Job ID = 2640830 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 7,029,723 reads read : 7,029,723 reads written : 7,029,723 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR6322057.sra.cache’: 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: 00:01:40 7029723 reads; of these: 7029723 (100.00%) were unpaired; of these: 361018 (5.14%) aligned 0 times 5907800 (84.04%) aligned exactly 1 time 760905 (10.82%) aligned >1 times 94.86% overall alignment rate Time searching: 00:01:40 Overall time: 00:01:40 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] 1128754 / 6668705 = 0.1693 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:25:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.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 19:25:22: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:25:22: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:25:35: 1000000 INFO @ Sat, 24 Aug 2019 19:25:47: 2000000 INFO @ Sat, 24 Aug 2019 19:25:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.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 19:25:51: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:25:51: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:25:56: 3000000 INFO @ Sat, 24 Aug 2019 19:26:00: 1000000 INFO @ Sat, 24 Aug 2019 19:26:05: 4000000 INFO @ Sat, 24 Aug 2019 19:26:09: 2000000 INFO @ Sat, 24 Aug 2019 19:26:14: 5000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:26:18: 3000000 INFO @ Sat, 24 Aug 2019 19:26:18: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:26:18: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:26:18: #1 total tags in treatment: 5539951 INFO @ Sat, 24 Aug 2019 19:26:18: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:26:18: #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 19:26:18: #1 tags after filtering in treatment: 5539951 INFO @ Sat, 24 Aug 2019 19:26:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:26:18: #1 finished! INFO @ Sat, 24 Aug 2019 19:26:18: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:26:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:26:19: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:26:19: 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 19:26:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.05_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/SRX3421880/SRX3421880.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:26:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.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 19:26:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:26:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:26:27: 4000000 INFO @ Sat, 24 Aug 2019 19:26:31: 1000000 INFO @ Sat, 24 Aug 2019 19:26:36: 5000000 INFO @ Sat, 24 Aug 2019 19:26:41: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:26:41: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:26:41: #1 total tags in treatment: 5539951 INFO @ Sat, 24 Aug 2019 19:26:41: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:26:41: #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 19:26:41: #1 tags after filtering in treatment: 5539951 INFO @ Sat, 24 Aug 2019 19:26:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:26:41: #1 finished! INFO @ Sat, 24 Aug 2019 19:26:41: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:26:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:26:42: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:26:42: 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 19:26:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.10_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/SRX3421880/SRX3421880.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:26:42: 2000000 INFO @ Sat, 24 Aug 2019 19:26:54: 3000000 INFO @ Sat, 24 Aug 2019 19:27:05: 4000000 INFO @ Sat, 24 Aug 2019 19:27:15: 5000000 INFO @ Sat, 24 Aug 2019 19:27:21: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:27:21: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:27:21: #1 total tags in treatment: 5539951 INFO @ Sat, 24 Aug 2019 19:27:21: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:27:21: #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 19:27:21: #1 tags after filtering in treatment: 5539951 INFO @ Sat, 24 Aug 2019 19:27:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:27:21: #1 finished! INFO @ Sat, 24 Aug 2019 19:27:21: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:27:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:27:22: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:27:22: 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 19:27:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.20_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/SRX3421880/SRX3421880.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421880/SRX3421880.20_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。