Job ID = 2641035 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,480,830 reads read : 44,961,660 reads written : 22,480,830 reads 0-length : 22,480,830 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: 00:03:50 22480830 reads; of these: 22480830 (100.00%) were unpaired; of these: 1458118 (6.49%) aligned 0 times 18080269 (80.43%) aligned exactly 1 time 2942443 (13.09%) aligned >1 times 93.51% overall alignment rate Time searching: 00:03:50 Overall time: 00:03:50 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] 12830536 / 21022712 = 0.6103 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:01:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.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 21:01:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:01:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:01:16: 1000000 INFO @ Sat, 24 Aug 2019 21:01:24: 2000000 INFO @ Sat, 24 Aug 2019 21:01:31: 3000000 INFO @ Sat, 24 Aug 2019 21:01:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.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 21:01:38: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:01:38: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:01:39: 4000000 INFO @ Sat, 24 Aug 2019 21:01:46: 1000000 INFO @ Sat, 24 Aug 2019 21:01:46: 5000000 INFO @ Sat, 24 Aug 2019 21:01:54: 2000000 INFO @ Sat, 24 Aug 2019 21:01:54: 6000000 INFO @ Sat, 24 Aug 2019 21:02:02: 3000000 INFO @ Sat, 24 Aug 2019 21:02:02: 7000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:02:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.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 21:02:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:02:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:02:09: 4000000 INFO @ Sat, 24 Aug 2019 21:02:10: 8000000 INFO @ Sat, 24 Aug 2019 21:02:11: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:02:11: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:02:11: #1 total tags in treatment: 8192176 INFO @ Sat, 24 Aug 2019 21:02:11: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:02:11: #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 21:02:11: #1 tags after filtering in treatment: 8192176 INFO @ Sat, 24 Aug 2019 21:02:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:02:11: #1 finished! INFO @ Sat, 24 Aug 2019 21:02:11: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:02:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:02:12: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:02:12: 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 21:02:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.05_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/SRX5257232/SRX5257232.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:02:16: 1000000 INFO @ Sat, 24 Aug 2019 21:02:17: 5000000 INFO @ Sat, 24 Aug 2019 21:02:24: 2000000 INFO @ Sat, 24 Aug 2019 21:02:25: 6000000 INFO @ Sat, 24 Aug 2019 21:02:32: 3000000 INFO @ Sat, 24 Aug 2019 21:02:32: 7000000 INFO @ Sat, 24 Aug 2019 21:02:40: 4000000 INFO @ Sat, 24 Aug 2019 21:02:40: 8000000 INFO @ Sat, 24 Aug 2019 21:02:41: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:02:41: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:02:41: #1 total tags in treatment: 8192176 INFO @ Sat, 24 Aug 2019 21:02:41: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:02:41: #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 21:02:42: #1 tags after filtering in treatment: 8192176 INFO @ Sat, 24 Aug 2019 21:02:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:02:42: #1 finished! INFO @ Sat, 24 Aug 2019 21:02:42: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:02:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:02:42: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:02:42: 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 21:02:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.10_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/SRX5257232/SRX5257232.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:02:47: 5000000 INFO @ Sat, 24 Aug 2019 21:02:55: 6000000 INFO @ Sat, 24 Aug 2019 21:03:03: 7000000 INFO @ Sat, 24 Aug 2019 21:03:10: 8000000 INFO @ Sat, 24 Aug 2019 21:03:12: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:03:12: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:03:12: #1 total tags in treatment: 8192176 INFO @ Sat, 24 Aug 2019 21:03:12: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:03:12: #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 21:03:12: #1 tags after filtering in treatment: 8192176 INFO @ Sat, 24 Aug 2019 21:03:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:03:12: #1 finished! INFO @ Sat, 24 Aug 2019 21:03:12: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:03:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:03:13: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:03:13: 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 21:03:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.20_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/SRX5257232/SRX5257232.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257232/SRX5257232.20_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。