Job ID = 2010965 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 7,798,469 reads read : 15,596,938 reads written : 7,798,469 reads 0-length : 7,798,469 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: 00:01:36 7798469 reads; of these: 7798469 (100.00%) were unpaired; of these: 1446755 (18.55%) aligned 0 times 5073625 (65.06%) aligned exactly 1 time 1278089 (16.39%) aligned >1 times 81.45% overall alignment rate Time searching: 00:01:36 Overall time: 00:01:36 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_rmdupse_core] 1781813 / 6351714 = 0.2805 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 01:33:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.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, 06 Jul 2019 01:33:06: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:33:06: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:33:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.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, 06 Jul 2019 01:33:07: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:33:07: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:33:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.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, 06 Jul 2019 01:33:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:33:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:33:16: 1000000 INFO @ Sat, 06 Jul 2019 01:33:18: 1000000 INFO @ Sat, 06 Jul 2019 01:33:18: 1000000 INFO @ Sat, 06 Jul 2019 01:33:24: 2000000 INFO @ Sat, 06 Jul 2019 01:33:28: 2000000 INFO @ Sat, 06 Jul 2019 01:33:31: 2000000 INFO @ Sat, 06 Jul 2019 01:33:33: 3000000 INFO @ Sat, 06 Jul 2019 01:33:38: 3000000 INFO @ Sat, 06 Jul 2019 01:33:41: 4000000 INFO @ Sat, 06 Jul 2019 01:33:42: 3000000 INFO @ Sat, 06 Jul 2019 01:33:46: #1 tag size is determined as 68 bps INFO @ Sat, 06 Jul 2019 01:33:46: #1 tag size = 68 INFO @ Sat, 06 Jul 2019 01:33:46: #1 total tags in treatment: 4569901 INFO @ Sat, 06 Jul 2019 01:33:46: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:33:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:33:46: #1 tags after filtering in treatment: 4569901 INFO @ Sat, 06 Jul 2019 01:33:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:33:46: #1 finished! INFO @ Sat, 06 Jul 2019 01:33:46: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:33:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:33:46: #2 number of paired peaks: 27 WARNING @ Sat, 06 Jul 2019 01:33:46: Too few paired peaks (27) 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, 06 Jul 2019 01:33:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.10_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/SRX4342615/SRX4342615.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:33:48: 4000000 INFO @ Sat, 06 Jul 2019 01:33:53: #1 tag size is determined as 68 bps INFO @ Sat, 06 Jul 2019 01:33:53: #1 tag size = 68 INFO @ Sat, 06 Jul 2019 01:33:53: #1 total tags in treatment: 4569901 INFO @ Sat, 06 Jul 2019 01:33:53: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:33:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:33:54: #1 tags after filtering in treatment: 4569901 INFO @ Sat, 06 Jul 2019 01:33:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:33:54: #1 finished! INFO @ Sat, 06 Jul 2019 01:33:54: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:33:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:33:54: #2 number of paired peaks: 27 WARNING @ Sat, 06 Jul 2019 01:33:54: Too few paired peaks (27) 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, 06 Jul 2019 01:33:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.20_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/SRX4342615/SRX4342615.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:33:54: 4000000 INFO @ Sat, 06 Jul 2019 01:34:00: #1 tag size is determined as 68 bps INFO @ Sat, 06 Jul 2019 01:34:00: #1 tag size = 68 INFO @ Sat, 06 Jul 2019 01:34:00: #1 total tags in treatment: 4569901 INFO @ Sat, 06 Jul 2019 01:34:00: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:34:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:34:00: #1 tags after filtering in treatment: 4569901 INFO @ Sat, 06 Jul 2019 01:34:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:34:00: #1 finished! INFO @ Sat, 06 Jul 2019 01:34:00: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:34:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:34:01: #2 number of paired peaks: 27 WARNING @ Sat, 06 Jul 2019 01:34:01: Too few paired peaks (27) 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, 06 Jul 2019 01:34:01: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.05_peaks.narrowPeak: No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342615/SRX4342615.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。