Job ID = 2640806 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 10,941,761 reads read : 21,883,522 reads written : 10,941,761 reads 0-length : 10,941,761 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: 00:04:31 10941761 reads; of these: 10941761 (100.00%) were unpaired; of these: 602311 (5.50%) aligned 0 times 9232845 (84.38%) aligned exactly 1 time 1106605 (10.11%) aligned >1 times 94.50% overall alignment rate Time searching: 00:04:31 Overall time: 00:04:31 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] 5437950 / 10339450 = 0.5259 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:40:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.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 19:40:05: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:40:05: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:40:14: 1000000 INFO @ Sat, 24 Aug 2019 19:40:23: 2000000 INFO @ Sat, 24 Aug 2019 19:40:32: 3000000 INFO @ Sat, 24 Aug 2019 19:40:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.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 19:40:35: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:40:35: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:40:41: 4000000 INFO @ Sat, 24 Aug 2019 19:40:46: 1000000 INFO @ Sat, 24 Aug 2019 19:40:50: #1 tag size is determined as 119 bps INFO @ Sat, 24 Aug 2019 19:40:50: #1 tag size = 119 INFO @ Sat, 24 Aug 2019 19:40:50: #1 total tags in treatment: 4901500 INFO @ Sat, 24 Aug 2019 19:40:50: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:40:50: #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 19:40:50: #1 tags after filtering in treatment: 4901500 INFO @ Sat, 24 Aug 2019 19:40:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:40:50: #1 finished! INFO @ Sat, 24 Aug 2019 19:40:50: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:40:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:40:50: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:40:50: 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 19:40:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.05_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/SRX2439293/SRX2439293.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:40:56: 2000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:41:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.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 19:41:05: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:41:05: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:41:06: 3000000 INFO @ Sat, 24 Aug 2019 19:41:17: 4000000 INFO @ Sat, 24 Aug 2019 19:41:18: 1000000 INFO @ Sat, 24 Aug 2019 19:41:26: #1 tag size is determined as 119 bps INFO @ Sat, 24 Aug 2019 19:41:26: #1 tag size = 119 INFO @ Sat, 24 Aug 2019 19:41:26: #1 total tags in treatment: 4901500 INFO @ Sat, 24 Aug 2019 19:41:26: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:41:26: #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 19:41:26: #1 tags after filtering in treatment: 4901500 INFO @ Sat, 24 Aug 2019 19:41:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:41:26: #1 finished! INFO @ Sat, 24 Aug 2019 19:41:26: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:41:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:41:26: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:41:26: 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 19:41:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.10_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/SRX2439293/SRX2439293.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:41:31: 2000000 INFO @ Sat, 24 Aug 2019 19:41:43: 3000000 INFO @ Sat, 24 Aug 2019 19:41:55: 4000000 INFO @ Sat, 24 Aug 2019 19:42:05: #1 tag size is determined as 119 bps INFO @ Sat, 24 Aug 2019 19:42:05: #1 tag size = 119 INFO @ Sat, 24 Aug 2019 19:42:05: #1 total tags in treatment: 4901500 INFO @ Sat, 24 Aug 2019 19:42:05: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:42:05: #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 19:42:05: #1 tags after filtering in treatment: 4901500 INFO @ Sat, 24 Aug 2019 19:42:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:42:05: #1 finished! INFO @ Sat, 24 Aug 2019 19:42:05: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:42:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:42:06: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:42:06: 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 19:42:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.20_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/SRX2439293/SRX2439293.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439293/SRX2439293.20_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。