Job ID = 4289322 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,880,835 reads read : 22,880,835 reads written : 22,880,835 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: 00:04:42 22880835 reads; of these: 22880835 (100.00%) were unpaired; of these: 859297 (3.76%) aligned 0 times 19736763 (86.26%) aligned exactly 1 time 2284775 (9.99%) aligned >1 times 96.24% overall alignment rate Time searching: 00:04:42 Overall time: 00:04:42 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] 11553546 / 22021538 = 0.5246 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:20:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.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 14:20:39: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:20:39: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:20:49: 1000000 INFO @ Tue, 10 Dec 2019 14:21:00: 2000000 INFO @ Tue, 10 Dec 2019 14:21:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.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 14:21:08: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:21:08: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:21:10: 3000000 INFO @ Tue, 10 Dec 2019 14:21:19: 1000000 INFO @ Tue, 10 Dec 2019 14:21:21: 4000000 INFO @ Tue, 10 Dec 2019 14:21:29: 2000000 INFO @ Tue, 10 Dec 2019 14:21:32: 5000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:21:38: 3000000 INFO @ Tue, 10 Dec 2019 14:21:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.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 14:21:39: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:21:39: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:21:41: 6000000 INFO @ Tue, 10 Dec 2019 14:21:48: 4000000 INFO @ Tue, 10 Dec 2019 14:21:49: 7000000 INFO @ Tue, 10 Dec 2019 14:21:50: 1000000 INFO @ Tue, 10 Dec 2019 14:21:58: 8000000 INFO @ Tue, 10 Dec 2019 14:21:58: 5000000 INFO @ Tue, 10 Dec 2019 14:22:01: 2000000 INFO @ Tue, 10 Dec 2019 14:22:07: 9000000 INFO @ Tue, 10 Dec 2019 14:22:08: 6000000 INFO @ Tue, 10 Dec 2019 14:22:12: 3000000 INFO @ Tue, 10 Dec 2019 14:22:16: 10000000 INFO @ Tue, 10 Dec 2019 14:22:17: 7000000 INFO @ Tue, 10 Dec 2019 14:22:20: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:22:20: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:22:20: #1 total tags in treatment: 10467992 INFO @ Tue, 10 Dec 2019 14:22:20: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:22:20: #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 14:22:20: #1 tags after filtering in treatment: 10467992 INFO @ Tue, 10 Dec 2019 14:22:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:22:20: #1 finished! INFO @ Tue, 10 Dec 2019 14:22:20: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:22:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:22:22: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:22:22: 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 14:22:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.05_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/SRX6678238/SRX6678238.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:22:24: 4000000 INFO @ Tue, 10 Dec 2019 14:22:27: 8000000 INFO @ Tue, 10 Dec 2019 14:22:36: 5000000 INFO @ Tue, 10 Dec 2019 14:22:37: 9000000 INFO @ Tue, 10 Dec 2019 14:22:47: 6000000 INFO @ Tue, 10 Dec 2019 14:22:47: 10000000 INFO @ Tue, 10 Dec 2019 14:22:51: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:22:51: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:22:51: #1 total tags in treatment: 10467992 INFO @ Tue, 10 Dec 2019 14:22:51: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:22:51: #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 14:22:52: #1 tags after filtering in treatment: 10467992 INFO @ Tue, 10 Dec 2019 14:22:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:22:52: #1 finished! INFO @ Tue, 10 Dec 2019 14:22:52: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:22:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:22:52: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:22:52: 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 14:22:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.10_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/SRX6678238/SRX6678238.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:22:56: 7000000 INFO @ Tue, 10 Dec 2019 14:23:05: 8000000 INFO @ Tue, 10 Dec 2019 14:23:14: 9000000 INFO @ Tue, 10 Dec 2019 14:23:25: 10000000 INFO @ Tue, 10 Dec 2019 14:23:29: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:23:29: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:23:29: #1 total tags in treatment: 10467992 INFO @ Tue, 10 Dec 2019 14:23:29: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:23:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:23:29: #1 tags after filtering in treatment: 10467992 INFO @ Tue, 10 Dec 2019 14:23:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:23:29: #1 finished! INFO @ Tue, 10 Dec 2019 14:23:29: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:23:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:23:30: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:23:30: 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 14:23:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.20_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/SRX6678238/SRX6678238.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678238/SRX6678238.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。