Job ID = 2640760 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,676,188 reads read : 23,352,376 reads written : 23,352,376 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: 00:08:02 11676188 reads; of these: 11676188 (100.00%) were paired; of these: 2666292 (22.84%) aligned concordantly 0 times 6674226 (57.16%) aligned concordantly exactly 1 time 2335670 (20.00%) aligned concordantly >1 times ---- 2666292 pairs aligned concordantly 0 times; of these: 17665 (0.66%) aligned discordantly 1 time ---- 2648627 pairs aligned 0 times concordantly or discordantly; of these: 5297254 mates make up the pairs; of these: 5203495 (98.23%) aligned 0 times 43205 (0.82%) aligned exactly 1 time 50554 (0.95%) aligned >1 times 77.72% overall alignment rate Time searching: 00:08:02 Overall time: 00:08:02 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_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1637928 / 9019766 = 0.1816 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:20:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.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, 24 Aug 2019 19:20:47: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:20:47: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:20:53: 1000000 INFO @ Sat, 24 Aug 2019 19:21:00: 2000000 INFO @ Sat, 24 Aug 2019 19:21:08: 3000000 INFO @ Sat, 24 Aug 2019 19:21:15: 4000000 INFO @ Sat, 24 Aug 2019 19:21:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.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, 24 Aug 2019 19:21:16: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:21:16: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:21:21: 5000000 INFO @ Sat, 24 Aug 2019 19:21:22: 1000000 INFO @ Sat, 24 Aug 2019 19:21:28: 6000000 INFO @ Sat, 24 Aug 2019 19:21:29: 2000000 INFO @ Sat, 24 Aug 2019 19:21:34: 7000000 INFO @ Sat, 24 Aug 2019 19:21:37: 3000000 INFO @ Sat, 24 Aug 2019 19:21:40: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:21:44: 4000000 INFO @ Sat, 24 Aug 2019 19:21:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.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, 24 Aug 2019 19:21:46: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:21:46: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:21:46: 9000000 INFO @ Sat, 24 Aug 2019 19:21:51: 5000000 INFO @ Sat, 24 Aug 2019 19:21:53: 1000000 INFO @ Sat, 24 Aug 2019 19:21:53: 10000000 INFO @ Sat, 24 Aug 2019 19:21:58: 6000000 INFO @ Sat, 24 Aug 2019 19:21:59: 11000000 INFO @ Sat, 24 Aug 2019 19:22:00: 2000000 INFO @ Sat, 24 Aug 2019 19:22:05: 7000000 INFO @ Sat, 24 Aug 2019 19:22:06: 12000000 INFO @ Sat, 24 Aug 2019 19:22:07: 3000000 INFO @ Sat, 24 Aug 2019 19:22:11: 8000000 INFO @ Sat, 24 Aug 2019 19:22:12: 13000000 INFO @ Sat, 24 Aug 2019 19:22:13: 4000000 INFO @ Sat, 24 Aug 2019 19:22:18: 9000000 INFO @ Sat, 24 Aug 2019 19:22:18: 14000000 INFO @ Sat, 24 Aug 2019 19:22:20: 5000000 INFO @ Sat, 24 Aug 2019 19:22:24: #1 tag size is determined as 24 bps INFO @ Sat, 24 Aug 2019 19:22:24: #1 tag size = 24 INFO @ Sat, 24 Aug 2019 19:22:24: #1 total tags in treatment: 7373048 INFO @ Sat, 24 Aug 2019 19:22:24: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:22:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:22:24: #1 tags after filtering in treatment: 5157734 INFO @ Sat, 24 Aug 2019 19:22:24: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 24 Aug 2019 19:22:24: #1 finished! INFO @ Sat, 24 Aug 2019 19:22:24: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:22:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:22:24: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:22:24: 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 @ Sat, 24 Aug 2019 19:22:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.05_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/ERX2732451/ERX2732451.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:22:25: 10000000 INFO @ Sat, 24 Aug 2019 19:22:26: 6000000 INFO @ Sat, 24 Aug 2019 19:22:31: 11000000 INFO @ Sat, 24 Aug 2019 19:22:32: 7000000 INFO @ Sat, 24 Aug 2019 19:22:38: 12000000 INFO @ Sat, 24 Aug 2019 19:22:39: 8000000 INFO @ Sat, 24 Aug 2019 19:22:44: 9000000 INFO @ Sat, 24 Aug 2019 19:22:45: 13000000 INFO @ Sat, 24 Aug 2019 19:22:50: 10000000 INFO @ Sat, 24 Aug 2019 19:22:52: 14000000 INFO @ Sat, 24 Aug 2019 19:22:56: 11000000 INFO @ Sat, 24 Aug 2019 19:22:58: #1 tag size is determined as 24 bps INFO @ Sat, 24 Aug 2019 19:22:58: #1 tag size = 24 INFO @ Sat, 24 Aug 2019 19:22:58: #1 total tags in treatment: 7373048 INFO @ Sat, 24 Aug 2019 19:22:58: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:22:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:22:58: #1 tags after filtering in treatment: 5157734 INFO @ Sat, 24 Aug 2019 19:22:58: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 24 Aug 2019 19:22:58: #1 finished! INFO @ Sat, 24 Aug 2019 19:22:58: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:22:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:22:58: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:22:58: 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 @ Sat, 24 Aug 2019 19:22:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.10_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/ERX2732451/ERX2732451.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:23:01: 12000000 INFO @ Sat, 24 Aug 2019 19:23:07: 13000000 INFO @ Sat, 24 Aug 2019 19:23:13: 14000000 INFO @ Sat, 24 Aug 2019 19:23:18: #1 tag size is determined as 24 bps INFO @ Sat, 24 Aug 2019 19:23:18: #1 tag size = 24 INFO @ Sat, 24 Aug 2019 19:23:18: #1 total tags in treatment: 7373048 INFO @ Sat, 24 Aug 2019 19:23:18: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:23:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:23:18: #1 tags after filtering in treatment: 5157734 INFO @ Sat, 24 Aug 2019 19:23:18: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 24 Aug 2019 19:23:18: #1 finished! INFO @ Sat, 24 Aug 2019 19:23:18: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:23:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:23:18: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:23:18: 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 @ Sat, 24 Aug 2019 19:23:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.20_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/ERX2732451/ERX2732451.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732451/ERX2732451.20_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。