Job ID = 2640814 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 7,573,184 reads read : 15,146,368 reads written : 7,573,184 reads 0-length : 7,573,184 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: 00:03:20 7573184 reads; of these: 7573184 (100.00%) were unpaired; of these: 368792 (4.87%) aligned 0 times 6520862 (86.10%) aligned exactly 1 time 683530 (9.03%) aligned >1 times 95.13% overall alignment rate Time searching: 00:03:20 Overall time: 00:03:20 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 8 files... [bam_rmdupse_core] 4133084 / 7204392 = 0.5737 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:32:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.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 19:32:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:32:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:33:03: 1000000 INFO @ Sat, 24 Aug 2019 19:33:16: 2000000 INFO @ Sat, 24 Aug 2019 19:33:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.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 19:33:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:33:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:33:29: 3000000 INFO @ Sat, 24 Aug 2019 19:33:30: #1 tag size is determined as 118 bps INFO @ Sat, 24 Aug 2019 19:33:30: #1 tag size = 118 INFO @ Sat, 24 Aug 2019 19:33:30: #1 total tags in treatment: 3071308 INFO @ Sat, 24 Aug 2019 19:33:30: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:33:30: #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 19:33:30: #1 tags after filtering in treatment: 3071308 INFO @ Sat, 24 Aug 2019 19:33:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:33:30: #1 finished! INFO @ Sat, 24 Aug 2019 19:33:30: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:33:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:33:30: #2 number of paired peaks: 63 WARNING @ Sat, 24 Aug 2019 19:33:30: Too few paired peaks (63) 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 19:33:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.05_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/SRX2439298/SRX2439298.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:33:33: 1000000 INFO @ Sat, 24 Aug 2019 19:33:46: 2000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:33:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.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 19:33:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:33:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:33:59: 3000000 INFO @ Sat, 24 Aug 2019 19:34:00: #1 tag size is determined as 118 bps INFO @ Sat, 24 Aug 2019 19:34:00: #1 tag size = 118 INFO @ Sat, 24 Aug 2019 19:34:00: #1 total tags in treatment: 3071308 INFO @ Sat, 24 Aug 2019 19:34:00: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:34:00: #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 19:34:00: #1 tags after filtering in treatment: 3071308 INFO @ Sat, 24 Aug 2019 19:34:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:34:00: #1 finished! INFO @ Sat, 24 Aug 2019 19:34:00: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:34:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:34:00: #2 number of paired peaks: 63 WARNING @ Sat, 24 Aug 2019 19:34:00: Too few paired peaks (63) 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 19:34:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.10_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/SRX2439298/SRX2439298.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:34:03: 1000000 INFO @ Sat, 24 Aug 2019 19:34:16: 2000000 INFO @ Sat, 24 Aug 2019 19:34:28: 3000000 INFO @ Sat, 24 Aug 2019 19:34:29: #1 tag size is determined as 118 bps INFO @ Sat, 24 Aug 2019 19:34:29: #1 tag size = 118 INFO @ Sat, 24 Aug 2019 19:34:29: #1 total tags in treatment: 3071308 INFO @ Sat, 24 Aug 2019 19:34:29: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:34:29: #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 19:34:29: #1 tags after filtering in treatment: 3071308 INFO @ Sat, 24 Aug 2019 19:34:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:34:29: #1 finished! INFO @ Sat, 24 Aug 2019 19:34:29: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:34:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:34:29: #2 number of paired peaks: 63 WARNING @ Sat, 24 Aug 2019 19:34:29: Too few paired peaks (63) 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 19:34:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.20_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/SRX2439298/SRX2439298.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439298/SRX2439298.20_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。