Job ID = 4289287 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 30,452,445 reads read : 60,904,890 reads written : 30,452,445 reads 0-length : 30,452,445 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: 00:06:02 30452445 reads; of these: 30452445 (100.00%) were unpaired; of these: 755640 (2.48%) aligned 0 times 22217938 (72.96%) aligned exactly 1 time 7478867 (24.56%) aligned >1 times 97.52% overall alignment rate Time searching: 00:06:02 Overall time: 00:06:02 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 16 files... [bam_rmdupse_core] 20829914 / 29696805 = 0.7014 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:17:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.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 14:17:19: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:17:19: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:17:26: 1000000 INFO @ Tue, 10 Dec 2019 14:17:33: 2000000 INFO @ Tue, 10 Dec 2019 14:17:39: 3000000 INFO @ Tue, 10 Dec 2019 14:17:46: 4000000 INFO @ Tue, 10 Dec 2019 14:17:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.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 14:17:48: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:17:48: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:17:54: 5000000 INFO @ Tue, 10 Dec 2019 14:17:56: 1000000 INFO @ Tue, 10 Dec 2019 14:18:02: 6000000 INFO @ Tue, 10 Dec 2019 14:18:04: 2000000 INFO @ Tue, 10 Dec 2019 14:18:11: 7000000 INFO @ Tue, 10 Dec 2019 14:18:12: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:18:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.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 14:18:18: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:18:18: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:18:19: 8000000 INFO @ Tue, 10 Dec 2019 14:18:21: 4000000 INFO @ Tue, 10 Dec 2019 14:18:26: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:18:26: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:18:26: #1 total tags in treatment: 8866891 INFO @ Tue, 10 Dec 2019 14:18:26: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:18:26: #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 14:18:26: 1000000 INFO @ Tue, 10 Dec 2019 14:18:26: #1 tags after filtering in treatment: 8866891 INFO @ Tue, 10 Dec 2019 14:18:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:18:26: #1 finished! INFO @ Tue, 10 Dec 2019 14:18:26: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:18:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:18:27: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:18:27: 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 14:18:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.05_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/SRX6635437/SRX6635437.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:18:29: 5000000 INFO @ Tue, 10 Dec 2019 14:18:35: 2000000 INFO @ Tue, 10 Dec 2019 14:18:36: 6000000 INFO @ Tue, 10 Dec 2019 14:18:43: 7000000 INFO @ Tue, 10 Dec 2019 14:18:44: 3000000 INFO @ Tue, 10 Dec 2019 14:18:50: 8000000 INFO @ Tue, 10 Dec 2019 14:18:52: 4000000 INFO @ Tue, 10 Dec 2019 14:18:56: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:18:56: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:18:56: #1 total tags in treatment: 8866891 INFO @ Tue, 10 Dec 2019 14:18:56: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:18:56: #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 14:18:56: #1 tags after filtering in treatment: 8866891 INFO @ Tue, 10 Dec 2019 14:18:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:18:56: #1 finished! INFO @ Tue, 10 Dec 2019 14:18:56: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:18:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:18:56: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:18:56: 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 14:18:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.10_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/SRX6635437/SRX6635437.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:19:01: 5000000 INFO @ Tue, 10 Dec 2019 14:19:09: 6000000 INFO @ Tue, 10 Dec 2019 14:19:18: 7000000 INFO @ Tue, 10 Dec 2019 14:19:26: 8000000 INFO @ Tue, 10 Dec 2019 14:19:33: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:19:33: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:19:33: #1 total tags in treatment: 8866891 INFO @ Tue, 10 Dec 2019 14:19:33: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:19:33: #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 14:19:34: #1 tags after filtering in treatment: 8866891 INFO @ Tue, 10 Dec 2019 14:19:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:19:34: #1 finished! INFO @ Tue, 10 Dec 2019 14:19:34: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:19:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:19:34: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:19:34: 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 14:19:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.20_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/SRX6635437/SRX6635437.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635437/SRX6635437.20_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。