Job ID = 10175239 sra ファイルのダウンロード中... Completed: 957707K bytes transferred in 39 seconds (200959K 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 53543860 spots for /home/okishinya/chipatlas/results/dm3/SRX2804217/SRR5534645.sra Written 53543860 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: 00:25:46 53543860 reads; of these: 53543860 (100.00%) were unpaired; of these: 1219040 (2.28%) aligned 0 times 35116841 (65.59%) aligned exactly 1 time 17207979 (32.14%) aligned >1 times 97.72% overall alignment rate Time searching: 00:25:46 Overall time: 00:25:46 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 24 files... [bam_rmdupse_core] 10059477 / 52324820 = 0.1923 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 12:22:34: # Command line: callpeak -t SRX2804217.bam -f BAM -g dm -n SRX2804217.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2804217.10 # format = BAM # ChIP-seq file = ['SRX2804217.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 12:22:34: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:22:34: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:22:34: # Command line: callpeak -t SRX2804217.bam -f BAM -g dm -n SRX2804217.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2804217.05 # format = BAM # ChIP-seq file = ['SRX2804217.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 12:22:34: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:22:34: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:22:34: # Command line: callpeak -t SRX2804217.bam -f BAM -g dm -n SRX2804217.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2804217.20 # format = BAM # ChIP-seq file = ['SRX2804217.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 12:22:34: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:22:34: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:22:41: 1000000 INFO @ Mon, 06 Nov 2017 12:22:41: 1000000 INFO @ Mon, 06 Nov 2017 12:22:41: 1000000 INFO @ Mon, 06 Nov 2017 12:22:47: 2000000 INFO @ Mon, 06 Nov 2017 12:22:47: 2000000 INFO @ Mon, 06 Nov 2017 12:22:48: 2000000 INFO @ Mon, 06 Nov 2017 12:22:54: 3000000 INFO @ Mon, 06 Nov 2017 12:22:54: 3000000 INFO @ Mon, 06 Nov 2017 12:22:55: 3000000 INFO @ Mon, 06 Nov 2017 12:23:01: 4000000 INFO @ Mon, 06 Nov 2017 12:23:01: 4000000 INFO @ Mon, 06 Nov 2017 12:23:01: 4000000 INFO @ Mon, 06 Nov 2017 12:23:08: 5000000 INFO @ Mon, 06 Nov 2017 12:23:08: 5000000 INFO @ Mon, 06 Nov 2017 12:23:08: 5000000 INFO @ Mon, 06 Nov 2017 12:23:14: 6000000 INFO @ Mon, 06 Nov 2017 12:23:14: 6000000 INFO @ Mon, 06 Nov 2017 12:23:14: 6000000 INFO @ Mon, 06 Nov 2017 12:23:21: 7000000 INFO @ Mon, 06 Nov 2017 12:23:21: 7000000 INFO @ Mon, 06 Nov 2017 12:23:21: 7000000 INFO @ Mon, 06 Nov 2017 12:23:27: 8000000 INFO @ Mon, 06 Nov 2017 12:23:28: 8000000 INFO @ Mon, 06 Nov 2017 12:23:28: 8000000 INFO @ Mon, 06 Nov 2017 12:23:34: 9000000 INFO @ Mon, 06 Nov 2017 12:23:34: 9000000 INFO @ Mon, 06 Nov 2017 12:23:34: 9000000 INFO @ Mon, 06 Nov 2017 12:23:40: 10000000 INFO @ Mon, 06 Nov 2017 12:23:41: 10000000 INFO @ Mon, 06 Nov 2017 12:23:41: 10000000 INFO @ Mon, 06 Nov 2017 12:23:47: 11000000 INFO @ Mon, 06 Nov 2017 12:23:48: 11000000 INFO @ Mon, 06 Nov 2017 12:23:48: 11000000 INFO @ Mon, 06 Nov 2017 12:23:54: 12000000 INFO @ Mon, 06 Nov 2017 12:23:55: 12000000 INFO @ Mon, 06 Nov 2017 12:23:55: 12000000 INFO @ Mon, 06 Nov 2017 12:24:01: 13000000 INFO @ Mon, 06 Nov 2017 12:24:01: 13000000 INFO @ Mon, 06 Nov 2017 12:24:01: 13000000 INFO @ Mon, 06 Nov 2017 12:24:08: 14000000 INFO @ Mon, 06 Nov 