Job ID = 2590357 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 12,901,046 reads read : 25,802,092 reads written : 12,901,046 reads 0-length : 12,901,046 spots read : 12,801,479 reads read : 25,602,958 reads written : 12,801,479 reads 0-length : 12,801,479 spots read : 12,770,531 reads read : 25,541,062 reads written : 12,770,531 reads 0-length : 12,770,531 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: 00:12:52 38473056 reads; of these: 38473056 (100.00%) were unpaired; of these: 1358004 (3.53%) aligned 0 times 28228489 (73.37%) aligned exactly 1 time 8886563 (23.10%) aligned >1 times 96.47% overall alignment rate Time searching: 00:12:53 Overall time: 00:12:53 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] 4048244 / 37115052 = 0.1091 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, 12 Aug 2019 21:31:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.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, 12 Aug 2019 21:31:52: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:31:52: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:31:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.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, 12 Aug 2019 21:31:52: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:31:52: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:31:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.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, 12 Aug 2019 21:31:53: #1 read tag files... INFO @ Mon, 12 Aug 2019 21:31:53: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 21:32:00: 1000000 INFO @ Mon, 12 Aug 2019 21:32:01: 1000000 INFO @ Mon, 12 Aug 2019 21:32:02: 1000000 INFO @ Mon, 12 Aug 2019 21:32:08: 2000000 INFO @ Mon, 12 Aug 2019 21:32:09: 2000000 INFO @ Mon, 12 Aug 2019 21:32:10: 2000000 INFO @ Mon, 12 Aug 2019 21:32:16: 3000000 INFO @ Mon, 12 Aug 2019 21:32:17: 3000000 INFO @ Mon, 12 Aug 2019 21:32:18: 3000000 INFO @ Mon, 12 Aug 2019 21:32:24: 4000000 INFO @ Mon, 12 Aug 2019 21:32:25: 4000000 INFO @ Mon, 12 Aug 2019 21:32:26: 4000000 INFO @ Mon, 12 Aug 2019 21:32:32: 5000000 INFO @ Mon, 12 Aug 2019 21:32:33: 5000000 INFO @ Mon, 12 Aug 2019 21:32:34: 5000000 INFO @ Mon, 12 Aug 2019 21:32:40: 6000000 INFO @ Mon, 12 Aug 2019 21:32:41: 6000000 INFO @ Mon, 12 Aug 2019 21:32:42: 6000000 INFO @ Mon, 12 Aug 2019 21:32:47: 7000000 INFO @ Mon, 12 Aug 2019 21:32:49: 7000000 INFO @ Mon, 12 Aug 2019 21:32:49: 7000000 INFO @ Mon, 12 Aug 2019 21:32:55: 8000000 INFO @ Mon, 12 Aug 2019 21:32:57: 8000000 INFO @ Mon, 12 Aug 2019 21:32:57: 8000000 INFO @ Mon, 12 Aug 2019 21:33:03: 9000000 INFO @ Mon, 12 Aug 2019 21:33:05: 9000000 INFO @ Mon, 12 Aug 2019 21:33:05: 9000000 INFO @ Mon, 12 Aug 2019 21:33:11: 10000000 INFO @ Mon, 12 Aug 2019 21:33:13: 10000000 INFO @ Mon, 12 Aug 2019 21:33:13: 10000000 INFO @ Mon, 12 Aug 2019 21:33:18: 11000000 INFO @ Mon, 12 Aug 2019 21:33:20: 11000000 INFO @ Mon, 12 Aug 2019 21:33:21: 11000000 INFO @ Mon, 12 Aug 2019 21:33:26: 12000000 INFO @ Mon, 12 Aug 2019 21:33:28: 12000000 INFO @ Mon, 12 Aug 2019 21:33:29: 12000000 INFO @ Mon, 12 Aug 2019 21:33:34: 13000000 INFO @ Mon, 12 Aug 2019 21:33:37: 13000000 INFO @ Mon, 12 Aug 2019 21:33:37: 13000000 INFO @ Mon, 12 Aug 2019 21:33:42: 14000000 INFO @ Mon, 12 Aug 2019 21:33:45: 14000000 INFO @ Mon, 12 Aug 2019 21:33:46: 14000000 INFO @ Mon, 12 Aug 2019 21:33:50: 15000000 INFO @ Mon, 12 Aug 2019 21:33:53: 15000000 INFO @ Mon, 12 Aug 2019 21:33:54: 15000000 INFO @ Mon, 12 Aug 2019 21:33:58: 16000000 INFO @ Mon, 12 Aug 2019 21:34:01: 16000000 INFO @ Mon, 12 Aug 2019 21:34:02: 16000000 INFO @ Mon, 12 Aug 2019 21:34:06: 17000000 INFO @ Mon, 12 Aug 2019 21:34:09: 17000000 INFO @ Mon, 12 Aug 2019 21:34:10: 17000000 INFO @ Mon, 12 Aug 2019 21:34:13: 18000000 INFO @ Mon, 12 Aug 2019 21:34:17: 18000000 INFO @ Mon, 12 Aug 2019 21:34:17: 18000000 INFO @ Mon, 12 Aug 2019 21:34:21: 19000000 INFO @ Mon, 12 Aug 2019 21:34:25: 19000000 INFO @ Mon, 12 Aug 2019 21:34:25: 19000000 INFO @ Mon, 12 Aug 2019 21:34:29: 20000000 INFO @ Mon, 12 Aug 2019 21:34:32: 20000000 INFO @ Mon, 12 Aug 2019 21:34:33: 20000000 INFO @ Mon, 12 Aug 2019 21:34:36: 21000000 INFO @ Mon, 12 Aug 2019 21:34:40: 21000000 INFO @ Mon, 12 Aug 2019 