Job ID = 2011064 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 29,282,957 reads read : 29,282,957 reads written : 29,282,957 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: 00:06:01 29282957 reads; of these: 29282957 (100.00%) were unpaired; of these: 1402409 (4.79%) aligned 0 times 19245497 (65.72%) aligned exactly 1 time 8635051 (29.49%) aligned >1 times 95.21% overall alignment rate Time searching: 00:06:01 Overall time: 00:06:01 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] 18606527 / 27880548 = 0.6674 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 02:15:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.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 02:15:58: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:15:58: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:15:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.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 02:15:59: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:15:59: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:16:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.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 02:16:00: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:16:00: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:16:07: 1000000 INFO @ Sat, 06 Jul 2019 02:16:08: 1000000 INFO @ Sat, 06 Jul 2019 02:16:10: 1000000 INFO @ Sat, 06 Jul 2019 02:16:16: 2000000 INFO @ Sat, 06 Jul 2019 02:16:18: 2000000 INFO @ Sat, 06 Jul 2019 02:16:21: 2000000 INFO @ Sat, 06 Jul 2019 02:16:25: 3000000 INFO @ Sat, 06 Jul 2019 02:16:27: 3000000 INFO @ Sat, 06 Jul 2019 02:16:32: 3000000 INFO @ Sat, 06 Jul 2019 02:16:34: 4000000 INFO @ Sat, 06 Jul 2019 02:16:36: 4000000 INFO @ Sat, 06 Jul 2019 02:16:43: 5000000 INFO @ Sat, 06 Jul 2019 02:16:44: 4000000 INFO @ Sat, 06 Jul 2019 02:16:46: 5000000 INFO @ Sat, 06 Jul 2019 02:16:51: 6000000 INFO @ Sat, 06 Jul 2019 02:16:55: 5000000 INFO @ Sat, 06 Jul 2019 02:16:55: 6000000 INFO @ Sat, 06 Jul 2019 02:17:01: 7000000 INFO @ Sat, 06 Jul 2019 02:17:05: 7000000 INFO @ Sat, 06 Jul 2019 02:17:06: 6000000 INFO @ Sat, 06 Jul 2019 02:17:09: 8000000 INFO @ Sat, 06 Jul 2019 02:17:14: 8000000 INFO @ Sat, 06 Jul 2019 02:17:17: 7000000 INFO @ Sat, 06 Jul 2019 02:17:18: 9000000 INFO @ Sat, 06 Jul 2019 02:17:20: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:17:20: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:17:20: #1 total tags in treatment: 9274021 INFO @ Sat, 06 Jul 2019 02:17:20: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:17:20: #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 02:17:20: #1 tags after filtering in treatment: 9274021 INFO @ Sat, 06 Jul 2019 02:17:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:17:20: #1 finished! INFO @ Sat, 06 Jul 2019 02:17:20: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:17:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:17:21: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:17:21: 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 02:17:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.05_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/SRX4553751/SRX4553751.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:17:23: 9000000 INFO @ Sat, 06 Jul 2019 02:17:26: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:17:26: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:17:26: #1 total tags in treatment: 9274021 INFO @ Sat, 06 Jul 2019 02:17:26: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:17:26: #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 02:17:26: #1 tags after filtering in treatment: 9274021 INFO @ Sat, 06 Jul 2019 02:17:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:17:26: #1 finished! INFO @ Sat, 06 Jul 2019 02:17:26: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:17:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:17:27: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:17:27: 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 @ Sat, 06 Jul 2019 02:17:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.10_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/SRX4553751/SRX4553751.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:17:28: 8000000 INFO @ Sat, 06 Jul 2019 02:17:40: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:17:42: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:17:42: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:17:42: #1 total tags in treatment: 9274021 INFO @ Sat, 06 Jul 2019 02:17:42: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:17:42: #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 02:17:43: #1 tags after filtering in treatment: 9274021 INFO @ Sat, 06 Jul 2019 02:17:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:17:43: #1 finished! INFO @ Sat, 06 Jul 2019 02:17:43: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:17:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:17:43: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:17:43: 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 02:17:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.20_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/SRX4553751/SRX4553751.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553751/SRX4553751.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。