2017 12:24:08: 14000000 INFO @ Mon, 06 Nov 2017 12:24:08: 14000000 INFO @ Mon, 06 Nov 2017 12:24:14: 15000000 INFO @ Mon, 06 Nov 2017 12:24:15: 15000000 INFO @ Mon, 06 Nov 2017 12:24:15: 15000000 INFO @ Mon, 06 Nov 2017 12:24:21: 16000000 INFO @ Mon, 06 Nov 2017 12:24:21: 16000000 INFO @ Mon, 06 Nov 2017 12:24:21: 16000000 INFO @ Mon, 06 Nov 2017 12:24:27: 17000000 INFO @ Mon, 06 Nov 2017 12:24:27: 17000000 INFO @ Mon, 06 Nov 2017 12:24:28: 17000000 INFO @ Mon, 06 Nov 2017 12:24:34: 18000000 INFO @ Mon, 06 Nov 2017 12:24:34: 18000000 INFO @ Mon, 06 Nov 2017 12:24:34: 18000000 INFO @ Mon, 06 Nov 2017 12:24:40: 19000000 INFO @ Mon, 06 Nov 2017 12:24:41: 19000000 INFO @ Mon, 06 Nov 2017 12:24:41: 19000000 INFO @ Mon, 06 Nov 2017 12:24:46: 20000000 INFO @ Mon, 06 Nov 2017 12:24:47: 20000000 INFO @ Mon, 06 Nov 2017 12:24:47: 20000000 INFO @ Mon, 06 Nov 2017 12:24:52: 21000000 INFO @ Mon, 06 Nov 2017 12:24:54: 21000000 INFO @ Mon, 06 Nov 2017 12:24:54: 21000000 INFO @ Mon, 06 Nov 2017 12:24:58: 22000000 INFO @ Mon, 06 Nov 2017 12:25:00: 22000000 INFO @ Mon, 06 Nov 2017 12:25:00: 22000000 INFO @ Mon, 06 Nov 2017 12:25:04: 23000000 INFO @ Mon, 06 Nov 2017 12:25:07: 23000000 INFO @ Mon, 06 Nov 2017 12:25:07: 23000000 INFO @ Mon, 06 Nov 2017 12:25:10: 24000000 INFO @ Mon, 06 Nov 2017 12:25:13: 24000000 INFO @ Mon, 06 Nov 2017 12:25:13: 24000000 INFO @ Mon, 06 Nov 2017 12:25:17: 25000000 INFO @ Mon, 06 Nov 2017 12:25:20: 25000000 INFO @ Mon, 06 Nov 2017 12:25:20: 25000000 INFO @ Mon, 06 Nov 2017 12:25:23: 26000000 INFO @ Mon, 06 Nov 2017 12:25:26: 26000000 INFO @ Mon, 06 Nov 2017 12:25:26: 26000000 INFO @ Mon, 06 Nov 2017 12:25:29: 27000000 INFO @ Mon, 06 Nov 2017 12:25:32: 27000000 INFO @ Mon, 06 Nov 2017 12:25:33: 27000000 INFO @ Mon, 06 Nov 2017 12:25:35: 28000000 INFO @ Mon, 06 Nov 2017 12:25:39: 28000000 INFO @ Mon, 06 Nov 2017 12:25:39: 28000000 INFO @ Mon, 06 Nov 2017 12:25:41: 29000000 INFO @ Mon, 06 Nov 2017 12:25:45: 29000000 INFO @ Mon, 06 Nov 2017 12:25:46: 29000000 INFO @ Mon, 06 Nov 2017 12:25:47: 30000000 INFO @ Mon, 06 Nov 2017 12:25:52: 30000000 INFO @ Mon, 06 Nov 2017 12:25:53: 30000000 INFO @ Mon, 06 Nov 2017 12:25:54: 31000000 INFO @ Mon, 06 Nov 2017 12:25:59: 31000000 INFO @ Mon, 06 Nov 2017 12:25:59: 31000000 INFO @ Mon, 06 Nov 2017 12:26:01: 32000000 INFO @ Mon, 06 Nov 2017 12:26:06: 32000000 INFO @ Mon, 06 Nov 2017 12:26:06: 32000000 INFO @ Mon, 06 Nov 2017 12:26:07: 33000000 INFO @ Mon, 06 Nov 2017 12:26:14: 33000000 INFO @ Mon, 06 Nov 2017 12:26:14: 33000000 INFO @ Mon, 06 Nov 2017 12:26:15: 34000000 INFO @ Mon, 06 Nov 2017 12:26:22: 35000000 INFO @ Mon, 06 Nov 2017 12:26:22: 34000000 INFO @ Mon, 06 Nov 2017 12:26:23: 34000000 INFO @ Mon, 06 Nov 2017 12:26:29: 36000000 INFO @ Mon, 06 Nov 2017 12:26:30: 35000000 INFO @ Mon, 06 Nov 2017 12:26:31: 35000000 INFO @ Mon, 06 Nov 2017 12:26:37: 37000000 INFO @ Mon, 06 Nov 2017 12:26:38: 36000000 INFO @ Mon, 06 Nov 2017 12:26:40: 36000000 INFO @ Mon, 06 Nov 2017 12:26:44: 38000000 INFO @ Mon, 06 Nov 2017 12:26:46: 37000000 INFO @ Mon, 06 Nov 2017 12:26:48: 37000000 INFO @ Mon, 06 Nov 2017 12:26:51: 39000000 INFO @ Mon, 06 Nov 2017 12:26:54: 38000000 INFO @ Mon, 06 Nov 2017 12:26:57: 38000000 INFO @ Mon, 06 Nov 2017 12:26:59: 40000000 INFO @ Mon, 06 Nov 2017 12:27:02: 39000000 INFO @ Mon, 06 Nov 2017 12:27:06: 39000000 INFO @ Mon, 06 Nov 2017 12:27:06: 41000000 INFO @ Mon, 06 Nov 2017 12:27:10: 40000000 INFO @ Mon, 06 Nov 2017 12:27:14: 42000000 INFO @ Mon, 06 Nov 2017 12:27:14: 40000000 INFO @ Mon, 06 