21:34:41: 21000000 INFO @ Mon, 12 Aug 2019 21:34:44: 22000000 INFO @ Mon, 12 Aug 2019 21:34:48: 22000000 INFO @ Mon, 12 Aug 2019 21:34:48: 22000000 INFO @ Mon, 12 Aug 2019 21:34:52: 23000000 INFO @ Mon, 12 Aug 2019 21:34:56: 23000000 INFO @ Mon, 12 Aug 2019 21:34:56: 23000000 INFO @ Mon, 12 Aug 2019 21:34:59: 24000000 INFO @ Mon, 12 Aug 2019 21:35:04: 24000000 INFO @ Mon, 12 Aug 2019 21:35:04: 24000000 INFO @ Mon, 12 Aug 2019 21:35:07: 25000000 INFO @ Mon, 12 Aug 2019 21:35:11: 25000000 INFO @ Mon, 12 Aug 2019 21:35:12: 25000000 INFO @ Mon, 12 Aug 2019 21:35:15: 26000000 INFO @ Mon, 12 Aug 2019 21:35:19: 26000000 INFO @ Mon, 12 Aug 2019 21:35:20: 26000000 INFO @ Mon, 12 Aug 2019 21:35:23: 27000000 INFO @ Mon, 12 Aug 2019 21:35:27: 27000000 INFO @ Mon, 12 Aug 2019 21:35:27: 27000000 INFO @ Mon, 12 Aug 2019 21:35:30: 28000000 INFO @ Mon, 12 Aug 2019 21:35:35: 28000000 INFO @ Mon, 12 Aug 2019 21:35:35: 28000000 INFO @ Mon, 12 Aug 2019 21:35:38: 29000000 INFO @ Mon, 12 Aug 2019 21:35:43: 29000000 INFO @ Mon, 12 Aug 2019 21:35:43: 29000000 INFO @ Mon, 12 Aug 2019 21:35:46: 30000000 INFO @ Mon, 12 Aug 2019 21:35:51: 30000000 INFO @ Mon, 12 Aug 2019 21:35:51: 30000000 INFO @ Mon, 12 Aug 2019 21:35:53: 31000000 INFO @ Mon, 12 Aug 2019 21:35:58: 31000000 INFO @ Mon, 12 Aug 2019 21:35:59: 31000000 INFO @ Mon, 12 Aug 2019 21:36:01: 32000000 INFO @ Mon, 12 Aug 2019 21:36:06: 32000000 INFO @ Mon, 12 Aug 2019 21:36:07: 32000000 INFO @ Mon, 12 Aug 2019 21:36:09: 33000000 INFO @ Mon, 12 Aug 2019 21:36:10: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 21:36:10: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 21:36:10: #1 total tags in treatment: 33066808 INFO @ Mon, 12 Aug 2019 21:36:10: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:36:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 21:36:10: #1 tags after filtering in treatment: 33066808 INFO @ Mon, 12 Aug 2019 21:36:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 21:36:10: #1 finished! INFO @ Mon, 12 Aug 2019 21:36:10: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:36:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:36:13: #2 number of paired peaks: 63 WARNING @ Mon, 12 Aug 2019 21:36:13: Too few paired peaks (63) 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, 12 Aug 2019 21:36:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 21:36:14: 33000000 INFO @ Mon, 12 Aug 2019 21:36:14: 33000000 INFO @ Mon, 12 Aug 2019 21:36:15: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 21:36:15: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 21:36:15: #1 total tags in treatment: 33066808 INFO @ Mon, 12 Aug 2019 21:36:15: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:36:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 21:36:15: #1 tag size is determined as 51 bps INFO @ Mon, 12 Aug 2019 21:36:15: #1 tag size = 51 INFO @ Mon, 12 Aug 2019 21:36:15: #1 total tags in treatment: 33066808 INFO @ Mon, 12 Aug 2019 21:36:15: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 21:36:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 21:36:15: #1 tags after filtering in treatment: 33066808 INFO @ Mon, 12 Aug 2019 21:36:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 21:36:15: #1 finished! INFO @ Mon, 12 Aug 2019 21:36:15: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:36:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:36:16: #1 tags after filtering in treatment: 33066808 INFO @ Mon, 12 Aug 2019 21:36:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 21:36:16: #1 finished! INFO @ Mon, 12 Aug 2019 21:36:16: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 21:36:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 21:36:18: #2 number of paired peaks: 63 WARNING @ Mon, 12 Aug 2019 21:36:18: Too few paired peaks (63) 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, 12 Aug 2019 21:36:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 21:36:18: #2 number of paired peaks: 63 WARNING @ Mon, 12 Aug 2019 21:36:18: Too few paired peaks (63) 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, 12 Aug 2019 21:36:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981629/SRX3981629.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。