Job ID = 9158499 sra ファイルのダウンロード中... Completed: 1351273K bytes transferred in 13 seconds (835453K bits/sec), in 1 file, 2 directories. 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 60680564 spots for /home/okishinya/chipatlas/results/dm3/SRX1433399/SRR2919815.sra Written 60680564 spots total 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: 00:22:25 60680564 reads; of these: 60680564 (100.00%) were unpaired; of these: 4751395 (7.83%) aligned 0 times 40885859 (67.38%) aligned exactly 1 time 15043310 (24.79%) aligned >1 times 92.17% overall alignment rate Time searching: 00:22:25 Overall time: 00:22:25 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] 18787617 / 55929169 = 0.3359 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 @ Tue, 27 Jun 2017 17:45:29: # Command line: callpeak -t SRX1433399.bam -f BAM -g dm -n SRX1433399.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1433399.05 # format = BAM # ChIP-seq file = ['SRX1433399.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 @ Tue, 27 Jun 2017 17:45:29: # Command line: callpeak -t SRX1433399.bam -f BAM -g dm -n SRX1433399.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1433399.20 # format = BAM # ChIP-seq file = ['SRX1433399.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 @ Tue, 27 Jun 2017 17:45:29: #1 read tag files... INFO @ Tue, 27 Jun 2017 17:45:29: #1 read tag files... INFO @ Tue, 27 Jun 2017 17:45:29: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 17:45:29: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 17:45:29: # Command line: callpeak -t SRX1433399.bam -f BAM -g dm -n SRX1433399.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1433399.10 # format = BAM # ChIP-seq file = ['SRX1433399.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 @ Tue, 27 Jun 2017 17:45:29: #1 read tag files... INFO @ Tue, 27 Jun 2017 17:45:29: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 17:45:35: 1000000 INFO @ Tue, 27 Jun 2017 17:45:35: 1000000 INFO @ Tue, 27 Jun 2017 17:45:35: 1000000 INFO @ Tue, 27 Jun 2017 17:45:41: 2000000 INFO @ Tue, 27 Jun 2017 17:45:41: 2000000 INFO @ Tue, 27 Jun 2017 17:45:41: 2000000 INFO @ Tue, 27 Jun 2017 17:45:47: 3000000 INFO @ Tue, 27 Jun 2017 17:45:48: 3000000 INFO @ Tue, 27 Jun 2017 17:45:48: 3000000 INFO @ Tue, 27 Jun 2017 17:45:53: 4000000 INFO @ Tue, 27 Jun 2017 17:45:55: 4000000 INFO @ Tue, 27 Jun 2017 17:45:55: 4000000 INFO @ Tue, 27 Jun 2017 17:45:59: 5000000 INFO @ Tue, 27 Jun 2017 17:46:01: 5000000 INFO @ Tue, 27 Jun 2017 17:46:01: 5000000 INFO @ Tue, 27 Jun 2017 17:46:05: 6000000 INFO @ Tue, 27 Jun 2017 17:46:08: 6000000 INFO @ Tue, 27 Jun 2017 17:46:08: 6000000 INFO @ Tue, 27 Jun 2017 17:46:13: 7000000 INFO @ Tue, 27 Jun 2017 17:46:16: 7000000 INFO @ Tue, 27 Jun 2017 17:46:16: 7000000 INFO @ Tue, 27 Jun 2017 17:46:20: 8000000 INFO @ Tue, 27 Jun 2017 17:46:24: 8000000 INFO @ Tue, 27 Jun 2017 17:46:24: 8000000 INFO @ Tue, 27 Jun 2017 17:46:28: 9000000 INFO @ Tue, 27 Jun 2017 17:46:32: 9000000 INFO @ Tue, 27 Jun 2017 17:46:32: 9000000 INFO @ Tue, 27 Jun 2017 17:46:36: 10000000 INFO @ Tue, 27 Jun 2017 17:46:40: 10000000 INFO @ Tue, 27 Jun 2017 17:46:40: 10000000 INFO @ Tue, 27 Jun 2017 17:46:44: 11000000 INFO @ Tue, 27 Jun 2017 17:46:48: 11000000 INFO @ Tue, 27 Jun 2017 17:46:48: 11000000 INFO @ Tue, 27 Jun 2017 17:46:52: 12000000 INFO @ Tue, 27 Jun 2017 17:46:56: 12000000 