Job ID = 2641065 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 25,650,437 reads read : 51,300,874 reads written : 25,650,437 reads 0-length : 25,650,437 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: 00:05:06 25650437 reads; of these: 25650437 (100.00%) were unpaired; of these: 946624 (3.69%) aligned 0 times 22120019 (86.24%) aligned exactly 1 time 2583794 (10.07%) aligned >1 times 96.31% overall alignment rate Time searching: 00:05:06 Overall time: 00:05:06 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] 13561416 / 24703813 = 0.5490 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:20:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.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 21:20:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:20:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:20:57: 1000000 INFO @ Sat, 24 Aug 2019 21:21:04: 2000000 INFO @ Sat, 24 Aug 2019 21:21:10: 3000000 INFO @ Sat, 24 Aug 2019 21:21:17: 4000000 INFO @ Sat, 24 Aug 2019 21:21:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.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 21:21:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:21:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:21:23: 5000000 INFO @ Sat, 24 Aug 2019 21:21:27: 1000000 INFO @ Sat, 24 Aug 2019 21:21:30: 6000000 INFO @ Sat, 24 Aug 2019 21:21:34: 2000000 INFO @ Sat, 24 Aug 2019 21:21:37: 7000000 INFO @ Sat, 24 Aug 2019 21:21:40: 3000000 INFO @ Sat, 24 Aug 2019 21:21:44: 8000000 INFO @ Sat, 24 Aug 2019 21:21:47: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:21:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.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 21:21:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:21:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:21:50: 9000000 INFO @ Sat, 24 Aug 2019 21:21:54: 5000000 INFO @ Sat, 24 Aug 2019 21:21:57: 10000000 INFO @ Sat, 24 Aug 2019 21:21:58: 1000000 INFO @ Sat, 24 Aug 2019 21:22:01: 6000000 INFO @ Sat, 24 Aug 2019 21:22:04: 11000000 INFO @ Sat, 24 Aug 2019 21:22:05: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:22:05: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:22:05: #1 total tags in treatment: 11142397 INFO @ Sat, 24 Aug 2019 21:22:05: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:22:05: #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 21:22:05: #1 tags after filtering in treatment: 11142397 INFO @ Sat, 24 Aug 2019 21:22:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:22:05: #1 finished! INFO @ Sat, 24 Aug 2019 21:22:05: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:22:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:22:06: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:22:06: 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 21:22:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.05_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/SRX5257259/SRX5257259.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:22:06: 2000000 INFO @ Sat, 24 Aug 2019 21:22:07: 7000000 INFO @ Sat, 24 Aug 2019 21:22:14: 3000000 INFO @ Sat, 24 Aug 2019 21:22:14: 8000000 INFO @ Sat, 24 Aug 2019 21:22:21: 9000000 INFO @ Sat, 24 Aug 2019 21:22:21: 4000000 INFO @ Sat, 24 Aug 2019 21:22:27: 10000000 INFO @ Sat, 24 Aug 2019 21:22:29: 5000000 INFO @ Sat, 24 Aug 2019 21:22:34: 11000000 INFO @ Sat, 24 Aug 2019 21:22:35: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:22:35: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:22:35: #1 total tags in treatment: 11142397 INFO @ Sat, 24 Aug 2019 21:22:35: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:22:35: #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 21:22:35: #1 tags after filtering in treatment: 11142397 INFO @ Sat, 24 Aug 2019 21:22:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:22:35: #1 finished! INFO @ Sat, 24 Aug 2019 21:22:35: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:22:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:22:36: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:22:36: 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 21:22:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.10_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/SRX5257259/SRX5257259.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:22:37: 6000000 INFO @ Sat, 24 Aug 2019 21:22:44: 7000000 INFO @ Sat, 24 Aug 2019 21:22:52: 8000000 INFO @ Sat, 24 Aug 2019 21:23:00: 9000000 INFO @ Sat, 24 Aug 2019 21:23:07: 10000000 INFO @ Sat, 24 Aug 2019 21:23:15: 11000000 INFO @ Sat, 24 Aug 2019 21:23:16: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:23:16: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:23:16: #1 total tags in treatment: 11142397 INFO @ Sat, 24 Aug 2019 21:23:16: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:23:16: #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 21:23:16: #1 tags after filtering in treatment: 11142397 INFO @ Sat, 24 Aug 2019 21:23:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:23:16: #1 finished! INFO @ Sat, 24 Aug 2019 21:23:16: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:23:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:23:17: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:23:17: 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 21:23:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.20_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/SRX5257259/SRX5257259.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257259/SRX5257259.20_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。