Job ID = 2641028 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 25,328,780 reads read : 25,328,780 reads written : 25,328,780 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: 00:04:23 25328780 reads; of these: 25328780 (100.00%) were unpaired; of these: 2195088 (8.67%) aligned 0 times 20973624 (82.81%) aligned exactly 1 time 2160068 (8.53%) aligned >1 times 91.33% overall alignment rate Time searching: 00:04:23 Overall time: 00:04:23 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] 10533368 / 23133692 = 0.4553 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:56:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.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 20:56:28: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:56:28: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:56:38: 1000000 INFO @ Sat, 24 Aug 2019 20:56:48: 2000000 INFO @ Sat, 24 Aug 2019 20:56:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.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 20:56:58: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:56:58: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:56:58: 3000000 INFO @ Sat, 24 Aug 2019 20:57:09: 4000000 INFO @ Sat, 24 Aug 2019 20:57:09: 1000000 INFO @ Sat, 24 Aug 2019 20:57:19: 5000000 INFO @ Sat, 24 Aug 2019 20:57:20: 2000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:57:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.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 20:57:28: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:57:28: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:57:30: 6000000 INFO @ Sat, 24 Aug 2019 20:57:31: 3000000 INFO @ Sat, 24 Aug 2019 20:57:38: 1000000 INFO @ Sat, 24 Aug 2019 20:57:41: 7000000 INFO @ Sat, 24 Aug 2019 20:57:41: 4000000 INFO @ Sat, 24 Aug 2019 20:57:48: 2000000 INFO @ Sat, 24 Aug 2019 20:57:52: 5000000 INFO @ Sat, 24 Aug 2019 20:57:52: 8000000 INFO @ Sat, 24 Aug 2019 20:57:57: 3000000 INFO @ Sat, 24 Aug 2019 20:58:03: 6000000 INFO @ Sat, 24 Aug 2019 20:58:03: 9000000 INFO @ Sat, 24 Aug 2019 20:58:07: 4000000 INFO @ Sat, 24 Aug 2019 20:58:13: 10000000 INFO @ Sat, 24 Aug 2019 20:58:14: 7000000 INFO @ Sat, 24 Aug 2019 20:58:16: 5000000 INFO @ Sat, 24 Aug 2019 20:58:24: 11000000 INFO @ Sat, 24 Aug 2019 20:58:24: 8000000 INFO @ Sat, 24 Aug 2019 20:58:26: 6000000 INFO @ Sat, 24 Aug 2019 20:58:33: 9000000 INFO @ Sat, 24 Aug 2019 20:58:34: 12000000 INFO @ Sat, 24 Aug 2019 20:58:35: 7000000 INFO @ Sat, 24 Aug 2019 20:58:40: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:58:40: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:58:40: #1 total tags in treatment: 12600324 INFO @ Sat, 24 Aug 2019 20:58:40: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:58:40: #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 20:58:40: #1 tags after filtering in treatment: 12600324 INFO @ Sat, 24 Aug 2019 20:58:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:58:40: #1 finished! INFO @ Sat, 24 Aug 2019 20:58:40: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:58:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:58:41: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:58:41: 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 20:58:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.05_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/SRX5257225/SRX5257225.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:58:43: 10000000 INFO @ Sat, 24 Aug 2019 20:58:45: 8000000 INFO @ Sat, 24 Aug 2019 20:58:53: 11000000 INFO @ Sat, 24 Aug 2019 20:58:54: 9000000 INFO @ Sat, 24 Aug 2019 20:59:03: 12000000 INFO @ Sat, 24 Aug 2019 20:59:04: 10000000 INFO @ Sat, 24 Aug 2019 20:59:09: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:59:09: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:59:09: #1 total tags in treatment: 12600324 INFO @ Sat, 24 Aug 2019 20:59:09: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:59:09: #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 20:59:09: #1 tags after filtering in treatment: 12600324 INFO @ Sat, 24 Aug 2019 20:59:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:59:09: #1 finished! INFO @ Sat, 24 Aug 2019 20:59:09: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:59:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:59:10: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:59:10: 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 20:59:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.10_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/SRX5257225/SRX5257225.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:59:13: 11000000 INFO @ Sat, 24 Aug 2019 20:59:22: 12000000 INFO @ Sat, 24 Aug 2019 20:59:28: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:59:28: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:59:28: #1 total tags in treatment: 12600324 INFO @ Sat, 24 Aug 2019 20:59:28: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:59:28: #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 20:59:28: #1 tags after filtering in treatment: 12600324 INFO @ Sat, 24 Aug 2019 20:59:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:59:28: #1 finished! INFO @ Sat, 24 Aug 2019 20:59:28: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:59:28: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 20:59:29: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:59:29: 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 20:59:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.20_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/SRX5257225/SRX5257225.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257225/SRX5257225.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。