Job ID = 10609123 sra ファイルのダウンロード中... Completed: 721346K bytes transferred in 51 seconds (114432K 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 52364441 spots for /home/okishinya/chipatlas/results/dm3/SRX3011268/SRR5834744.sra Written 52364441 spots for /home/okishinya/chipatlas/results/dm3/SRX3011268/SRR5834744.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: 00:14:41 52364441 reads; of these: 52364441 (100.00%) were unpaired; of these: 1964262 (3.75%) aligned 0 times 35254000 (67.32%) aligned exactly 1 time 15146179 (28.92%) aligned >1 times 96.25% overall alignment rate Time searching: 00:14:41 Overall time: 00:14:41 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] 10873388 / 50400179 = 0.2157 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 @ Fri, 04 May 2018 07:29:23: # Command line: callpeak -t SRX3011268.bam -f BAM -g dm -n SRX3011268.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3011268.10 # format = BAM # ChIP-seq file = ['SRX3011268.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 @ Fri, 04 May 2018 07:29:23: #1 read tag files... INFO @ Fri, 04 May 2018 07:29:23: #1 read treatment tags... INFO @ Fri, 04 May 2018 07:29:23: # Command line: callpeak -t SRX3011268.bam -f BAM -g dm -n SRX3011268.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3011268.05 # format = BAM # ChIP-seq file = ['SRX3011268.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 @ Fri, 04 May 2018 07:29:23: #1 read tag files... INFO @ Fri, 04 May 2018 07:29:23: #1 read treatment tags... INFO @ Fri, 04 May 2018 07:29:23: # Command line: callpeak -t SRX3011268.bam -f BAM -g dm -n SRX3011268.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3011268.20 # format = BAM # ChIP-seq file = ['SRX3011268.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 @ Fri, 04 May 2018 07:29:23: #1 read tag files... INFO @ Fri, 04 May 2018 07:29:23: #1 read treatment tags... INFO @ Fri, 04 May 2018 07:29:29: 1000000 INFO @ Fri, 04 May 2018 07:29:30: 1000000 INFO @ Fri, 04 May 2018 07:29:30: 1000000 INFO @ Fri, 04 May 2018 07:29:36: 2000000 INFO @ Fri, 04 May 2018 07:29:38: 2000000 INFO @ Fri, 04 May 2018 07:29:38: 2000000 INFO @ Fri, 04 May 2018 07:29:43: 3000000 INFO @ Fri, 04 May 2018 07:29:45: 3000000 INFO @ Fri, 04 May 2018 07:29:46: 3000000 INFO @ Fri, 04 May 2018 07:29:49: 4000000 INFO @ Fri, 04 May 2018 07:29:52: 4000000 INFO @ Fri, 04 May 2018 07:29:53: 4000000 INFO @ Fri, 04 May 2018 07:29:56: 5000000 INFO @ Fri, 04 May 2018 07:30:00: 5000000 INFO @ Fri, 04 May 2018 07:30:01: 5000000 INFO @ Fri, 04 May 2018 07:30:03: 6000000 INFO @ Fri, 04 May 2018 07:30:07: 6000000 INFO @ Fri, 04 May 2018 07:30:08: 6000000 INFO @ Fri, 04 May 2018 07:30:10: 7000000 INFO @ Fri, 04 May 2018 07:30:14: 7000000 INFO @ Fri, 04 May 2018 07:30:16: 7000000 INFO @ Fri, 04 May 2018 07:30:17: 8000000 INFO @ Fri, 04 May 2018 07:30:22: 8000000 INFO @ Fri, 04 May 2018 07:30:23: 9000000 INFO @ Fri, 04 May 2018 07:30:24: 8000000 INFO @ Fri, 04 May 2018 07:30:29: 10000000 INFO @ Fri, 04 May 2018 07:30:29: 9000000 INFO @ Fri, 04 May 2018 07:30:31: 9000000 INFO @ Fri, 04 May 2018 07:30:35: 11000000 INFO @ Fri, 04 May 2018 07:30:37: 10000000 INFO @ Fri, 04 May 2018 07:30:39: 10000000 INFO @ Fri, 04 May 2018 07:30:42: 12000000 INFO @ Fri, 04 May 2018 07:30:45: 11000000 INFO @ Fri, 04 May 2018 07:30:46: 11000000 INFO @ Fri, 04 May 2018 07:30:49: 13000000 INFO @ Fri, 04 May 2018 07:30:52: 12000000 INFO @ Fri, 04 May 2018 07:30:54: 