Job ID = 4289183 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 18,229,813 reads read : 36,459,626 reads written : 18,229,813 reads 0-length : 18,229,813 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: 00:03:09 18229813 reads; of these: 18229813 (100.00%) were unpaired; of these: 583392 (3.20%) aligned 0 times 13776858 (75.57%) aligned exactly 1 time 3869563 (21.23%) aligned >1 times 96.80% overall alignment rate Time searching: 00:03:09 Overall time: 00:03:09 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] 9291231 / 17646421 = 0.5265 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 13:55:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.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 13:55:50: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:55:50: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:55:57: 1000000 INFO @ Tue, 10 Dec 2019 13:56:04: 2000000 INFO @ Tue, 10 Dec 2019 13:56:11: 3000000 INFO @ Tue, 10 Dec 2019 13:56:19: 4000000 INFO @ Tue, 10 Dec 2019 13:56:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.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 13:56:20: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:56:20: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:56:26: 5000000 INFO @ Tue, 10 Dec 2019 13:56:28: 1000000 INFO @ Tue, 10 Dec 2019 13:56:33: 6000000 INFO @ Tue, 10 Dec 2019 13:56:36: 2000000 INFO @ Tue, 10 Dec 2019 13:56:41: 7000000 INFO @ Tue, 10 Dec 2019 13:56:45: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 13:56:48: 8000000 INFO @ Tue, 10 Dec 2019 13:56:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.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 13:56:50: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:56:50: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:56:51: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:56:51: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:56:51: #1 total tags in treatment: 8355190 INFO @ Tue, 10 Dec 2019 13:56:51: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:56:51: #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 13:56:51: #1 tags after filtering in treatment: 8355190 INFO @ Tue, 10 Dec 2019 13:56:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:56:51: #1 finished! INFO @ Tue, 10 Dec 2019 13:56:51: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:56:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:56:51: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:56:51: 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 @ Tue, 10 Dec 2019 13:56:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.05_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/SRX6635415/SRX6635415.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:56:54: 4000000 INFO @ Tue, 10 Dec 2019 13:56:57: 1000000 INFO @ Tue, 10 Dec 2019 13:57:02: 5000000 INFO @ Tue, 10 Dec 2019 13:57:03: 2000000 INFO @ Tue, 10 Dec 2019 13:57:10: 3000000 INFO @ Tue, 10 Dec 2019 13:57:11: 6000000 INFO @ Tue, 10 Dec 2019 13:57:17: 4000000 INFO @ Tue, 10 Dec 2019 13:57:19: 7000000 INFO @ Tue, 10 Dec 2019 13:57:23: 5000000 INFO @ Tue, 10 Dec 2019 13:57:28: 8000000 INFO @ Tue, 10 Dec 2019 13:57:30: 6000000 INFO @ Tue, 10 Dec 2019 13:57:31: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:57:31: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:57:31: #1 total tags in treatment: 8355190 INFO @ Tue, 10 Dec 2019 13:57:31: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:57:31: #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 13:57:31: #1 tags after filtering in treatment: 8355190 INFO @ Tue, 10 Dec 2019 13:57:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:57:31: #1 finished! INFO @ Tue, 10 Dec 2019 13:57:31: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:57:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:57:31: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:57:31: 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 @ Tue, 10 Dec 2019 13:57:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.10_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/SRX6635415/SRX6635415.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:57:36: 7000000 INFO @ Tue, 10 Dec 2019 13:57:43: 8000000 INFO @ Tue, 10 Dec 2019 13:57:45: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:57:45: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:57:45: #1 total tags in treatment: 8355190 INFO @ Tue, 10 Dec 2019 13:57:45: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:57:45: #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 13:57:45: #1 tags after filtering in treatment: 8355190 INFO @ Tue, 10 Dec 2019 13:57:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:57:45: #1 finished! INFO @ Tue, 10 Dec 2019 13:57:45: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:57:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:57:46: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:57:46: 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 @ Tue, 10 Dec 2019 13:57:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.20_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/SRX6635415/SRX6635415.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635415/SRX6635415.20_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。