Job ID = 2010789 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 32,263,747 reads read : 64,527,494 reads written : 32,263,747 reads 0-length : 32,263,747 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: 00:11:53 32263747 reads; of these: 32263747 (100.00%) were unpaired; of these: 4563122 (14.14%) aligned 0 times 23759276 (73.64%) aligned exactly 1 time 3941349 (12.22%) aligned >1 times 85.86% overall alignment rate Time searching: 00:11:53 Overall time: 00:11:53 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] 15841736 / 27700625 = 0.5719 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 01:28:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.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 01:28:22: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:28:22: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:28:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.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 01:28:23: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:28:23: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:28:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.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 01:28:24: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:28:24: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:28:34: 1000000 INFO @ Sat, 06 Jul 2019 01:28:36: 1000000 INFO @ Sat, 06 Jul 2019 01:28:39: 1000000 INFO @ Sat, 06 Jul 2019 01:28:47: 2000000 INFO @ Sat, 06 Jul 2019 01:28:51: 2000000 INFO @ Sat, 06 Jul 2019 01:28:53: 2000000 INFO @ Sat, 06 Jul 2019 01:29:00: 3000000 INFO @ Sat, 06 Jul 2019 01:29:05: 3000000 INFO @ Sat, 06 Jul 2019 01:29:07: 3000000 INFO @ Sat, 06 Jul 2019 01:29:13: 4000000 INFO @ Sat, 06 Jul 2019 01:29:19: 4000000 INFO @ Sat, 06 Jul 2019 01:29:20: 4000000 INFO @ Sat, 06 Jul 2019 01:29:25: 5000000 INFO @ Sat, 06 Jul 2019 01:29:32: 5000000 INFO @ Sat, 06 Jul 2019 01:29:34: 5000000 INFO @ Sat, 06 Jul 2019 01:29:37: 6000000 INFO @ Sat, 06 Jul 2019 01:29:43: 6000000 INFO @ Sat, 06 Jul 2019 01:29:46: 6000000 INFO @ Sat, 06 Jul 2019 01:29:49: 7000000 INFO @ Sat, 06 Jul 2019 01:29:55: 7000000 INFO @ Sat, 06 Jul 2019 01:29:59: 7000000 INFO @ Sat, 06 Jul 2019 01:30:01: 8000000 INFO @ Sat, 06 Jul 2019 01:30:06: 8000000 INFO @ Sat, 06 Jul 2019 01:30:11: 8000000 INFO @ Sat, 06 Jul 2019 01:30:13: 9000000 INFO @ Sat, 06 Jul 2019 01:30:18: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 01:30:23: 9000000 INFO @ Sat, 06 Jul 2019 01:30:25: 10000000 INFO @ Sat, 06 Jul 2019 01:30:29: 10000000 INFO @ Sat, 06 Jul 2019 01:30:34: 10000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 01:30:37: 11000000 INFO @ Sat, 06 Jul 2019 01:30:41: 11000000 INFO @ Sat, 06 Jul 2019 01:30:46: 11000000 INFO @ Sat, 06 Jul 2019 01:30:47: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 01:30:47: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 01:30:47: #1 total tags in treatment: 11858889 INFO @ Sat, 06 Jul 2019 01:30:47: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:30:47: #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 01:30:47: #1 tags after filtering in treatment: 11858889 INFO @ Sat, 06 Jul 2019 01:30:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:30:47: #1 finished! INFO @ Sat, 06 Jul 2019 01:30:47: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:30:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:30:48: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:30:48: 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, 06 Jul 2019 01:30:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.05_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/SRX4140901/SRX4140901.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:30:51: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 01:30:51: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 01:30:51: #1 total tags in treatment: 11858889 INFO @ Sat, 06 Jul 2019 01:30:51: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:30:51: #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 01:30:51: #1 tags after filtering in treatment: 11858889 INFO @ Sat, 06 Jul 2019 01:30:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:30:51: #1 finished! INFO @ Sat, 06 Jul 2019 01:30:51: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:30:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:30:52: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:30:52: 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, 06 Jul 2019 01:30:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.10_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/SRX4140901/SRX4140901.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:30:56: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 01:30:56: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 01:30:56: #1 total tags in treatment: 11858889 INFO @ Sat, 06 Jul 2019 01:30:56: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:30:56: #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 01:30:57: #1 tags after filtering in treatment: 11858889 INFO @ Sat, 06 Jul 2019 01:30:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:30:57: #1 finished! INFO @ Sat, 06 Jul 2019 01:30:57: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:30:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:30:58: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:30:58: 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, 06 Jul 2019 01:30:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.20_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/SRX4140901/SRX4140901.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140901/SRX4140901.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling