Job ID = 4289339 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 23,019,549 reads read : 23,019,549 reads written : 23,019,549 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: 00:04:37 23019549 reads; of these: 23019549 (100.00%) were unpaired; of these: 1037169 (4.51%) aligned 0 times 19644082 (85.34%) aligned exactly 1 time 2338298 (10.16%) aligned >1 times 95.49% overall alignment rate Time searching: 00:04:37 Overall time: 00:04:37 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] 11232219 / 21982380 = 0.5110 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:28:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.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 @ Tue, 10 Dec 2019 14:28:23: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:28:23: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:28:32: 1000000 INFO @ Tue, 10 Dec 2019 14:28:41: 2000000 INFO @ Tue, 10 Dec 2019 14:28:50: 3000000 INFO @ Tue, 10 Dec 2019 14:28:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.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 @ Tue, 10 Dec 2019 14:28:53: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:28:53: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:29:00: 4000000 INFO @ Tue, 10 Dec 2019 14:29:02: 1000000 INFO @ Tue, 10 Dec 2019 14:29:10: 5000000 INFO @ Tue, 10 Dec 2019 14:29:10: 2000000 INFO @ Tue, 10 Dec 2019 14:29:20: 6000000 INFO @ Tue, 10 Dec 2019 14:29:20: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:29:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.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 @ Tue, 10 Dec 2019 14:29:23: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:29:23: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:29:31: 7000000 INFO @ Tue, 10 Dec 2019 14:29:31: 4000000 INFO @ Tue, 10 Dec 2019 14:29:33: 1000000 INFO @ Tue, 10 Dec 2019 14:29:41: 5000000 INFO @ Tue, 10 Dec 2019 14:29:41: 8000000 INFO @ Tue, 10 Dec 2019 14:29:42: 2000000 INFO @ Tue, 10 Dec 2019 14:29:52: 6000000 INFO @ Tue, 10 Dec 2019 14:29:52: 3000000 INFO @ Tue, 10 Dec 2019 14:29:52: 9000000 INFO @ Tue, 10 Dec 2019 14:30:01: 4000000 INFO @ Tue, 10 Dec 2019 14:30:02: 7000000 INFO @ Tue, 10 Dec 2019 14:30:03: 10000000 INFO @ Tue, 10 Dec 2019 14:30:10: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:30:10: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:30:10: #1 total tags in treatment: 10750161 INFO @ Tue, 10 Dec 2019 14:30:10: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:30:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:30:10: #1 tags after filtering in treatment: 10750161 INFO @ Tue, 10 Dec 2019 14:30:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:30:10: #1 finished! INFO @ Tue, 10 Dec 2019 14:30:10: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:30:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:30:11: 5000000 INFO @ Tue, 10 Dec 2019 14:30:11: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:30:11: 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 @ Tue, 10 Dec 2019 14:30:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.05_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/SRX6678244/SRX6678244.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:30:12: 8000000 INFO @ Tue, 10 Dec 2019 14:30:20: 6000000 INFO @ Tue, 10 Dec 2019 14:30:22: 9000000 INFO @ Tue, 10 Dec 2019 14:30:29: 7000000 INFO @ Tue, 10 Dec 2019 14:30:31: 10000000 INFO @ Tue, 10 Dec 2019 14:30:38: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:30:38: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:30:38: #1 total tags in treatment: 10750161 INFO @ Tue, 10 Dec 2019 14:30:38: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:30:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:30:38: #1 tags after filtering in treatment: 10750161 INFO @ Tue, 10 Dec 2019 14:30:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:30:38: #1 finished! INFO @ Tue, 10 Dec 2019 14:30:38: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:30:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:30:39: 8000000 INFO @ Tue, 10 Dec 2019 14:30:39: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:30:39: 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 @ Tue, 10 Dec 2019 14:30:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.10_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/SRX6678244/SRX6678244.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:30:48: 9000000 INFO @ Tue, 10 Dec 2019 14:30:57: 10000000 INFO @ Tue, 10 Dec 2019 14:31:03: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:31:03: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:31:03: #1 total tags in treatment: 10750161 INFO @ Tue, 10 Dec 2019 14:31:03: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:31:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:31:03: #1 tags after filtering in treatment: 10750161 INFO @ Tue, 10 Dec 2019 14:31:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:31:03: #1 finished! INFO @ Tue, 10 Dec 2019 14:31:03: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:31:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:31:04: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:31:04: 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 @ Tue, 10 Dec 2019 14:31:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.20_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/SRX6678244/SRX6678244.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678244/SRX6678244.20_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。