Job ID = 2010819 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 5,831,039 reads read : 11,662,078 reads written : 5,831,039 reads 0-length : 5,831,039 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: 00:02:08 5831039 reads; of these: 5831039 (100.00%) were unpaired; of these: 530949 (9.11%) aligned 0 times 4643243 (79.63%) aligned exactly 1 time 656847 (11.26%) aligned >1 times 90.89% overall alignment rate Time searching: 00:02:08 Overall time: 00:02:08 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] 1073460 / 5300090 = 0.2025 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 00:55:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.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 00:55:20: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:55:20: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:55:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.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 00:55:21: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:55:21: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:55:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.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 00:55:22: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:55:22: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:55:29: 1000000 INFO @ Sat, 06 Jul 2019 00:55:31: 1000000 INFO @ Sat, 06 Jul 2019 00:55:35: 1000000 INFO @ Sat, 06 Jul 2019 00:55:38: 2000000 INFO @ Sat, 06 Jul 2019 00:55:41: 2000000 INFO @ Sat, 06 Jul 2019 00:55:47: 3000000 INFO @ Sat, 06 Jul 2019 00:55:47: 2000000 INFO @ Sat, 06 Jul 2019 00:55:52: 3000000 INFO @ Sat, 06 Jul 2019 00:55:56: 4000000 INFO @ Sat, 06 Jul 2019 00:55:58: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 00:55:58: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 00:55:58: #1 total tags in treatment: 4226630 INFO @ Sat, 06 Jul 2019 00:55:58: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:55:58: #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 00:55:58: #1 tags after filtering in treatment: 4226630 INFO @ Sat, 06 Jul 2019 00:55:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:55:58: #1 finished! INFO @ Sat, 06 Jul 2019 00:55:58: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:55:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:55:59: #2 number of paired peaks: 42 WARNING @ Sat, 06 Jul 2019 00:55:59: Too few paired peaks (42) 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 00:55:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.05_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/SRX4140928/SRX4140928.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:56:00: 3000000 INFO @ Sat, 06 Jul 2019 00:56:02: 4000000 INFO @ Sat, 06 Jul 2019 00:56:04: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 00:56:04: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 00:56:04: #1 total tags in treatment: 4226630 INFO @ Sat, 06 Jul 2019 00:56:04: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:56:04: #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 00:56:05: #1 tags after filtering in treatment: 4226630 INFO @ Sat, 06 Jul 2019 00:56:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:56:05: #1 finished! INFO @ Sat, 06 Jul 2019 00:56:05: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:56:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:56:05: #2 number of paired peaks: 42 WARNING @ Sat, 06 Jul 2019 00:56:05: Too few paired peaks (42) 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 00:56:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.10_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/SRX4140928/SRX4140928.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:56:12: 4000000 INFO @ Sat, 06 Jul 2019 00:56:15: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 00:56:15: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 00:56:15: #1 total tags in treatment: 4226630 INFO @ Sat, 06 Jul 2019 00:56:15: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:56:15: #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 00:56:15: #1 tags after filtering in treatment: 4226630 INFO @ Sat, 06 Jul 2019 00:56:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:56:15: #1 finished! INFO @ Sat, 06 Jul 2019 00:56:15: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:56:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:56:15: #2 number of paired peaks: 42 WARNING @ Sat, 06 Jul 2019 00:56:15: Too few paired peaks (42) 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 00:56:15: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.20_peaks.narrowPeak: No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140928/SRX4140928.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。