Job ID = 10175257 sra ファイルのダウンロード中... Completed: 697484K bytes transferred in 19 seconds (290925K 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 40256499 spots for /home/okishinya/chipatlas/results/dm3/SRX2804233/SRR5534661.sra Written 40256499 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:17:31 40256499 reads; of these: 40256499 (100.00%) were unpaired; of these: 1320987 (3.28%) aligned 0 times 25675547 (63.78%) aligned exactly 1 time 13259965 (32.94%) aligned >1 times 96.72% overall alignment rate Time searching: 00:17:32 Overall time: 00:17:32 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] 6135294 / 38935512 = 0.1576 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 12:31:19: # Command line: callpeak -t SRX2804233.bam -f BAM -g dm -n SRX2804233.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2804233.05 # format = BAM # ChIP-seq file = ['SRX2804233.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 12:31:19: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:31:19: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:31:19: # Command line: callpeak -t SRX2804233.bam -f BAM -g dm -n SRX2804233.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2804233.20 # format = BAM # ChIP-seq file = ['SRX2804233.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 12:31:19: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:31:19: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:31:19: # Command line: callpeak -t SRX2804233.bam -f BAM -g dm -n SRX2804233.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2804233.10 # format = BAM # ChIP-seq file = ['SRX2804233.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 12:31:19: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:31:19: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:31:25: 1000000 INFO @ Mon, 06 Nov 2017 12:31:25: 1000000 INFO @ Mon, 06 Nov 2017 12:31:25: 1000000 INFO @ Mon, 06 Nov 2017 12:31:31: 2000000 INFO @ Mon, 06 Nov 2017 12:31:31: 2000000 INFO @ Mon, 06 Nov 2017 12:31:31: 2000000 INFO @ Mon, 06 Nov 2017 12:31:37: 3000000 INFO @ Mon, 06 Nov 2017 12:31:37: 3000000 INFO @ Mon, 06 Nov 2017 12:31:38: 3000000 INFO @ Mon, 06 Nov 2017 12:31:43: 4000000 INFO @ Mon, 06 Nov 2017 12:31:43: 4000000 INFO @ Mon, 06 Nov 2017 12:31:44: 4000000 INFO @ Mon, 06 Nov 2017 12:31:49: 5000000 INFO @ Mon, 06 Nov 2017 12:31:50: 5000000 INFO @ Mon, 06 Nov 2017 12:31:50: 5000000 INFO @ Mon, 06 Nov 2017 12:31:55: 6000000 INFO @ Mon, 06 Nov 2017 12:31:56: 6000000 INFO @ Mon, 06 Nov 2017 12:31:57: 6000000 INFO @ Mon, 06 Nov 2017 12:32:00: 7000000 INFO @ Mon, 06 Nov 2017 12:32:02: 7000000 INFO @ Mon, 06 Nov 2017 12:32:03: 7000000 INFO @ Mon, 06 Nov 2017 12:32:06: 8000000 INFO @ Mon, 06 Nov 2017 12:32:08: 8000000 INFO @ Mon, 06 Nov 2017 12:32:10: 8000000 INFO @ Mon, 06 Nov 2017 12:32:12: 9000000 INFO @ Mon, 06 Nov 2017 12:32:15: 9000000 INFO @ Mon, 06 Nov 2017 12:32:16: 9000000 INFO @ Mon, 06 Nov 2017 12:32:18: 10000000 INFO @ Mon, 06 Nov 2017 12:32:21: 10000000 INFO @ Mon, 06 Nov 2017 12:32:23: 10000000 INFO @ Mon, 06 Nov 2017 12:32:25: 11000000 INFO @ Mon, 06 Nov 2017 12:32:28: 11000000 INFO @ Mon, 06 Nov 2017 12:32:30: 11000000 INFO @ Mon, 06 Nov 2017 12:32:32: 12000000 INFO @ Mon, 06 Nov 2017 12:32:34: 12000000 INFO @ Mon, 06 Nov 2017 12:32:36: 12000000 INFO @ Mon, 06 Nov 2017 12:32:38: 13000000 INFO @ Mon, 06 Nov 2017 12:32:41: 13000000 INFO @ Mon, 06 Nov 2017 12:32:43: 13000000 INFO @ Mon, 06 Nov 2017 12:32:45: 14000000 INFO @ Mon, 06 Nov 2017 12:32:47: 14000000 INFO @ Mon, 06 Nov 2017 12:32:49: 14000000 INFO @ Mon, 06 Nov 2017 12:32:51: 15000000 INFO @ Mon, 06 Nov 2017 12:32:53: 15000000 INFO @ Mon, 06 Nov 2017 12:32:55: 15000000 INFO @ Mon, 06 Nov 2017 12:32:58: 16000000 INFO @ Mon, 06 Nov 2017 12:33:00: 16000000 INFO @ Mon, 06 Nov 2017 12:33:01: 16000000 INFO @ Mon, 06 Nov 2017 12:33:04: 17000000 INFO @ Mon, 06 Nov 2017 12:33:06: 17000000 INFO @ Mon, 06 Nov 2017 12:33:07: 17000000 INFO @ Mon, 06 Nov 2017 12:33:10: 18000000 INFO @ Mon, 06 Nov 2017 12:33:12: 18000000 INFO @ Mon, 06 Nov 2017 12:33:13: 18000000 INFO @ Mon, 06 Nov 2017 12:33:17: 19000000 INFO @ Mon, 06 Nov 2017 12:33:19: 19000000 INFO @ Mon, 06 Nov 2017 12:33:19: 19000000 INFO @ Mon, 06 Nov 2017 12:33:23: 20000000 INFO @ Mon, 06 Nov 2017 12:33:25: 20000000 INFO @ Mon, 06 Nov 2017 12:33:25: 20000000 INFO @ Mon, 06 Nov 2017 12:33:30: 21000000 INFO @ Mon, 06 Nov 2017 12:33:31: 21000000 INFO @ Mon, 06 Nov 2017 12:33:35: 21000000 INFO @ Mon, 06 Nov 2017 12:33:36: 22000000 INFO @ Mon, 06 Nov 2017 12:33:38: 22000000 INFO @ Mon, 06 Nov 2017 12:33:43: 23000000 INFO @ Mon, 06 Nov 2017 12:33:44: 