Job ID = 4289563 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 5,030,743 reads read : 5,030,743 reads written : 5,030,743 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: 00:00:36 5030743 reads; of these: 5030743 (100.00%) were unpaired; of these: 2765937 (54.98%) aligned 0 times 1775039 (35.28%) aligned exactly 1 time 489767 (9.74%) aligned >1 times 45.02% overall alignment rate Time searching: 00:00:36 Overall time: 00:00:36 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] 1728862 / 2264806 = 0.7634 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:50:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.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 14:50:19: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:50:19: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:50:23: #1 tag size is determined as 40 bps INFO @ Tue, 10 Dec 2019 14:50:23: #1 tag size = 40 INFO @ Tue, 10 Dec 2019 14:50:23: #1 total tags in treatment: 535944 INFO @ Tue, 10 Dec 2019 14:50:23: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:50:23: #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 14:50:23: #1 tags after filtering in treatment: 535944 INFO @ Tue, 10 Dec 2019 14:50:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:50:23: #1 finished! INFO @ Tue, 10 Dec 2019 14:50:23: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:50:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:50:23: #2 number of paired peaks: 78 WARNING @ Tue, 10 Dec 2019 14:50:23: Too few paired peaks (78) 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 14:50:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.05_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/SRX6932547/SRX6932547.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:50:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.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 14:50:48: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:50:48: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:50:52: #1 tag size is determined as 40 bps INFO @ Tue, 10 Dec 2019 14:50:52: #1 tag size = 40 INFO @ Tue, 10 Dec 2019 14:50:52: #1 total tags in treatment: 535944 INFO @ Tue, 10 Dec 2019 14:50:52: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:50:52: #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 14:50:52: #1 tags after filtering in treatment: 535944 INFO @ Tue, 10 Dec 2019 14:50:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:50:52: #1 finished! INFO @ Tue, 10 Dec 2019 14:50:52: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:50:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:50:52: #2 number of paired peaks: 78 WARNING @ Tue, 10 Dec 2019 14:50:52: Too few paired peaks (78) 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 14:50:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.10_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/SRX6932547/SRX6932547.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:51:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.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 14:51:18: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:51:18: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:51:22: #1 tag size is determined as 40 bps INFO @ Tue, 10 Dec 2019 14:51:22: #1 tag size = 40 INFO @ Tue, 10 Dec 2019 14:51:22: #1 total tags in treatment: 535944 INFO @ Tue, 10 Dec 2019 14:51:22: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:51:22: #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 14:51:22: #1 tags after filtering in treatment: 535944 INFO @ Tue, 10 Dec 2019 14:51:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:51:22: #1 finished! INFO @ Tue, 10 Dec 2019 14:51:22: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:51:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:51:22: #2 number of paired peaks: 78 WARNING @ Tue, 10 Dec 2019 14:51:22: Too few paired peaks (78) 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 14:51:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.20_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/SRX6932547/SRX6932547.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932547/SRX6932547.20_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。