Job ID = 2641087 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 61,689,697 reads read : 61,689,697 reads written : 61,689,697 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: 00:00:01 Multiseed full-index search: 00:10:33 61689697 reads; of these: 61689697 (100.00%) were unpaired; of these: 3854822 (6.25%) aligned 0 times 44719589 (72.49%) aligned exactly 1 time 13115286 (21.26%) aligned >1 times 93.75% overall alignment rate Time searching: 00:10:34 Overall time: 00:10:34 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 24 files... [bam_rmdupse_core] 45928626 / 57834875 = 0.7941 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:57:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.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 21:57:45: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:57:45: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:57:53: 1000000 INFO @ Sat, 24 Aug 2019 21:58:01: 2000000 INFO @ Sat, 24 Aug 2019 21:58:09: 3000000 INFO @ Sat, 24 Aug 2019 21:58:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.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 21:58:15: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:58:15: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:58:17: 4000000 INFO @ Sat, 24 Aug 2019 21:58:23: 1000000 INFO @ Sat, 24 Aug 2019 21:58:25: 5000000 INFO @ Sat, 24 Aug 2019 21:58:31: 2000000 INFO @ Sat, 24 Aug 2019 21:58:35: 6000000 INFO @ Sat, 24 Aug 2019 21:58:38: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:58:44: 7000000 INFO @ Sat, 24 Aug 2019 21:58:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.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 21:58:45: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:58:45: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:58:46: 4000000 INFO @ Sat, 24 Aug 2019 21:58:54: 5000000 INFO @ Sat, 24 Aug 2019 21:58:55: 8000000 INFO @ Sat, 24 Aug 2019 21:58:56: 1000000 INFO @ Sat, 24 Aug 2019 21:59:02: 6000000 INFO @ Sat, 24 Aug 2019 21:59:06: 9000000 INFO @ Sat, 24 Aug 2019 21:59:08: 2000000 INFO @ Sat, 24 Aug 2019 21:59:10: 7000000 INFO @ Sat, 24 Aug 2019 21:59:17: 10000000 INFO @ Sat, 24 Aug 2019 21:59:18: 8000000 INFO @ Sat, 24 Aug 2019 21:59:19: 3000000 INFO @ Sat, 24 Aug 2019 21:59:26: 9000000 INFO @ Sat, 24 Aug 2019 21:59:28: 11000000 INFO @ Sat, 24 Aug 2019 21:59:30: 4000000 INFO @ Sat, 24 Aug 2019 21:59:33: 10000000 INFO @ Sat, 24 Aug 2019 21:59:38: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:59:38: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:59:38: #1 total tags in treatment: 11906249 INFO @ Sat, 24 Aug 2019 21:59:38: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:59:38: #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 21:59:38: #1 tags after filtering in treatment: 11906249 INFO @ Sat, 24 Aug 2019 21:59:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:59:38: #1 finished! INFO @ Sat, 24 Aug 2019 21:59:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:59:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:59:39: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:59:39: 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 @ Sat, 24 Aug 2019 21:59:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.05_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/SRX5431190/SRX5431190.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:59:40: 5000000 INFO @ Sat, 24 Aug 2019 21:59:41: 11000000 INFO @ Sat, 24 Aug 2019 21:59:48: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:59:48: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:59:48: #1 total tags in treatment: 11906249 INFO @ Sat, 24 Aug 2019 21:59:48: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:59:48: #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 21:59:48: #1 tags after filtering in treatment: 11906249 INFO @ Sat, 24 Aug 2019 21:59:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:59:48: #1 finished! INFO @ Sat, 24 Aug 2019 21:59:48: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:59:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:59:49: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:59:49: 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 21:59:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.10_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/SRX5431190/SRX5431190.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:59:49: 6000000 INFO @ Sat, 24 Aug 2019 21:59:59: 7000000 INFO @ Sat, 24 Aug 2019 22:00:09: 8000000 INFO @ Sat, 24 Aug 2019 22:00:18: 9000000 INFO @ Sat, 24 Aug 2019 22:00:28: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 22:00:37: 11000000 INFO @ Sat, 24 Aug 2019 22:00:45: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:00:45: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:00:45: #1 total tags in treatment: 11906249 INFO @ Sat, 24 Aug 2019 22:00:45: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:00:45: #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 22:00:45: #1 tags after filtering in treatment: 11906249 INFO @ Sat, 24 Aug 2019 22:00:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:00:45: #1 finished! INFO @ Sat, 24 Aug 2019 22:00:45: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:00:45: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 22:00:46: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:00:46: 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 22:00:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.20_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/SRX5431190/SRX5431190.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431190/SRX5431190.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling