Job ID = 2011052 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 24,449,088 reads read : 24,449,088 reads written : 24,449,088 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:37 24449088 reads; of these: 24449088 (100.00%) were unpaired; of these: 1688006 (6.90%) aligned 0 times 19674673 (80.47%) aligned exactly 1 time 3086409 (12.62%) aligned >1 times 93.10% overall alignment rate Time searching: 00:04:38 Overall time: 00:04:38 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] 11712562 / 22761082 = 0.5146 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 02:09:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.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, 06 Jul 2019 02:09:58: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:09:58: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:09:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.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, 06 Jul 2019 02:09:59: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:09:59: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:10:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.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, 06 Jul 2019 02:10:00: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:10:00: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:10:05: 1000000 INFO @ Sat, 06 Jul 2019 02:10:07: 1000000 INFO @ Sat, 06 Jul 2019 02:10:08: 1000000 INFO @ Sat, 06 Jul 2019 02:10:11: 2000000 INFO @ Sat, 06 Jul 2019 02:10:15: 2000000 INFO @ Sat, 06 Jul 2019 02:10:16: 2000000 INFO @ Sat, 06 Jul 2019 02:10:18: 3000000 INFO @ Sat, 06 Jul 2019 02:10:22: 3000000 INFO @ Sat, 06 Jul 2019 02:10:24: 4000000 INFO @ Sat, 06 Jul 2019 02:10:25: 3000000 INFO @ Sat, 06 Jul 2019 02:10:29: 4000000 INFO @ Sat, 06 Jul 2019 02:10:31: 5000000 INFO @ Sat, 06 Jul 2019 02:10:33: 4000000 INFO @ Sat, 06 Jul 2019 02:10:36: 5000000 INFO @ Sat, 06 Jul 2019 02:10:38: 6000000 INFO @ Sat, 06 Jul 2019 02:10:41: 5000000 INFO @ Sat, 06 Jul 2019 02:10:44: 6000000 INFO @ Sat, 06 Jul 2019 02:10:44: 7000000 INFO @ Sat, 06 Jul 2019 02:10:50: 6000000 INFO @ Sat, 06 Jul 2019 02:10:51: 7000000 INFO @ Sat, 06 Jul 2019 02:10:51: 8000000 INFO @ Sat, 06 Jul 2019 02:10:57: 9000000 INFO @ Sat, 06 Jul 2019 02:10:58: 8000000 INFO @ Sat, 06 Jul 2019 02:10:58: 7000000 INFO @ Sat, 06 Jul 2019 02:11:05: 9000000 INFO @ Sat, 06 Jul 2019 02:11:06: 10000000 INFO @ Sat, 06 Jul 2019 02:11:08: 8000000 INFO @ Sat, 06 Jul 2019 02:11:12: 10000000 INFO @ Sat, 06 Jul 2019 02:11:17: 11000000 INFO @ Sat, 06 Jul 2019 02:11:17: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:11:17: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:11:17: #1 total tags in treatment: 11048520 INFO @ Sat, 06 Jul 2019 02:11:17: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:11:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:11:18: #1 tags after filtering in treatment: 11048520 INFO @ Sat, 06 Jul 2019 02:11:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:11:18: #1 finished! INFO @ Sat, 06 Jul 2019 02:11:18: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:11:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:11:18: 9000000 INFO @ Sat, 06 Jul 2019 02:11:18: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:11:18: 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, 06 Jul 2019 02:11:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.05_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/SRX4553739/SRX4553739.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:11:19: 11000000 INFO @ Sat, 06 Jul 2019 02:11:20: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:11:20: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:11:20: #1 total tags in treatment: 11048520 INFO @ Sat, 06 Jul 2019 02:11:20: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:11:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:11:20: #1 tags after filtering in treatment: 11048520 INFO @ Sat, 06 Jul 2019 02:11:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:11:20: #1 finished! INFO @ Sat, 06 Jul 2019 02:11:20: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:11:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:11:21: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:11:21: 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, 06 Jul 2019 02:11:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.20_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/SRX4553739/SRX4553739.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:11:26: 10000000 INFO @ Sat, 06 Jul 2019 02:11:34: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:11:35: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:11:35: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:11:35: #1 total tags in treatment: 11048520 INFO @ Sat, 06 Jul 2019 02:11:35: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:11:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:11:35: #1 tags after filtering in treatment: 11048520 INFO @ Sat, 06 Jul 2019 02:11:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:11:35: #1 finished! INFO @ Sat, 06 Jul 2019 02:11:35: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:11:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:11:36: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:11:36: 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, 06 Jul 2019 02:11:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.10_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/SRX4553739/SRX4553739.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553739/SRX4553739.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。