Job ID = 2641075 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 25,161,145 reads read : 50,322,290 reads written : 25,161,145 reads 0-length : 25,161,145 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: 00:04:21 25161145 reads; of these: 25161145 (100.00%) were unpaired; of these: 725422 (2.88%) aligned 0 times 22012991 (87.49%) aligned exactly 1 time 2422732 (9.63%) aligned >1 times 97.12% overall alignment rate Time searching: 00:04:21 Overall time: 00:04:21 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 12 files... [bam_rmdupse_core] 13608598 / 24435723 = 0.5569 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:26:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.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 21:26:13: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:26:13: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:26:20: 1000000 INFO @ Sat, 24 Aug 2019 21:26:26: 2000000 INFO @ Sat, 24 Aug 2019 21:26:33: 3000000 INFO @ Sat, 24 Aug 2019 21:26:39: 4000000 INFO @ Sat, 24 Aug 2019 21:26:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.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 21:26:42: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:26:42: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:26:46: 5000000 INFO @ Sat, 24 Aug 2019 21:26:50: 1000000 INFO @ Sat, 24 Aug 2019 21:26:52: 6000000 INFO @ Sat, 24 Aug 2019 21:26:57: 2000000 INFO @ Sat, 24 Aug 2019 21:26:59: 7000000 INFO @ Sat, 24 Aug 2019 21:27:04: 3000000 INFO @ Sat, 24 Aug 2019 21:27:05: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:27:11: 4000000 INFO @ Sat, 24 Aug 2019 21:27:12: 9000000 INFO @ Sat, 24 Aug 2019 21:27:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.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 21:27:12: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:27:12: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:27:18: 5000000 INFO @ Sat, 24 Aug 2019 21:27:19: 10000000 INFO @ Sat, 24 Aug 2019 21:27:20: 1000000 INFO @ Sat, 24 Aug 2019 21:27:25: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:27:25: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:27:25: #1 total tags in treatment: 10827125 INFO @ Sat, 24 Aug 2019 21:27:25: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:27:25: #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 21:27:25: #1 tags after filtering in treatment: 10827125 INFO @ Sat, 24 Aug 2019 21:27:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:27:25: #1 finished! INFO @ Sat, 24 Aug 2019 21:27:25: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:27:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:27:26: 6000000 INFO @ Sat, 24 Aug 2019 21:27:26: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:27:26: 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 21:27:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.05_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/sacCer3/SRX5257269/SRX5257269.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:27:27: 2000000 INFO @ Sat, 24 Aug 2019 21:27:33: 7000000 INFO @ Sat, 24 Aug 2019 21:27:35: 3000000 INFO @ Sat, 24 Aug 2019 21:27:40: 8000000 INFO @ Sat, 24 Aug 2019 21:27:42: 4000000 INFO @ Sat, 24 Aug 2019 21:27:47: 9000000 INFO @ Sat, 24 Aug 2019 21:27:49: 5000000 INFO @ Sat, 24 Aug 2019 21:27:54: 10000000 INFO @ Sat, 24 Aug 2019 21:27:56: 6000000 INFO @ Sat, 24 Aug 2019 21:28:00: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:28:00: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:28:00: #1 total tags in treatment: 10827125 INFO @ Sat, 24 Aug 2019 21:28:00: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:28:00: #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 21:28:00: #1 tags after filtering in treatment: 10827125 INFO @ Sat, 24 Aug 2019 21:28:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:28:00: #1 finished! INFO @ Sat, 24 Aug 2019 21:28:00: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:28:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:28:01: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:28:01: 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 21:28:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.10_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/SRX5257269/SRX5257269.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:28:03: 7000000 INFO @ Sat, 24 Aug 2019 21:28:10: 8000000 INFO @ Sat, 24 Aug 2019 21:28:17: 9000000 INFO @ Sat, 24 Aug 2019 21:28:24: 10000000 INFO @ Sat, 24 Aug 2019 21:28:30: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:28:30: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:28:30: #1 total tags in treatment: 10827125 INFO @ Sat, 24 Aug 2019 21:28:30: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:28:30: #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 21:28:30: #1 tags after filtering in treatment: 10827125 INFO @ Sat, 24 Aug 2019 21:28:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:28:30: #1 finished! INFO @ Sat, 24 Aug 2019 21:28:30: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:28:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:28:31: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:28:31: 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 21:28:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.20_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/SRX5257269/SRX5257269.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257269/SRX5257269.20_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。