12000000 INFO @ Fri, 04 May 2018 07:30:55: 14000000 INFO @ Fri, 04 May 2018 07:31:00: 13000000 INFO @ Fri, 04 May 2018 07:31:01: 13000000 INFO @ Fri, 04 May 2018 07:31:01: 15000000 INFO @ Fri, 04 May 2018 07:31:07: 14000000 INFO @ Fri, 04 May 2018 07:31:08: 16000000 INFO @ Fri, 04 May 2018 07:31:09: 14000000 INFO @ Fri, 04 May 2018 07:31:14: 17000000 INFO @ Fri, 04 May 2018 07:31:15: 15000000 INFO @ Fri, 04 May 2018 07:31:16: 15000000 INFO @ Fri, 04 May 2018 07:31:21: 18000000 INFO @ Fri, 04 May 2018 07:31:23: 16000000 INFO @ Fri, 04 May 2018 07:31:24: 16000000 INFO @ Fri, 04 May 2018 07:31:28: 19000000 INFO @ Fri, 04 May 2018 07:31:30: 17000000 INFO @ Fri, 04 May 2018 07:31:31: 17000000 INFO @ Fri, 04 May 2018 07:31:35: 20000000 INFO @ Fri, 04 May 2018 07:31:38: 18000000 INFO @ Fri, 04 May 2018 07:31:39: 18000000 INFO @ Fri, 04 May 2018 07:31:42: 21000000 INFO @ Fri, 04 May 2018 07:31:46: 19000000 INFO @ Fri, 04 May 2018 07:31:46: 19000000 INFO @ Fri, 04 May 2018 07:31:49: 22000000 INFO @ Fri, 04 May 2018 07:31:53: 20000000 INFO @ Fri, 04 May 2018 07:31:53: 20000000 INFO @ Fri, 04 May 2018 07:31:55: 23000000 INFO @ Fri, 04 May 2018 07:32:00: 21000000 INFO @ Fri, 04 May 2018 07:32:01: 21000000 INFO @ Fri, 04 May 2018 07:32:02: 24000000 INFO @ Fri, 04 May 2018 07:32:08: 22000000 INFO @ Fri, 04 May 2018 07:32:08: 22000000 INFO @ Fri, 04 May 2018 07:32:09: 25000000 INFO @ Fri, 04 May 2018 07:32:15: 23000000 INFO @ Fri, 04 May 2018 07:32:15: 23000000 INFO @ Fri, 04 May 2018 07:32:16: 26000000 INFO @ Fri, 04 May 2018 07:32:22: 24000000 INFO @ Fri, 04 May 2018 07:32:22: 27000000 INFO @ Fri, 04 May 2018 07:32:23: 24000000 INFO @ Fri, 04 May 2018 07:32:29: 28000000 INFO @ Fri, 04 May 2018 07:32:29: 25000000 INFO @ Fri, 04 May 2018 07:32:30: 25000000 INFO @ Fri, 04 May 2018 07:32:36: 29000000 INFO @ Fri, 04 May 2018 07:32:37: 26000000 INFO @ Fri, 04 May 2018 07:32:38: 26000000 INFO @ Fri, 04 May 2018 07:32:43: 30000000 INFO @ Fri, 04 May 2018 07:32:44: 27000000 INFO @ Fri, 04 May 2018 07:32:45: 27000000 INFO @ Fri, 04 May 2018 07:32:49: 31000000 INFO @ Fri, 04 May 2018 07:32:51: 28000000 INFO @ Fri, 04 May 2018 07:32:52: 28000000 INFO @ Fri, 04 May 2018 07:32:56: 32000000 INFO @ Fri, 04 May 2018 07:32:58: 29000000 INFO @ Fri, 04 May 2018 07:33:00: 29000000 INFO @ Fri, 04 May 2018 07:33:03: 33000000 INFO @ Fri, 04 May 2018 07:33:05: 30000000 INFO @ Fri, 04 May 2018 07:33:07: 30000000 INFO @ Fri, 04 May 2018 07:33:10: 34000000 INFO @ Fri, 04 May 2018 07:33:13: 31000000 INFO @ Fri, 04 May 2018 07:33:15: 31000000 INFO @ Fri, 04 May 2018 07:33:17: 35000000 INFO @ Fri, 04 May 2018 07:33:20: 32000000 INFO @ Fri, 04 May 2018 07:33:22: 32000000 INFO @ Fri, 04 May 2018 07:33:23: 36000000 INFO @ Fri, 04 May 2018 07:33:27: 33000000 INFO @ Fri, 04 May 2018 07:33:30: 33000000 INFO @ Fri, 04 May 2018 07:33:30: 37000000 INFO @ Fri, 04 May 2018 07:33:34: 34000000 INFO @ Fri, 04 May 2018 07:33:37: 38000000 INFO @ Fri, 04 May 2018 07:33:38: 34000000 INFO @ Fri, 04 May 2018 07:33:42: 35000000 INFO @ Fri, 04 May 2018 07:33:44: 39000000 INFO @ Fri, 04 May 2018 07:33:46: 35000000 INFO @ Fri, 04 May 2018 07:33:48: #1 tag size is determined as 40 bps INFO @ Fri, 04 May 2018 07:33:48: #1 tag size = 40 INFO @ Fri, 04 May 2018 07:33:48: #1 total tags in treatment: 39526791 INFO @ Fri, 04 May 2018 07:33:48: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 07:33:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 07:33:48: #1 tags after filtering in treatment: 39526791 INFO @ Fri, 04 May 2018 07:33:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 04 May 2018 07:33:48: #1 finished! INFO @ Fri, 04 May 2018 07:33:48: #2 Build Peak Model... INFO @ Fri, 04 May 2018 07:33:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 07:33:49: 36000000 INFO @ Fri, 04 May 2018 07:33:51: #2 number of paired peaks: 56 WARNING @ Fri, 04 May 2018 07:33:51: Too few paired peaks (56) 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 @ Fri, 04 May 2018 07:33:51: Process for pairing-model is terminated! cat: SRX3011268.10_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 `SRX3011268.10_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 `SRX3011268.10_*.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 `SRX3011268.10_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 @ Fri, 04 May 2018 07:33:53: 36000000 INFO @ Fri, 04 May 2018 07:33:56: 37000000 INFO @ Fri, 04 May 2018 07:34:01: 37000000 INFO @ Fri, 04 May 2018 07:34:03: 38000000 INFO @ Fri, 04 May 2018 07:34:08: 38000000 INFO @ Fri, 04 May 2018 07:34:11: 39000000 INFO @ Fri, 04 May 2018 07:34:15: #1 tag size is determined as 40 bps INFO @ Fri, 04 May 2018 07:34:15: #1 tag size = 40 INFO @ Fri, 04 May 2018 07:34:15: #1 total tags in treatment: 39526791 INFO @ Fri, 04 May 2018 07:34:15: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 07:34:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 07:34:16: #1 tags after filtering in treatment: 39526791 INFO @ Fri, 04 May 2018 07:34:16: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 04 May 2018 07:34:16: #1 finished! INFO @ Fri, 04 May 2018 07:34:16: #2 Build Peak Model... INFO @ Fri, 04 May 2018 07:34:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 07:34:16: 39000000 INFO @ Fri, 04 May 2018 07:34:18: #2 number of paired peaks: 56 WARNING @ Fri, 04 May 2018 07:34:18: Too few paired peaks (56) 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 @ Fri, 04 May 2018 07:34:18: Process for pairing-model is terminated! cat: SRX3011268.20_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 `SRX3011268.20_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 `SRX3011268.20_*.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 `SRX3011268.20_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 @ Fri, 04 May 2018 07:34:20: #1 tag size is determined as 40 bps INFO @ Fri, 04 May 2018 07:34:20: #1 tag size = 40 INFO @ Fri, 04 May 2018 07:34:20: #1 total tags in treatment: 39526791 INFO @ Fri, 04 May 2018 07:34:20: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 07:34:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 07:34:21: #1 tags after filtering in treatment: 39526791 INFO @ Fri, 04 May 2018 07:34:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 04 May 2018 07:34:21: #1 finished! INFO @ Fri, 04 May 2018 07:34:21: #2 Build Peak Model... INFO @ Fri, 04 May 2018 07:34:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 07:34:23: #2 number of paired peaks: 56 WARNING @ Fri, 04 May 2018 07:34:23: Too few paired peaks (56) 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 @ Fri, 04 May 2018 07:34:23: Process for pairing-model is terminated! cat: SRX3011268.05_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 `SRX3011268.05_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 `SRX3011268.05_*.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 `SRX3011268.05_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。