Job ID = 4289109 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 11,238,460 reads read : 22,476,920 reads written : 11,238,460 reads 0-length : 11,238,460 spots read : 10,232,431 reads read : 20,464,862 reads written : 10,232,431 reads 0-length : 10,232,431 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: 00:02:32 21470891 reads; of these: 21470891 (100.00%) were unpaired; of these: 12627575 (58.81%) aligned 0 times 5277311 (24.58%) aligned exactly 1 time 3566005 (16.61%) aligned >1 times 41.19% overall alignment rate Time searching: 00:02:32 Overall time: 00:02:32 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] 4498890 / 8843316 = 0.5087 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 13:41:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.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 @ Tue, 10 Dec 2019 13:41:06: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:41:06: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:41:14: 1000000 INFO @ Tue, 10 Dec 2019 13:41:21: 2000000 INFO @ Tue, 10 Dec 2019 13:41:29: 3000000 INFO @ Tue, 10 Dec 2019 13:41:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.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 @ Tue, 10 Dec 2019 13:41:36: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:41:36: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:41:37: 4000000 INFO @ Tue, 10 Dec 2019 13:41:40: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:41:40: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:41:40: #1 total tags in treatment: 4344426 INFO @ Tue, 10 Dec 2019 13:41:40: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:41:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 13:41:40: #1 tags after filtering in treatment: 4344426 INFO @ Tue, 10 Dec 2019 13:41:40: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:41:40: #1 finished! INFO @ Tue, 10 Dec 2019 13:41:40: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:41:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:41:40: #2 number of paired peaks: 30 WARNING @ Tue, 10 Dec 2019 13:41:40: Too few paired peaks (30) 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 @ Tue, 10 Dec 2019 13:41:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.05_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/SRX5486247/SRX5486247.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:41:46: 1000000 INFO @ Tue, 10 Dec 2019 13:41:55: 2000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 13:42:05: 3000000 INFO @ Tue, 10 Dec 2019 13:42:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.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 @ Tue, 10 Dec 2019 13:42:06: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:42:06: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:42:15: 4000000 INFO @ Tue, 10 Dec 2019 13:42:16: 1000000 INFO @ Tue, 10 Dec 2019 13:42:18: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:42:18: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:42:18: #1 total tags in treatment: 4344426 INFO @ Tue, 10 Dec 2019 13:42:18: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:42:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 13:42:18: #1 tags after filtering in treatment: 4344426 INFO @ Tue, 10 Dec 2019 13:42:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:42:18: #1 finished! INFO @ Tue, 10 Dec 2019 13:42:18: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:42:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:42:19: #2 number of paired peaks: 30 WARNING @ Tue, 10 Dec 2019 13:42:19: Too few paired peaks (30) 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 @ Tue, 10 Dec 2019 13:42:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.10_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/SRX5486247/SRX5486247.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:42:27: 2000000 INFO @ Tue, 10 Dec 2019 13:42:38: 3000000 INFO @ Tue, 10 Dec 2019 13:42:48: 4000000 INFO @ Tue, 10 Dec 2019 13:42:51: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:42:51: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:42:51: #1 total tags in treatment: 4344426 INFO @ Tue, 10 Dec 2019 13:42:51: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:42:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 13:42:51: #1 tags after filtering in treatment: 4344426 INFO @ Tue, 10 Dec 2019 13:42:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:42:51: #1 finished! INFO @ Tue, 10 Dec 2019 13:42:51: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:42:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:42:51: #2 number of paired peaks: 30 WARNING @ Tue, 10 Dec 2019 13:42:51: Too few paired peaks (30) 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 @ Tue, 10 Dec 2019 13:42:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.20_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/SRX5486247/SRX5486247.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486247/SRX5486247.20_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。