Nov 2017 12:27:16: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:27:16: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:27:16: #1 total tags in treatment: 42265343 INFO @ Mon, 06 Nov 2017 12:27:16: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:27:16: #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 12:27:17: #1 tags after filtering in treatment: 42265343 INFO @ Mon, 06 Nov 2017 12:27:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:27:17: #1 finished! INFO @ Mon, 06 Nov 2017 12:27:17: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:27:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:27:18: 41000000 INFO @ Mon, 06 Nov 2017 12:27:19: #2 number of paired peaks: 14 WARNING @ Mon, 06 Nov 2017 12:27:19: Too few paired peaks (14) 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 12:27:19: Process for pairing-model is terminated! cat: SRX2804217.10_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 `SRX2804217.10_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 `SRX2804217.10_*.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 `SRX2804217.10_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 12:27:22: 41000000 INFO @ Mon, 06 Nov 2017 12:27:25: 42000000 INFO @ Mon, 06 Nov 2017 12:27:27: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:27:27: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:27:27: #1 total tags in treatment: 42265343 INFO @ Mon, 06 Nov 2017 12:27:27: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:27:27: #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 12:27:28: #1 tags after filtering in treatment: 42265343 INFO @ Mon, 06 Nov 2017 12:27:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:27:28: #1 finished! INFO @ Mon, 06 Nov 2017 12:27:28: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:27:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:27:30: 42000000 INFO @ Mon, 06 Nov 2017 12:27:31: #2 number of paired peaks: 14 WARNING @ Mon, 06 Nov 2017 12:27:31: Too few paired peaks (14) 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 12:27:31: Process for pairing-model is terminated! cat: SRX2804217.20_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 `SRX2804217.20_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 `SRX2804217.20_*.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 `SRX2804217.20_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 @ Mon, 06 Nov 2017 12:27:32: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:27:32: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:27:32: #1 total tags in treatment: 42265343 INFO @ Mon, 06 Nov 2017 12:27:32: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:27:32: #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 12:27:33: #1 tags after filtering in treatment: 42265343 INFO @ Mon, 06 Nov 2017 12:27:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:27:33: #1 finished! INFO @ Mon, 06 Nov 2017 12:27:33: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:27:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:27:35: #2 number of paired peaks: 14 WARNING @ Mon, 06 Nov 2017 12:27:35: Too few paired peaks (14) 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 12:27:35: Process for pairing-model is terminated! cat: SRX2804217.05_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 `SRX2804217.05_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 `SRX2804217.05_*.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 `SRX2804217.05_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。