Job ID = 4289494 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 31,515,699 reads read : 31,515,699 reads written : 31,515,699 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: 00:07:02 31515699 reads; of these: 31515699 (100.00%) were unpaired; of these: 4079844 (12.95%) aligned 0 times 24903687 (79.02%) aligned exactly 1 time 2532168 (8.03%) aligned >1 times 87.05% overall alignment rate Time searching: 00:07:02 Overall time: 00:07:02 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] 16495792 / 27435855 = 0.6012 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 15:01:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.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 @ Tue, 10 Dec 2019 15:01:31: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:01:31: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:01:40: 1000000 INFO @ Tue, 10 Dec 2019 15:01:50: 2000000 INFO @ Tue, 10 Dec 2019 15:02:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.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 @ Tue, 10 Dec 2019 15:02:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:02:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:02:01: 3000000 INFO @ Tue, 10 Dec 2019 15:02:09: 1000000 INFO @ Tue, 10 Dec 2019 15:02:11: 4000000 INFO @ Tue, 10 Dec 2019 15:02:17: 2000000 INFO @ Tue, 10 Dec 2019 15:02:22: 5000000 INFO @ Tue, 10 Dec 2019 15:02:25: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 15:02:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.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 @ Tue, 10 Dec 2019 15:02:31: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:02:31: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:02:32: 6000000 INFO @ Tue, 10 Dec 2019 15:02:33: 4000000 INFO @ Tue, 10 Dec 2019 15:02:41: 5000000 INFO @ Tue, 10 Dec 2019 15:02:41: 1000000 INFO @ Tue, 10 Dec 2019 15:02:42: 7000000 INFO @ Tue, 10 Dec 2019 15:02:49: 6000000 INFO @ Tue, 10 Dec 2019 15:02:52: 8000000 INFO @ Tue, 10 Dec 2019 15:02:53: 2000000 INFO @ Tue, 10 Dec 2019 15:02:57: 7000000 INFO @ Tue, 10 Dec 2019 15:03:03: 9000000 INFO @ Tue, 10 Dec 2019 15:03:03: 3000000 INFO @ Tue, 10 Dec 2019 15:03:05: 8000000 INFO @ Tue, 10 Dec 2019 15:03:13: 10000000 INFO @ Tue, 10 Dec 2019 15:03:13: 9000000 INFO @ Tue, 10 Dec 2019 15:03:14: 4000000 INFO @ Tue, 10 Dec 2019 15:03:21: 10000000 INFO @ Tue, 10 Dec 2019 15:03:22: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 15:03:22: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 15:03:22: #1 total tags in treatment: 10940063 INFO @ Tue, 10 Dec 2019 15:03:22: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:03:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 15:03:22: #1 tags after filtering in treatment: 10940063 INFO @ Tue, 10 Dec 2019 15:03:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:03:22: #1 finished! INFO @ Tue, 10 Dec 2019 15:03:22: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:03:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:03:23: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:03:23: 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 @ Tue, 10 Dec 2019 15:03:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.05_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/SRX6678274/SRX6678274.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:03:25: 5000000 INFO @ Tue, 10 Dec 2019 15:03:28: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 15:03:28: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 15:03:28: #1 total tags in treatment: 10940063 INFO @ Tue, 10 Dec 2019 15:03:28: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:03:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 15:03:29: #1 tags after filtering in treatment: 10940063 INFO @ Tue, 10 Dec 2019 15:03:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:03:29: #1 finished! INFO @ Tue, 10 Dec 2019 15:03:29: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:03:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:03:30: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:03:30: 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 @ Tue, 10 Dec 2019 15:03:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.10_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/SRX6678274/SRX6678274.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:03:36: 6000000 INFO @ Tue, 10 Dec 2019 15:03:46: 7000000 INFO @ Tue, 10 Dec 2019 15:03:56: 8000000 INFO @ Tue, 10 Dec 2019 15:04:06: 9000000 INFO @ Tue, 10 Dec 2019 15:04:16: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 15:04:26: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 15:04:26: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 15:04:26: #1 total tags in treatment: 10940063 INFO @ Tue, 10 Dec 2019 15:04:26: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:04:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 15:04:26: #1 tags after filtering in treatment: 10940063 INFO @ Tue, 10 Dec 2019 15:04:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:04:26: #1 finished! INFO @ Tue, 10 Dec 2019 15:04:26: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:04:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:04:27: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:04:27: 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 @ Tue, 10 Dec 2019 15:04:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.20_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/SRX6678274/SRX6678274.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678274/SRX6678274.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。