Job ID = 2640862 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,635,456 reads read : 45,270,912 reads written : 22,635,456 reads 0-length : 22,635,456 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: 00:03:46 22635456 reads; of these: 22635456 (100.00%) were unpaired; of these: 4066673 (17.97%) aligned 0 times 16691326 (73.74%) aligned exactly 1 time 1877457 (8.29%) aligned >1 times 82.03% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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 8 files... [bam_rmdupse_core] 8249045 / 18568783 = 0.4442 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:49:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.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 19:49:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:49:27: 1000000 INFO @ Sat, 24 Aug 2019 19:49:33: 2000000 INFO @ Sat, 24 Aug 2019 19:49:40: 3000000 INFO @ Sat, 24 Aug 2019 19:49:47: 4000000 INFO @ Sat, 24 Aug 2019 19:49:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.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 19:49:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:49:53: 5000000 INFO @ Sat, 24 Aug 2019 19:49:58: 1000000 INFO @ Sat, 24 Aug 2019 19:50:00: 6000000 INFO @ Sat, 24 Aug 2019 19:50:05: 2000000 INFO @ Sat, 24 Aug 2019 19:50:08: 7000000 INFO @ Sat, 24 Aug 2019 19:50:13: 3000000 INFO @ Sat, 24 Aug 2019 19:50:17: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:50:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.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 19:50:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:50:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:50:21: 4000000 INFO @ Sat, 24 Aug 2019 19:50:24: 9000000 INFO @ Sat, 24 Aug 2019 19:50:29: 5000000 INFO @ Sat, 24 Aug 2019 19:50:29: 1000000 INFO @ Sat, 24 Aug 2019 19:50:31: 10000000 INFO @ Sat, 24 Aug 2019 19:50:34: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:50:34: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:50:34: #1 total tags in treatment: 10319738 INFO @ Sat, 24 Aug 2019 19:50:34: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:50:34: #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 19:50:34: #1 tags after filtering in treatment: 10319738 INFO @ Sat, 24 Aug 2019 19:50:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:50:34: #1 finished! INFO @ Sat, 24 Aug 2019 19:50:34: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:50:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:50:35: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:50:35: 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 19:50:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.05_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/SRX3944358/SRX3944358.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:50:37: 6000000 INFO @ Sat, 24 Aug 2019 19:50:38: 2000000 INFO @ Sat, 24 Aug 2019 19:50:44: 7000000 INFO @ Sat, 24 Aug 2019 19:50:47: 3000000 INFO @ Sat, 24 Aug 2019 19:50:52: 8000000 INFO @ Sat, 24 Aug 2019 19:50:56: 4000000 INFO @ Sat, 24 Aug 2019 19:51:00: 9000000 INFO @ Sat, 24 Aug 2019 19:51:05: 5000000 INFO @ Sat, 24 Aug 2019 19:51:08: 10000000 INFO @ Sat, 24 Aug 2019 19:51:10: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:51:10: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:51:10: #1 total tags in treatment: 10319738 INFO @ Sat, 24 Aug 2019 19:51:10: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:51:10: #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 19:51:10: #1 tags after filtering in treatment: 10319738 INFO @ Sat, 24 Aug 2019 19:51:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:51:10: #1 finished! INFO @ Sat, 24 Aug 2019 19:51:10: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:51:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:51:11: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:51:11: 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 19:51:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.10_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/SRX3944358/SRX3944358.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:51:13: 6000000 INFO @ Sat, 24 Aug 2019 19:51:22: 7000000 INFO @ Sat, 24 Aug 2019 19:51:30: 8000000 INFO @ Sat, 24 Aug 2019 19:51:39: 9000000 INFO @ Sat, 24 Aug 2019 19:51:48: 10000000 INFO @ Sat, 24 Aug 2019 19:51:50: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:51:50: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:51:50: #1 total tags in treatment: 10319738 INFO @ Sat, 24 Aug 2019 19:51:50: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:51:50: #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 19:51:50: #1 tags after filtering in treatment: 10319738 INFO @ Sat, 24 Aug 2019 19:51:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:51:50: #1 finished! INFO @ Sat, 24 Aug 2019 19:51:50: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:51:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:51:51: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:51:51: 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 19:51:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.20_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/SRX3944358/SRX3944358.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944358/SRX3944358.20_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。