Job ID = 2640882 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 23,449,559 reads read : 46,899,118 reads written : 23,449,559 reads 0-length : 23,449,559 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: 00:04:13 23449559 reads; of these: 23449559 (100.00%) were unpaired; of these: 3180415 (13.56%) aligned 0 times 17878377 (76.24%) aligned exactly 1 time 2390767 (10.20%) aligned >1 times 86.44% overall alignment rate Time searching: 00:04:13 Overall time: 00:04:13 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] 8838303 / 20269144 = 0.4360 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:52:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.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 19:52:28: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:52:28: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:52:35: 1000000 INFO @ Sat, 24 Aug 2019 19:52:42: 2000000 INFO @ Sat, 24 Aug 2019 19:52:48: 3000000 INFO @ Sat, 24 Aug 2019 19:52:55: 4000000 INFO @ Sat, 24 Aug 2019 19:52:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.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 19:52:57: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:52:57: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:53:02: 5000000 INFO @ Sat, 24 Aug 2019 19:53:05: 1000000 INFO @ Sat, 24 Aug 2019 19:53:08: 6000000 INFO @ Sat, 24 Aug 2019 19:53:13: 2000000 INFO @ Sat, 24 Aug 2019 19:53:15: 7000000 INFO @ Sat, 24 Aug 2019 19:53:20: 3000000 INFO @ Sat, 24 Aug 2019 19:53:22: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:53:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.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 19:53:27: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:53:27: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:53:29: 9000000 INFO @ Sat, 24 Aug 2019 19:53:29: 4000000 INFO @ Sat, 24 Aug 2019 19:53:36: 10000000 INFO @ Sat, 24 Aug 2019 19:53:36: 5000000 INFO @ Sat, 24 Aug 2019 19:53:38: 1000000 INFO @ Sat, 24 Aug 2019 19:53:42: 11000000 INFO @ Sat, 24 Aug 2019 19:53:44: 6000000 INFO @ Sat, 24 Aug 2019 19:53:45: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:53:45: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:53:45: #1 total tags in treatment: 11430841 INFO @ Sat, 24 Aug 2019 19:53:45: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:53:45: #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 19:53:46: #1 tags after filtering in treatment: 11430841 INFO @ Sat, 24 Aug 2019 19:53:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:53:46: #1 finished! INFO @ Sat, 24 Aug 2019 19:53:46: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:53:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:53:46: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:53:46: 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 19:53:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.05_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/SRX3944373/SRX3944373.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:53:48: 2000000 INFO @ Sat, 24 Aug 2019 19:53:52: 7000000 INFO @ Sat, 24 Aug 2019 19:53:58: 3000000 INFO @ Sat, 24 Aug 2019 19:53:59: 8000000 INFO @ Sat, 24 Aug 2019 19:54:07: 9000000 INFO @ Sat, 24 Aug 2019 19:54:07: 4000000 INFO @ Sat, 24 Aug 2019 19:54:14: 10000000 INFO @ Sat, 24 Aug 2019 19:54:17: 5000000 INFO @ Sat, 24 Aug 2019 19:54:22: 11000000 INFO @ Sat, 24 Aug 2019 19:54:25: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:54:25: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:54:25: #1 total tags in treatment: 11430841 INFO @ Sat, 24 Aug 2019 19:54:25: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:54:25: #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 19:54:25: #1 tags after filtering in treatment: 11430841 INFO @ Sat, 24 Aug 2019 19:54:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:54:25: #1 finished! INFO @ Sat, 24 Aug 2019 19:54:25: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:54:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:54:26: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:54:26: 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 19:54:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.10_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/SRX3944373/SRX3944373.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:54:27: 6000000 INFO @ Sat, 24 Aug 2019 19:54:36: 7000000 INFO @ Sat, 24 Aug 2019 19:54:45: 8000000 INFO @ Sat, 24 Aug 2019 19:54:54: 9000000 INFO @ Sat, 24 Aug 2019 19:55:02: 10000000 INFO @ Sat, 24 Aug 2019 19:55:11: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 19:55:15: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:55:15: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:55:15: #1 total tags in treatment: 11430841 INFO @ Sat, 24 Aug 2019 19:55:15: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:55:15: #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 19:55:15: #1 tags after filtering in treatment: 11430841 INFO @ Sat, 24 Aug 2019 19:55:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:55:15: #1 finished! INFO @ Sat, 24 Aug 2019 19:55:15: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:55:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:55:16: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:55:16: 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 19:55:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.20_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/SRX3944373/SRX3944373.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944373/SRX3944373.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。