Job ID = 2641042 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 19,154,288 reads read : 38,308,576 reads written : 19,154,288 reads 0-length : 19,154,288 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: 00:03:20 19154288 reads; of these: 19154288 (100.00%) were unpaired; of these: 899941 (4.70%) aligned 0 times 16489703 (86.09%) aligned exactly 1 time 1764644 (9.21%) aligned >1 times 95.30% overall alignment rate Time searching: 00:03:20 Overall time: 00:03:20 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 8 files... [bam_rmdupse_core] 9514483 / 18254347 = 0.5212 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:06:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.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 21:06:52: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:06:52: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:07:00: 1000000 INFO @ Sat, 24 Aug 2019 21:07:09: 2000000 INFO @ Sat, 24 Aug 2019 21:07:18: 3000000 INFO @ Sat, 24 Aug 2019 21:07:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.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 21:07:22: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:07:22: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:07:26: 4000000 INFO @ Sat, 24 Aug 2019 21:07:29: 1000000 INFO @ Sat, 24 Aug 2019 21:07:35: 5000000 INFO @ Sat, 24 Aug 2019 21:07:36: 2000000 INFO @ Sat, 24 Aug 2019 21:07:43: 3000000 INFO @ Sat, 24 Aug 2019 21:07:43: 6000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:07:50: 4000000 INFO @ Sat, 24 Aug 2019 21:07:52: 7000000 INFO @ Sat, 24 Aug 2019 21:07:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.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 21:07:52: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:07:52: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:07:58: 5000000 INFO @ Sat, 24 Aug 2019 21:07:59: 1000000 INFO @ Sat, 24 Aug 2019 21:08:00: 8000000 INFO @ Sat, 24 Aug 2019 21:08:05: 6000000 INFO @ Sat, 24 Aug 2019 21:08:06: 2000000 INFO @ Sat, 24 Aug 2019 21:08:07: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:08:07: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:08:07: #1 total tags in treatment: 8739864 INFO @ Sat, 24 Aug 2019 21:08:07: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:08:07: #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 21:08:07: #1 tags after filtering in treatment: 8739864 INFO @ Sat, 24 Aug 2019 21:08:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:08:07: #1 finished! INFO @ Sat, 24 Aug 2019 21:08:07: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:08:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:08:08: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:08:08: 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 21:08:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.05_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/SRX5257239/SRX5257239.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:08:12: 7000000 INFO @ Sat, 24 Aug 2019 21:08:14: 3000000 INFO @ Sat, 24 Aug 2019 21:08:19: 8000000 INFO @ Sat, 24 Aug 2019 21:08:21: 4000000 INFO @ Sat, 24 Aug 2019 21:08:24: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:08:24: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:08:24: #1 total tags in treatment: 8739864 INFO @ Sat, 24 Aug 2019 21:08:24: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:08:24: #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 21:08:24: #1 tags after filtering in treatment: 8739864 INFO @ Sat, 24 Aug 2019 21:08:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:08:24: #1 finished! INFO @ Sat, 24 Aug 2019 21:08:24: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:08:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:08:25: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:08:25: 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 21:08:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.10_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/SRX5257239/SRX5257239.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:08:28: 5000000 INFO @ Sat, 24 Aug 2019 21:08:35: 6000000 INFO @ Sat, 24 Aug 2019 21:08:42: 7000000 INFO @ Sat, 24 Aug 2019 21:08:49: 8000000 INFO @ Sat, 24 Aug 2019 21:08:54: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:08:54: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:08:54: #1 total tags in treatment: 8739864 INFO @ Sat, 24 Aug 2019 21:08:54: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:08:54: #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 21:08:54: #1 tags after filtering in treatment: 8739864 INFO @ Sat, 24 Aug 2019 21:08:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:08:54: #1 finished! INFO @ Sat, 24 Aug 2019 21:08:54: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:08:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:08:55: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:08:55: 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 21:08:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.20_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/SRX5257239/SRX5257239.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257239/SRX5257239.20_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。