Job ID = 2641077 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,073,538 reads read : 44,147,076 reads written : 22,073,538 reads 0-length : 22,073,538 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: 00:03:58 22073538 reads; of these: 22073538 (100.00%) were unpaired; of these: 434555 (1.97%) aligned 0 times 19206685 (87.01%) aligned exactly 1 time 2432298 (11.02%) aligned >1 times 98.03% overall alignment rate Time searching: 00:03:58 Overall time: 00:03:58 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] 12575222 / 21638983 = 0.5811 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:26:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.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 21:26:04: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:26:04: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:26:11: 1000000 INFO @ Sat, 24 Aug 2019 21:26:17: 2000000 INFO @ Sat, 24 Aug 2019 21:26:24: 3000000 INFO @ Sat, 24 Aug 2019 21:26:30: 4000000 INFO @ Sat, 24 Aug 2019 21:26:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.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 21:26:34: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:26:34: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:26:37: 5000000 INFO @ Sat, 24 Aug 2019 21:26:41: 1000000 INFO @ Sat, 24 Aug 2019 21:26:44: 6000000 INFO @ Sat, 24 Aug 2019 21:26:48: 2000000 INFO @ Sat, 24 Aug 2019 21:26:50: 7000000 INFO @ Sat, 24 Aug 2019 21:26:56: 3000000 INFO @ Sat, 24 Aug 2019 21:26:57: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:27:03: 4000000 INFO @ Sat, 24 Aug 2019 21:27:03: 9000000 INFO @ Sat, 24 Aug 2019 21:27:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.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 21:27:04: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:27:04: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:27:04: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:27:04: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:27:04: #1 total tags in treatment: 9063761 INFO @ Sat, 24 Aug 2019 21:27:04: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:27:04: #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 21:27:04: #1 tags after filtering in treatment: 9063761 INFO @ Sat, 24 Aug 2019 21:27:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:27:04: #1 finished! INFO @ Sat, 24 Aug 2019 21:27:04: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:27:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:27:05: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:27:05: 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 21:27:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.05_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/SRX5257271/SRX5257271.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:27:10: 5000000 INFO @ Sat, 24 Aug 2019 21:27:11: 1000000 INFO @ Sat, 24 Aug 2019 21:27:17: 6000000 INFO @ Sat, 24 Aug 2019 21:27:19: 2000000 INFO @ Sat, 24 Aug 2019 21:27:25: 7000000 INFO @ Sat, 24 Aug 2019 21:27:26: 3000000 INFO @ Sat, 24 Aug 2019 21:27:32: 8000000 INFO @ Sat, 24 Aug 2019 21:27:33: 4000000 INFO @ Sat, 24 Aug 2019 21:27:39: 9000000 INFO @ Sat, 24 Aug 2019 21:27:39: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:27:39: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:27:39: #1 total tags in treatment: 9063761 INFO @ Sat, 24 Aug 2019 21:27:39: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:27:39: #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 21:27:40: #1 tags after filtering in treatment: 9063761 INFO @ Sat, 24 Aug 2019 21:27:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:27:40: #1 finished! INFO @ Sat, 24 Aug 2019 21:27:40: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:27:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:27:40: 5000000 INFO @ Sat, 24 Aug 2019 21:27:40: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:27:40: 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 21:27:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.10_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/SRX5257271/SRX5257271.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:27:47: 6000000 INFO @ Sat, 24 Aug 2019 21:27:55: 7000000 INFO @ Sat, 24 Aug 2019 21:28:02: 8000000 INFO @ Sat, 24 Aug 2019 21:28:09: 9000000 INFO @ Sat, 24 Aug 2019 21:28:09: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:28:09: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:28:09: #1 total tags in treatment: 9063761 INFO @ Sat, 24 Aug 2019 21:28:09: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:28:09: #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 21:28:10: #1 tags after filtering in treatment: 9063761 INFO @ Sat, 24 Aug 2019 21:28:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:28:10: #1 finished! INFO @ Sat, 24 Aug 2019 21:28:10: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:28:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:28:10: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:28:10: 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 21:28:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.20_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/SRX5257271/SRX5257271.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257271/SRX5257271.20_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。