22000000 INFO @ Mon, 06 Nov 2017 12:33:44: 23000000 INFO @ Mon, 06 Nov 2017 12:33:50: 24000000 INFO @ Mon, 06 Nov 2017 12:33:51: 24000000 INFO @ Mon, 06 Nov 2017 12:33:52: 23000000 INFO @ Mon, 06 Nov 2017 12:33:56: 25000000 INFO @ Mon, 06 Nov 2017 12:33:57: 25000000 INFO @ Mon, 06 Nov 2017 12:33:58: 24000000 INFO @ Mon, 06 Nov 2017 12:34:03: 26000000 INFO @ Mon, 06 Nov 2017 12:34:03: 26000000 INFO @ Mon, 06 Nov 2017 12:34:04: 25000000 INFO @ Mon, 06 Nov 2017 12:34:09: 27000000 INFO @ Mon, 06 Nov 2017 12:34:10: 27000000 INFO @ Mon, 06 Nov 2017 12:34:10: 26000000 INFO @ Mon, 06 Nov 2017 12:34:15: 28000000 INFO @ Mon, 06 Nov 2017 12:34:16: 28000000 INFO @ Mon, 06 Nov 2017 12:34:16: 27000000 INFO @ Mon, 06 Nov 2017 12:34:22: 29000000 INFO @ Mon, 06 Nov 2017 12:34:22: 29000000 INFO @ Mon, 06 Nov 2017 12:34:23: 28000000 INFO @ Mon, 06 Nov 2017 12:34:28: 30000000 INFO @ Mon, 06 Nov 2017 12:34:28: 30000000 INFO @ Mon, 06 Nov 2017 12:34:29: 29000000 INFO @ Mon, 06 Nov 2017 12:34:34: 31000000 INFO @ Mon, 06 Nov 2017 12:34:35: 31000000 INFO @ Mon, 06 Nov 2017 12:34:35: 30000000 INFO @ Mon, 06 Nov 2017 12:34:40: 32000000 INFO @ Mon, 06 Nov 2017 12:34:41: 32000000 INFO @ Mon, 06 Nov 2017 12:34:41: 31000000 INFO @ Mon, 06 Nov 2017 12:34:46: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:34:46: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:34:46: #1 total tags in treatment: 32800218 INFO @ Mon, 06 Nov 2017 12:34:46: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:34:46: #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 12:34:46: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:34:46: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:34:46: #1 total tags in treatment: 32800218 INFO @ Mon, 06 Nov 2017 12:34:46: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:34:46: #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 12:34:46: #1 tags after filtering in treatment: 32800218 INFO @ Mon, 06 Nov 2017 12:34:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:34:46: #1 finished! INFO @ Mon, 06 Nov 2017 12:34:46: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:34:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:34:47: #1 tags after filtering in treatment: 32800218 INFO @ Mon, 06 Nov 2017 12:34:47: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:34:47: #1 finished! INFO @ Mon, 06 Nov 2017 12:34:47: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:34:47: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:34:47: 32000000 INFO @ Mon, 06 Nov 2017 12:34:48: #2 number of paired peaks: 58 WARNING @ Mon, 06 Nov 2017 12:34:48: Too few paired peaks (58) 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 12:34:48: Process for pairing-model is terminated! cat: SRX2804233.10_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 `SRX2804233.10_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 `SRX2804233.10_*.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 `SRX2804233.10_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 12:34:49: #2 number of paired peaks: 58 WARNING @ Mon, 06 Nov 2017 12:34:49: Too few paired peaks (58) 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 12:34:49: Process for pairing-model is terminated! cat: SRX2804233.05_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 `SRX2804233.05_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 `SRX2804233.05_*.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 `SRX2804233.05_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 12:34:52: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:34:52: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:34:52: #1 total tags in treatment: 32800218 INFO @ Mon, 06 Nov 2017 12:34:52: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:34:52: #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 12:34:53: #1 tags after filtering in treatment: 32800218 INFO @ Mon, 06 Nov 2017 12:34:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:34:53: #1 finished! INFO @ Mon, 06 Nov 2017 12:34:53: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:34:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:34:55: #2 number of paired peaks: 58 WARNING @ Mon, 06 Nov 2017 12:34:55: Too few paired peaks (58) 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 12:34:55: Process for pairing-model is terminated! cat: SRX2804233.20_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 `SRX2804233.20_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 `SRX2804233.20_*.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 `SRX2804233.20_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。