INFO @ Tue, 27 Jun 2017 17:46:56: 12000000 INFO @ Tue, 27 Jun 2017 17:47:00: 13000000 INFO @ Tue, 27 Jun 2017 17:47:04: 13000000 INFO @ Tue, 27 Jun 2017 17:47:04: 13000000 INFO @ Tue, 27 Jun 2017 17:47:07: 14000000 INFO @ Tue, 27 Jun 2017 17:47:11: 14000000 INFO @ Tue, 27 Jun 2017 17:47:11: 14000000 INFO @ Tue, 27 Jun 2017 17:47:15: 15000000 INFO @ Tue, 27 Jun 2017 17:47:19: 15000000 INFO @ Tue, 27 Jun 2017 17:47:19: 15000000 INFO @ Tue, 27 Jun 2017 17:47:23: 16000000 INFO @ Tue, 27 Jun 2017 17:47:27: 16000000 INFO @ Tue, 27 Jun 2017 17:47:27: 16000000 INFO @ Tue, 27 Jun 2017 17:47:31: 17000000 INFO @ Tue, 27 Jun 2017 17:47:35: 17000000 INFO @ Tue, 27 Jun 2017 17:47:35: 17000000 INFO @ Tue, 27 Jun 2017 17:47:39: 18000000 INFO @ Tue, 27 Jun 2017 17:47:43: 18000000 INFO @ Tue, 27 Jun 2017 17:47:43: 18000000 INFO @ Tue, 27 Jun 2017 17:47:46: 19000000 INFO @ Tue, 27 Jun 2017 17:47:51: 19000000 INFO @ Tue, 27 Jun 2017 17:47:51: 19000000 INFO @ Tue, 27 Jun 2017 17:47:54: 20000000 INFO @ Tue, 27 Jun 2017 17:47:59: 20000000 INFO @ Tue, 27 Jun 2017 17:47:59: 20000000 INFO @ Tue, 27 Jun 2017 17:48:02: 21000000 INFO @ Tue, 27 Jun 2017 17:48:07: 21000000 INFO @ Tue, 27 Jun 2017 17:48:07: 21000000 INFO @ Tue, 27 Jun 2017 17:48:10: 22000000 INFO @ Tue, 27 Jun 2017 17:48:15: 22000000 INFO @ Tue, 27 Jun 2017 17:48:15: 22000000 INFO @ Tue, 27 Jun 2017 17:48:18: 23000000 INFO @ Tue, 27 Jun 2017 17:48:23: 23000000 INFO @ Tue, 27 Jun 2017 17:48:23: 23000000 INFO @ Tue, 27 Jun 2017 17:48:25: 24000000 INFO @ Tue, 27 Jun 2017 17:48:31: 24000000 INFO @ Tue, 27 Jun 2017 17:48:31: 24000000 INFO @ Tue, 27 Jun 2017 17:48:33: 25000000 INFO @ Tue, 27 Jun 2017 17:48:39: 25000000 INFO @ Tue, 27 Jun 2017 17:48:39: 25000000 INFO @ Tue, 27 Jun 2017 17:48:41: 26000000 INFO @ Tue, 27 Jun 2017 17:48:46: 26000000 INFO @ Tue, 27 Jun 2017 17:48:46: 26000000 INFO @ Tue, 27 Jun 2017 17:48:49: 27000000 INFO @ Tue, 27 Jun 2017 17:48:54: 27000000 INFO @ Tue, 27 Jun 2017 17:48:54: 27000000 INFO @ Tue, 27 Jun 2017 17:48:57: 28000000 INFO @ Tue, 27 Jun 2017 17:49:02: 28000000 INFO @ Tue, 27 Jun 2017 17:49:02: 28000000 INFO @ Tue, 27 Jun 2017 17:49:04: 29000000 INFO @ Tue, 27 Jun 2017 17:49:10: 29000000 INFO @ Tue, 27 Jun 2017 17:49:10: 29000000 INFO @ Tue, 27 Jun 2017 17:49:12: 30000000 INFO @ Tue, 27 Jun 2017 17:49:18: 30000000 INFO @ Tue, 27 Jun 2017 17:49:18: 30000000 INFO @ Tue, 27 Jun 2017 17:49:20: 31000000 INFO @ Tue, 27 Jun 2017 17:49:27: 31000000 INFO @ Tue, 27 Jun 2017 17:49:27: 31000000 INFO @ Tue, 27 Jun 2017 17:49:28: 32000000 INFO @ Tue, 27 Jun 2017 17:49:35: 32000000 INFO @ Tue, 27 Jun 2017 17:49:35: 32000000 INFO @ Tue, 27 Jun 2017 17:49:36: 33000000 INFO @ Tue, 27 Jun 2017 17:49:43: 33000000 INFO @ Tue, 27 Jun 2017 17:49:43: 33000000 INFO @ Tue, 27 Jun 2017 17:49:44: 34000000 INFO @ Tue, 27 Jun 2017 17:49:51: 34000000 INFO @ Tue, 27 Jun 2017 17:49:51: 34000000 INFO @ Tue, 27 Jun 2017 17:49:52: 35000000 INFO @ Tue, 27 Jun 2017 17:49:58: 35000000 INFO @ Tue, 27 Jun 2017 17:49:58: 35000000 INFO @ Tue, 27 Jun 2017 17:50:00: 36000000 INFO @ Tue, 27 Jun 2017 17:50:06: 36000000 INFO @ Tue, 27 Jun 2017 17:50:06: 36000000 INFO @ Tue, 27 Jun 2017 17:50:07: 37000000 INFO @ Tue, 27 Jun 2017 17:50:09: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 17:50:09: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 17:50:09: #1 total tags in treatment: 