Job ID = 2641060 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 65,216,549 reads read : 130,433,098 reads written : 65,216,549 reads 0-length : 65,216,549 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:10:53 65216549 reads; of these: 65216549 (100.00%) were unpaired; of these: 1455626 (2.23%) aligned 0 times 58186584 (89.22%) aligned exactly 1 time 5574339 (8.55%) aligned >1 times 97.77% overall alignment rate Time searching: 00:10:53 Overall time: 00:10:53 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 28 files... [bam_rmdupse_core] 46921297 / 63760923 = 0.7359 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:38:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 24 Aug 2019 21:38:42: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:38:42: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:38:49: 1000000 INFO @ Sat, 24 Aug 2019 21:38:56: 2000000 INFO @ Sat, 24 Aug 2019 21:39:03: 3000000 INFO @ Sat, 24 Aug 2019 21:39:11: 4000000 INFO @ Sat, 24 Aug 2019 21:39:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 24 Aug 2019 21:39:12: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:39:12: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:39:18: 5000000 INFO @ Sat, 24 Aug 2019 21:39:19: 1000000 INFO @ Sat, 24 Aug 2019 21:39:24: 6000000 INFO @ Sat, 24 Aug 2019 21:39:26: 2000000 INFO @ Sat, 24 Aug 2019 21:39:31: 7000000 INFO @ Sat, 24 Aug 2019 21:39:32: 3000000 INFO @ Sat, 24 Aug 2019 21:39:37: 8000000 INFO @ Sat, 24 Aug 2019 21:39:39: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:39:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 24 Aug 2019 21:39:42: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:39:42: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:39:44: 9000000 INFO @ Sat, 24 Aug 2019 21:39:45: 5000000 INFO @ Sat, 24 Aug 2019 21:39:50: 1000000 INFO @ Sat, 24 Aug 2019 21:39:52: 10000000 INFO @ Sat, 24 Aug 2019 21:39:52: 6000000 INFO @ Sat, 24 Aug 2019 21:39:58: 2000000 INFO @ Sat, 24 Aug 2019 21:39:59: 7000000 INFO @ Sat, 24 Aug 2019 21:39:59: 11000000 INFO @ Sat, 24 Aug 2019 21:40:05: 8000000 INFO @ Sat, 24 Aug 2019 21:40:06: 3000000 INFO @ Sat, 24 Aug 2019 21:40:07: 12000000 INFO @ Sat, 24 Aug 2019 21:40:12: 9000000 INFO @ Sat, 24 Aug 2019 21:40:14: 13000000 INFO @ Sat, 24 Aug 2019 21:40:14: 4000000 INFO @ Sat, 24 Aug 2019 21:40:19: 10000000 INFO @ Sat, 24 Aug 2019 21:40:21: 14000000 INFO @ Sat, 24 Aug 2019 21:40:22: 5000000 INFO @ Sat, 24 Aug 2019 21:40:27: 11000000 INFO @ Sat, 24 Aug 2019 21:40:28: 15000000 INFO @ Sat, 24 Aug 2019 21:40:30: 6000000 INFO @ Sat, 24 Aug 2019 21:40:34: 16000000 INFO @ Sat, 24 Aug 2019 21:40:35: 12000000 INFO @ Sat, 24 Aug 2019 21:40:38: 7000000 INFO @ Sat, 24 Aug 2019 21:40:40: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:40:40: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:40:40: #1 total tags in treatment: 16839626 INFO @ Sat, 24 Aug 2019 21:40:40: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:40:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 21:40:40: #1 tags after filtering in treatment: 16839626 INFO @ Sat, 24 Aug 2019 21:40:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:40:40: #1 finished! INFO @ Sat, 24 Aug 2019 21:40:40: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:40:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:40:42: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:40:42: Too few paired peaks (0) 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 @ Sat, 24 Aug 2019 21:40:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 24 Aug 2019 21:40:42: 13000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:40:46: 8000000 INFO @ Sat, 24 Aug 2019 21:40:49: 14000000 INFO @ Sat, 24 Aug 2019 21:40:54: 9000000 INFO @ Sat, 24 Aug 2019 21:40:55: 15000000 INFO @ Sat, 24 Aug 2019 21:41:01: 10000000 INFO @ Sat, 24 Aug 2019 21:41:02: 16000000 INFO @ Sat, 24 Aug 2019 21:41:08: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:41:08: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:41:08: #1 total tags in treatment: 16839626 INFO @ Sat, 24 Aug 2019 21:41:08: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:41:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 21:41:08: 11000000 INFO @ Sat, 24 Aug 2019 21:41:09: #1 tags after filtering in treatment: 16839626 INFO @ Sat, 24 Aug 2019 21:41:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:41:09: #1 finished! INFO @ Sat, 24 Aug 2019 21:41:09: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:41:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:41:10: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:41:10: Too few paired peaks (0) 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 @ Sat, 24 Aug 2019 21:41:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.10_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/sacCer3/SRX5257254/SRX5257254.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:41:15: 12000000 INFO @ Sat, 24 Aug 2019 21:41:23: 13000000 INFO @ Sat, 24 Aug 2019 21:41:30: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 21:41:38: 15000000 BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 21:41:46: 16000000 INFO @ Sat, 24 Aug 2019 21:41:53: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:41:53: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:41:53: #1 total tags in treatment: 16839626 INFO @ Sat, 24 Aug 2019 21:41:53: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:41:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 21:41:53: #1 tags after filtering in treatment: 16839626 INFO @ Sat, 24 Aug 2019 21:41:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:41:53: #1 finished! INFO @ Sat, 24 Aug 2019 21:41:53: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:41:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:41:54: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:41:54: Too few paired peaks (0) 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 @ Sat, 24 Aug 2019 21:41:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.20_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/sacCer3/SRX5257254/SRX5257254.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257254/SRX5257254.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling