Job ID = 2641022 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 21,913,476 reads read : 21,913,476 reads written : 21,913,476 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: 00:04:08 21913476 reads; of these: 21913476 (100.00%) were unpaired; of these: 1221199 (5.57%) aligned 0 times 18470733 (84.29%) aligned exactly 1 time 2221544 (10.14%) aligned >1 times 94.43% overall alignment rate Time searching: 00:04:08 Overall time: 00:04:08 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] 10706614 / 20692277 = 0.5174 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:50:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.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 20:50:45: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:50:45: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:50:53: 1000000 INFO @ Sat, 24 Aug 2019 20:51:01: 2000000 INFO @ Sat, 24 Aug 2019 20:51:08: 3000000 INFO @ Sat, 24 Aug 2019 20:51:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.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 20:51:14: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:51:14: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:51:16: 4000000 INFO @ Sat, 24 Aug 2019 20:51:22: 1000000 INFO @ Sat, 24 Aug 2019 20:51:23: 5000000 INFO @ Sat, 24 Aug 2019 20:51:29: 2000000 INFO @ Sat, 24 Aug 2019 20:51:31: 6000000 INFO @ Sat, 24 Aug 2019 20:51:36: 3000000 INFO @ Sat, 24 Aug 2019 20:51:38: 7000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:51:42: 4000000 INFO @ Sat, 24 Aug 2019 20:51:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.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 20:51:45: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:51:45: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:51:46: 8000000 INFO @ Sat, 24 Aug 2019 20:51:49: 5000000 INFO @ Sat, 24 Aug 2019 20:51:51: 1000000 INFO @ Sat, 24 Aug 2019 20:51:53: 9000000 INFO @ Sat, 24 Aug 2019 20:51:56: 6000000 INFO @ Sat, 24 Aug 2019 20:51:58: 2000000 INFO @ Sat, 24 Aug 2019 20:52:01: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:52:01: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:52:01: #1 total tags in treatment: 9985663 INFO @ Sat, 24 Aug 2019 20:52:01: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:52:01: #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 20:52:01: #1 tags after filtering in treatment: 9985663 INFO @ Sat, 24 Aug 2019 20:52:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:52:01: #1 finished! INFO @ Sat, 24 Aug 2019 20:52:01: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:52:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:52:02: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:52:02: 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 20:52:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.05_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/SRX5257219/SRX5257219.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:52:03: 7000000 INFO @ Sat, 24 Aug 2019 20:52:04: 3000000 INFO @ Sat, 24 Aug 2019 20:52:10: 8000000 INFO @ Sat, 24 Aug 2019 20:52:10: 4000000 INFO @ Sat, 24 Aug 2019 20:52:16: 9000000 INFO @ Sat, 24 Aug 2019 20:52:16: 5000000 INFO @ Sat, 24 Aug 2019 20:52:23: 6000000 INFO @ Sat, 24 Aug 2019 20:52:23: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:52:23: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:52:23: #1 total tags in treatment: 9985663 INFO @ Sat, 24 Aug 2019 20:52:23: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:52:23: #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 20:52:23: #1 tags after filtering in treatment: 9985663 INFO @ Sat, 24 Aug 2019 20:52:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:52:23: #1 finished! INFO @ Sat, 24 Aug 2019 20:52:23: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:52:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:52:24: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:52:24: 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 20:52:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.10_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/SRX5257219/SRX5257219.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:52:29: 7000000 INFO @ Sat, 24 Aug 2019 20:52:35: 8000000 INFO @ Sat, 24 Aug 2019 20:52:42: 9000000 INFO @ Sat, 24 Aug 2019 20:52:48: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:52:48: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:52:48: #1 total tags in treatment: 9985663 INFO @ Sat, 24 Aug 2019 20:52:48: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:52:48: #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 20:52:48: #1 tags after filtering in treatment: 9985663 INFO @ Sat, 24 Aug 2019 20:52:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:52:48: #1 finished! INFO @ Sat, 24 Aug 2019 20:52:48: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:52:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:52:49: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:52:49: 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 20:52:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.20_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/SRX5257219/SRX5257219.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257219/SRX5257219.20_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。