37141552 INFO @ Tue, 27 Jun 2017 17:50:09: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 17:50:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 17:50:10: #1 tags after filtering in treatment: 37141552 INFO @ Tue, 27 Jun 2017 17:50:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 17:50:10: #1 finished! INFO @ Tue, 27 Jun 2017 17:50:10: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 17:50:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 17:50:12: #2 number of paired peaks: 60 WARNING @ Tue, 27 Jun 2017 17:50:12: Too few paired peaks (60) 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 @ Tue, 27 Jun 2017 17:50:12: Process for pairing-model is terminated! cat: SRX1433399.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1433399.10_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 `SRX1433399.10_*.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 `SRX1433399.10_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 @ Tue, 27 Jun 2017 17:50:14: 37000000 INFO @ Tue, 27 Jun 2017 17:50:14: 37000000 INFO @ Tue, 27 Jun 2017 17:50:15: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 17:50:15: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 17:50:15: #1 total tags in treatment: 37141552 INFO @ Tue, 27 Jun 2017 17:50:15: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 17:50:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 17:50:15: #1 tag size is determined as 49 bps INFO @ Tue, 27 Jun 2017 17:50:15: #1 tag size = 49 INFO @ Tue, 27 Jun 2017 17:50:15: #1 total tags in treatment: 37141552 INFO @ Tue, 27 Jun 2017 17:50:15: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 17:50:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 17:50:16: #1 tags after filtering in treatment: 37141552 INFO @ Tue, 27 Jun 2017 17:50:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 17:50:16: #1 finished! INFO @ Tue, 27 Jun 2017 17:50:16: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 17:50:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 17:50:16: #1 tags after filtering in treatment: 37141552 INFO @ Tue, 27 Jun 2017 17:50:16: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 17:50:16: #1 finished! INFO @ Tue, 27 Jun 2017 17:50:16: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 17:50:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 17:50:18: #2 number of paired peaks: 60 WARNING @ Tue, 27 Jun 2017 17:50:18: Too few paired peaks (60) 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 @ Tue, 27 Jun 2017 17:50:18: Process for pairing-model is terminated! cat: SRX1433399.20_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 `SRX1433399.20_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 `SRX1433399.20_*.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 `SRX1433399.20_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 @ Tue, 27 Jun 2017 17:50:19: #2 number of paired peaks: 60 WARNING @ Tue, 27 Jun 2017 17:50:19: Too few paired peaks (60) 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 @ Tue, 27 Jun 2017 17:50:19: Process for pairing-model is terminated! cat: SRX1433399.05_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 `SRX1433399.05_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 `SRX1433399.05_*.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 `SRX1433399.05_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。