Job ID = 2640855 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-08-24T10:29:16 fasterq-dump.2.9.6 fatal: SIGNAL - Segmentation fault spots read : 24,172,589 reads read : 48,345,178 reads written : 24,172,589 reads 0-length : 24,172,589 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: 00:04:09 24172589 reads; of these: 24172589 (100.00%) were unpaired; of these: 4297820 (17.78%) aligned 0 times 18035857 (74.61%) aligned exactly 1 time 1838912 (7.61%) aligned >1 times 82.22% overall alignment rate Time searching: 00:04:09 Overall time: 00:04:09 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] 9497876 / 19874769 = 0.4779 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:45:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.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 19:45:32: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:45:32: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:45:40: 1000000 INFO @ Sat, 24 Aug 2019 19:45:46: 2000000 INFO @ Sat, 24 Aug 2019 19:45:52: 3000000 INFO @ Sat, 24 Aug 2019 19:45:59: 4000000 INFO @ Sat, 24 Aug 2019 19:46:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.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 19:46:02: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:46:02: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:46:05: 5000000 INFO @ Sat, 24 Aug 2019 19:46:09: 1000000 INFO @ Sat, 24 Aug 2019 19:46:11: 6000000 INFO @ Sat, 24 Aug 2019 19:46:17: 2000000 INFO @ Sat, 24 Aug 2019 19:46:17: 7000000 INFO @ Sat, 24 Aug 2019 19:46:24: 8000000 INFO @ Sat, 24 Aug 2019 19:46:25: 3000000 INFO @ Sat, 24 Aug 2019 19:46:30: 9000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:46:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.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 19:46:32: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:46:32: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:46:33: 4000000 INFO @ Sat, 24 Aug 2019 19:46:36: 10000000 INFO @ Sat, 24 Aug 2019 19:46:39: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:46:39: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:46:39: #1 total tags in treatment: 10376893 INFO @ Sat, 24 Aug 2019 19:46:39: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:46:39: #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 19:46:39: #1 tags after filtering in treatment: 10376893 INFO @ Sat, 24 Aug 2019 19:46:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:46:39: #1 finished! INFO @ Sat, 24 Aug 2019 19:46:39: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:46:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:46:40: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:46:40: 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 19:46:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.05_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/SRX3944352/SRX3944352.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:46:41: 5000000 INFO @ Sat, 24 Aug 2019 19:46:41: 1000000 INFO @ Sat, 24 Aug 2019 19:46:47: 2000000 INFO @ Sat, 24 Aug 2019 19:46:48: 6000000 INFO @ Sat, 24 Aug 2019 19:46:53: 3000000 INFO @ Sat, 24 Aug 2019 19:46:56: 7000000 INFO @ Sat, 24 Aug 2019 19:47:00: 4000000 INFO @ Sat, 24 Aug 2019 19:47:04: 8000000 INFO @ Sat, 24 Aug 2019 19:47:06: 5000000 INFO @ Sat, 24 Aug 2019 19:47:12: 9000000 INFO @ Sat, 24 Aug 2019 19:47:12: 6000000 INFO @ Sat, 24 Aug 2019 19:47:18: 7000000 INFO @ Sat, 24 Aug 2019 19:47:19: 10000000 INFO @ Sat, 24 Aug 2019 19:47:22: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:47:22: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:47:22: #1 total tags in treatment: 10376893 INFO @ Sat, 24 Aug 2019 19:47:22: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:47:22: #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 19:47:23: #1 tags after filtering in treatment: 10376893 INFO @ Sat, 24 Aug 2019 19:47:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:47:23: #1 finished! INFO @ Sat, 24 Aug 2019 19:47:23: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:47:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:47:23: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:47:23: 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 19:47:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.10_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/SRX3944352/SRX3944352.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:47:24: 8000000 INFO @ Sat, 24 Aug 2019 19:47:30: 9000000 INFO @ Sat, 24 Aug 2019 19:47:36: 10000000 INFO @ Sat, 24 Aug 2019 19:47:39: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:47:39: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:47:39: #1 total tags in treatment: 10376893 INFO @ Sat, 24 Aug 2019 19:47:39: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:47:39: #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 19:47:39: #1 tags after filtering in treatment: 10376893 INFO @ Sat, 24 Aug 2019 19:47:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:47:39: #1 finished! INFO @ Sat, 24 Aug 2019 19:47:39: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:47:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:47:40: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:47:40: 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 19:47:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.20_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/SRX3944352/SRX3944352.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944352/SRX3944352.20_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。