Job ID = 4289169 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 16,511,588 reads read : 33,023,176 reads written : 16,511,588 reads 0-length : 16,511,588 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:08:00 16511588 reads; of these: 16511588 (100.00%) were unpaired; of these: 3121876 (18.91%) aligned 0 times 11424220 (69.19%) aligned exactly 1 time 1965492 (11.90%) aligned >1 times 81.09% overall alignment rate Time searching: 00:08:01 Overall time: 00:08:01 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] 6994249 / 13389712 = 0.5224 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:05:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.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 14:05:30: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:05:30: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:05:41: 1000000 INFO @ Tue, 10 Dec 2019 14:05:52: 2000000 INFO @ Tue, 10 Dec 2019 14:06:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.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 14:06:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:06:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:06:02: 3000000 INFO @ Tue, 10 Dec 2019 14:06:11: 1000000 INFO @ Tue, 10 Dec 2019 14:06:13: 4000000 INFO @ Tue, 10 Dec 2019 14:06:22: 2000000 INFO @ Tue, 10 Dec 2019 14:06:24: 5000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:06:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.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 14:06:30: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:06:30: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:06:33: 3000000 INFO @ Tue, 10 Dec 2019 14:06:34: 6000000 INFO @ Tue, 10 Dec 2019 14:06:39: #1 tag size is determined as 125 bps INFO @ Tue, 10 Dec 2019 14:06:39: #1 tag size = 125 INFO @ Tue, 10 Dec 2019 14:06:39: #1 total tags in treatment: 6395463 INFO @ Tue, 10 Dec 2019 14:06:39: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:06:39: #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 14:06:39: #1 tags after filtering in treatment: 6395463 INFO @ Tue, 10 Dec 2019 14:06:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:06:39: #1 finished! INFO @ Tue, 10 Dec 2019 14:06:39: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:06:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:06:39: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:06:39: 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 14:06:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.05_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/SRX6635411/SRX6635411.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:06:43: 4000000 INFO @ Tue, 10 Dec 2019 14:06:44: 1000000 INFO @ Tue, 10 Dec 2019 14:06:54: 5000000 INFO @ Tue, 10 Dec 2019 14:06:57: 2000000 INFO @ Tue, 10 Dec 2019 14:07:04: 6000000 INFO @ Tue, 10 Dec 2019 14:07:08: #1 tag size is determined as 125 bps INFO @ Tue, 10 Dec 2019 14:07:08: #1 tag size = 125 INFO @ Tue, 10 Dec 2019 14:07:08: #1 total tags in treatment: 6395463 INFO @ Tue, 10 Dec 2019 14:07:08: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:07:08: #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 14:07:08: #1 tags after filtering in treatment: 6395463 INFO @ Tue, 10 Dec 2019 14:07:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:07:08: #1 finished! INFO @ Tue, 10 Dec 2019 14:07:08: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:07:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:07:09: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:07:09: 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 14:07:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.10_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/SRX6635411/SRX6635411.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:07:11: 3000000 INFO @ Tue, 10 Dec 2019 14:07:21: 4000000 INFO @ Tue, 10 Dec 2019 14:07:33: 5000000 INFO @ Tue, 10 Dec 2019 14:07:45: 6000000 INFO @ Tue, 10 Dec 2019 14:07:50: #1 tag size is determined as 125 bps INFO @ Tue, 10 Dec 2019 14:07:50: #1 tag size = 125 INFO @ Tue, 10 Dec 2019 14:07:50: #1 total tags in treatment: 6395463 INFO @ Tue, 10 Dec 2019 14:07:50: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:07:50: #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 14:07:50: #1 tags after filtering in treatment: 6395463 INFO @ Tue, 10 Dec 2019 14:07:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:07:50: #1 finished! INFO @ Tue, 10 Dec 2019 14:07:50: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:07:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:07:51: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:07:51: 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 14:07:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.20_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/SRX6635411/SRX6635411.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635411/SRX6635411.20_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。