Job ID = 2641032 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 28,597,881 reads read : 57,195,762 reads written : 28,597,881 reads 0-length : 28,597,881 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: 00:04:44 28597881 reads; of these: 28597881 (100.00%) were unpaired; of these: 1746092 (6.11%) aligned 0 times 24352516 (85.15%) aligned exactly 1 time 2499273 (8.74%) aligned >1 times 93.89% overall alignment rate Time searching: 00:04:44 Overall time: 00:04:44 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] 15759980 / 26851789 = 0.5869 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:53:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.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 20:53:44: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:53:44: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:53:51: 1000000 INFO @ Sat, 24 Aug 2019 20:53:58: 2000000 INFO @ Sat, 24 Aug 2019 20:54:04: 3000000 INFO @ Sat, 24 Aug 2019 20:54:11: 4000000 INFO @ Sat, 24 Aug 2019 20:54:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.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 20:54:14: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:54:14: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:54:18: 5000000 INFO @ Sat, 24 Aug 2019 20:54:22: 1000000 INFO @ Sat, 24 Aug 2019 20:54:25: 6000000 INFO @ Sat, 24 Aug 2019 20:54:31: 2000000 INFO @ Sat, 24 Aug 2019 20:54:32: 7000000 INFO @ Sat, 24 Aug 2019 20:54:39: 3000000 INFO @ Sat, 24 Aug 2019 20:54:39: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:54:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.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 20:54:44: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:54:44: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:54:46: 9000000 INFO @ Sat, 24 Aug 2019 20:54:47: 4000000 INFO @ Sat, 24 Aug 2019 20:54:53: 1000000 INFO @ Sat, 24 Aug 2019 20:54:53: 10000000 INFO @ Sat, 24 Aug 2019 20:54:55: 5000000 INFO @ Sat, 24 Aug 2019 20:54:59: 11000000 INFO @ Sat, 24 Aug 2019 20:55:00: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:55:00: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:55:00: #1 total tags in treatment: 11091809 INFO @ Sat, 24 Aug 2019 20:55:00: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:55:00: #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 20:55:00: #1 tags after filtering in treatment: 11091809 INFO @ Sat, 24 Aug 2019 20:55:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:55:00: #1 finished! INFO @ Sat, 24 Aug 2019 20:55:00: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:55:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:55:01: 2000000 INFO @ Sat, 24 Aug 2019 20:55:01: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:55:01: 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 20:55:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.05_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/SRX5257229/SRX5257229.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:55:03: 6000000 INFO @ Sat, 24 Aug 2019 20:55:09: 3000000 INFO @ Sat, 24 Aug 2019 20:55:11: 7000000 INFO @ Sat, 24 Aug 2019 20:55:17: 4000000 INFO @ Sat, 24 Aug 2019 20:55:19: 8000000 INFO @ Sat, 24 Aug 2019 20:55:25: 5000000 INFO @ Sat, 24 Aug 2019 20:55:27: 9000000 INFO @ Sat, 24 Aug 2019 20:55:33: 6000000 INFO @ Sat, 24 Aug 2019 20:55:35: 10000000 INFO @ Sat, 24 Aug 2019 20:55:41: 7000000 INFO @ Sat, 24 Aug 2019 20:55:43: 11000000 INFO @ Sat, 24 Aug 2019 20:55:43: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:55:43: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:55:43: #1 total tags in treatment: 11091809 INFO @ Sat, 24 Aug 2019 20:55:43: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:55:43: #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 20:55:44: #1 tags after filtering in treatment: 11091809 INFO @ Sat, 24 Aug 2019 20:55:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:55:44: #1 finished! INFO @ Sat, 24 Aug 2019 20:55:44: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:55:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:55:44: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:55:44: 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 20:55:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.10_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/SRX5257229/SRX5257229.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:55:49: 8000000 INFO @ Sat, 24 Aug 2019 20:55:57: 9000000 INFO @ Sat, 24 Aug 2019 20:56:05: 10000000 INFO @ Sat, 24 Aug 2019 20:56:13: 11000000 INFO @ Sat, 24 Aug 2019 20:56:13: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:56:13: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:56:13: #1 total tags in treatment: 11091809 INFO @ Sat, 24 Aug 2019 20:56:13: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:56:13: #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 20:56:13: #1 tags after filtering in treatment: 11091809 INFO @ Sat, 24 Aug 2019 20:56:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:56:13: #1 finished! INFO @ Sat, 24 Aug 2019 20:56:13: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:56:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:56:14: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:56:14: 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 20:56:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.20_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/SRX5257229/SRX5257229.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257229/SRX5257229.20_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。