Job ID = 4289600 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 32,749,461 reads read : 65,498,922 reads written : 32,749,461 reads 0-length : 32,749,461 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: 00:05:46 32749461 reads; of these: 32749461 (100.00%) were unpaired; of these: 864542 (2.64%) aligned 0 times 23885329 (72.93%) aligned exactly 1 time 7999590 (24.43%) aligned >1 times 97.36% overall alignment rate Time searching: 00:05:46 Overall time: 00:05:46 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 16 files... [bam_rmdupse_core] 18900207 / 31884919 = 0.5928 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 15:12:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.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 15:12:28: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:12:28: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:12:36: 1000000 INFO @ Tue, 10 Dec 2019 15:12:43: 2000000 INFO @ Tue, 10 Dec 2019 15:12:50: 3000000 INFO @ Tue, 10 Dec 2019 15:12:57: 4000000 INFO @ Tue, 10 Dec 2019 15:12:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.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 15:12:58: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:12:58: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:13:04: 5000000 INFO @ Tue, 10 Dec 2019 15:13:06: 1000000 INFO @ Tue, 10 Dec 2019 15:13:11: 6000000 INFO @ Tue, 10 Dec 2019 15:13:15: 2000000 INFO @ Tue, 10 Dec 2019 15:13:19: 7000000 INFO @ Tue, 10 Dec 2019 15:13:23: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 15:13:26: 8000000 INFO @ Tue, 10 Dec 2019 15:13:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.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 15:13:27: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:13:27: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:13:31: 4000000 INFO @ Tue, 10 Dec 2019 15:13:34: 9000000 INFO @ Tue, 10 Dec 2019 15:13:36: 1000000 INFO @ Tue, 10 Dec 2019 15:13:39: 5000000 INFO @ Tue, 10 Dec 2019 15:13:42: 10000000 INFO @ Tue, 10 Dec 2019 15:13:45: 2000000 INFO @ Tue, 10 Dec 2019 15:13:47: 6000000 INFO @ Tue, 10 Dec 2019 15:13:50: 11000000 INFO @ Tue, 10 Dec 2019 15:13:54: 3000000 INFO @ Tue, 10 Dec 2019 15:13:55: 7000000 INFO @ Tue, 10 Dec 2019 15:13:58: 12000000 INFO @ Tue, 10 Dec 2019 15:14:03: 8000000 INFO @ Tue, 10 Dec 2019 15:14:04: 4000000 INFO @ Tue, 10 Dec 2019 15:14:06: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:14:06: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:14:06: #1 total tags in treatment: 12984712 INFO @ Tue, 10 Dec 2019 15:14:06: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:14:06: #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 15:14:06: #1 tags after filtering in treatment: 12984712 INFO @ Tue, 10 Dec 2019 15:14:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:14:06: #1 finished! INFO @ Tue, 10 Dec 2019 15:14:06: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:14:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:14:07: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:14:07: 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 15:14:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.05_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/SRX7106972/SRX7106972.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:14:10: 9000000 INFO @ Tue, 10 Dec 2019 15:14:14: 5000000 INFO @ Tue, 10 Dec 2019 15:14:17: 10000000 INFO @ Tue, 10 Dec 2019 15:14:24: 11000000 INFO @ Tue, 10 Dec 2019 15:14:24: 6000000 INFO @ Tue, 10 Dec 2019 15:14:30: 12000000 INFO @ Tue, 10 Dec 2019 15:14:33: 7000000 INFO @ Tue, 10 Dec 2019 15:14:37: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:14:37: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:14:37: #1 total tags in treatment: 12984712 INFO @ Tue, 10 Dec 2019 15:14:37: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:14:37: #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 15:14:38: #1 tags after filtering in treatment: 12984712 INFO @ Tue, 10 Dec 2019 15:14:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:14:38: #1 finished! INFO @ Tue, 10 Dec 2019 15:14:38: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:14:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:14:39: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:14:39: 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 15:14:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.10_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/SRX7106972/SRX7106972.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:14:43: 8000000 INFO @ Tue, 10 Dec 2019 15:14:52: 9000000 INFO @ Tue, 10 Dec 2019 15:15:02: 10000000 INFO @ Tue, 10 Dec 2019 15:15:12: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 15:15:21: 12000000 INFO @ Tue, 10 Dec 2019 15:15:30: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:15:30: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:15:30: #1 total tags in treatment: 12984712 INFO @ Tue, 10 Dec 2019 15:15:30: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:15:30: #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 15:15:31: #1 tags after filtering in treatment: 12984712 INFO @ Tue, 10 Dec 2019 15:15:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:15:31: #1 finished! INFO @ Tue, 10 Dec 2019 15:15:31: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:15:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:15:32: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:15:32: 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 15:15:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.20_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/SRX7106972/SRX7106972.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106972/SRX7106972.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。