ Mon, 06 Nov 2017 12:22:10: 20000000 INFO @ Mon, 06 Nov 2017 12:22:10: 20000000 INFO @ Mon, 06 Nov 2017 12:22:14: 20000000 INFO @ Mon, 06 Nov 2017 12:22:16: 21000000 INFO @ Mon, 06 Nov 2017 12:22:17: 21000000 INFO @ Mon, 06 Nov 2017 12:22:21: 21000000 INFO @ Mon, 06 Nov 2017 12:22:23: 22000000 INFO @ Mon, 06 Nov 2017 12:22:24: 22000000 INFO @ Mon, 06 Nov 2017 12:22:28: 22000000 INFO @ Mon, 06 Nov 2017 12:22:29: 23000000 INFO @ Mon, 06 Nov 2017 12:22:30: 23000000 INFO @ Mon, 06 Nov 2017 12:22:35: 23000000 INFO @ Mon, 06 Nov 2017 12:22:36: 24000000 INFO @ Mon, 06 Nov 2017 12:22:37: 24000000 INFO @ Mon, 06 Nov 2017 12:22:42: 25000000 INFO @ Mon, 06 Nov 2017 12:22:42: 24000000 INFO @ Mon, 06 Nov 2017 12:22:44: 25000000 INFO @ Mon, 06 Nov 2017 12:22:47: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:22:47: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:22:47: #1 total tags in treatment: 25693394 INFO @ Mon, 06 Nov 2017 12:22:47: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:22:47: #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 12:22:47: #1 tags after filtering in treatment: 25693394 INFO @ Mon, 06 Nov 2017 12:22:47: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:22:47: #1 finished! INFO @ Mon, 06 Nov 2017 12:22:47: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:22:47: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:22:48: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:22:48: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:22:48: #1 total tags in treatment: 25693394 INFO @ Mon, 06 Nov 2017 12:22:48: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:22:48: #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 12:22:49: #1 tags after filtering in treatment: 25693394 INFO @ Mon, 06 Nov 2017 12:22:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:22:49: #1 finished! INFO @ Mon, 06 Nov 2017 12:22:49: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:22:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:22:49: #2 number of paired peaks: 82 WARNING @ Mon, 06 Nov 2017 12:22:49: Too few paired peaks (82) 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 12:22:49: Process for pairing-model is terminated! INFO @ Mon, 06 Nov 2017 12:22:49: 25000000 cat: SRX2804228.10_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 `SRX2804228.10_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 `SRX2804228.10_*.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 `SRX2804228.10_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 12:22:51: #2 number of paired peaks: 82 WARNING @ Mon, 06 Nov 2017 12:22:51: Too few paired peaks (82) 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 12:22:51: Process for pairing-model is terminated! cat: SRX2804228.05_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 `SRX2804228.05_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 `SRX2804228.05_*.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 `SRX2804228.05_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 12:22:54: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:22:54: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:22:54: #1 total tags in treatment: 25693394 INFO @ Mon, 06 Nov 2017 12:22:54: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:22:54: #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 12:22:54: #1 tags after filtering in treatment: 25693394 INFO @ Mon, 06 Nov 2017 12:22:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:22:54: #1 finished! INFO @ Mon, 06 Nov 2017 12:22:54: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:22:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:22:56: #2 number of paired peaks: 82 WARNING @ Mon, 06 Nov 2017 12:22:56: Too few paired peaks (82) 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 12:22:56: Process for pairing-model is terminated! cat: SRX2804228.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2804228.20_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 `SRX2804228.20_*.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 `SRX2804228.20_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。