Job ID = 2010775 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 4,665,873 reads read : 4,665,873 reads written : 4,665,873 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: 00:00:49 4665873 reads; of these: 4665873 (100.00%) were unpaired; of these: 846527 (18.14%) aligned 0 times 3609198 (77.35%) aligned exactly 1 time 210148 (4.50%) aligned >1 times 81.86% overall alignment rate Time searching: 00:00:49 Overall time: 00:00:49 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_rmdupse_core] 721811 / 3819346 = 0.1890 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 00:37:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.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 00:37:17: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:37:17: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:37:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.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 00:37:18: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:37:18: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:37:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.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 00:37:19: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:37:19: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:37:24: 1000000 INFO @ Sat, 06 Jul 2019 00:37:26: 1000000 INFO @ Sat, 06 Jul 2019 00:37:27: 1000000 INFO @ Sat, 06 Jul 2019 00:37:32: 2000000 INFO @ Sat, 06 Jul 2019 00:37:34: 2000000 INFO @ Sat, 06 Jul 2019 00:37:35: 2000000 INFO @ Sat, 06 Jul 2019 00:37:39: 3000000 INFO @ Sat, 06 Jul 2019 00:37:39: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 00:37:39: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 00:37:39: #1 total tags in treatment: 3097535 INFO @ Sat, 06 Jul 2019 00:37:39: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:37:39: #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 00:37:39: #1 tags after filtering in treatment: 3097535 INFO @ Sat, 06 Jul 2019 00:37:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:37:39: #1 finished! INFO @ Sat, 06 Jul 2019 00:37:39: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:37:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:37:40: #2 number of paired peaks: 5 WARNING @ Sat, 06 Jul 2019 00:37:40: Too few paired peaks (5) 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 00:37:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.05_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/SRX390620/SRX390620.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:37:42: 3000000 INFO @ Sat, 06 Jul 2019 00:37:42: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 00:37:42: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 00:37:42: #1 total tags in treatment: 3097535 INFO @ Sat, 06 Jul 2019 00:37:42: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:37:42: #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 00:37:42: #1 tags after filtering in treatment: 3097535 INFO @ Sat, 06 Jul 2019 00:37:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:37:42: #1 finished! INFO @ Sat, 06 Jul 2019 00:37:42: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:37:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:37:43: #2 number of paired peaks: 5 WARNING @ Sat, 06 Jul 2019 00:37:43: Too few paired peaks (5) 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 00:37:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.10_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/SRX390620/SRX390620.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:37:43: 3000000 INFO @ Sat, 06 Jul 2019 00:37:44: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 00:37:44: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 00:37:44: #1 total tags in treatment: 3097535 INFO @ Sat, 06 Jul 2019 00:37:44: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:37:44: #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 00:37:44: #1 tags after filtering in treatment: 3097535 INFO @ Sat, 06 Jul 2019 00:37:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:37:44: #1 finished! INFO @ Sat, 06 Jul 2019 00:37:44: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:37:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:37:44: #2 number of paired peaks: 5 WARNING @ Sat, 06 Jul 2019 00:37:44: Too few paired peaks (5) 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 00:37:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.20_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/SRX390620/SRX390620.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX390620/SRX390620.20_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。