Job ID = 2010322 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 13,683,651 reads read : 27,367,302 reads written : 27,367,302 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1009112.sra.cache’: 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: 00:08:55 13683651 reads; of these: 13683651 (100.00%) were paired; of these: 2816932 (20.59%) aligned concordantly 0 times 8414092 (61.49%) aligned concordantly exactly 1 time 2452627 (17.92%) aligned concordantly >1 times ---- 2816932 pairs aligned concordantly 0 times; of these: 12482 (0.44%) aligned discordantly 1 time ---- 2804450 pairs aligned 0 times concordantly or discordantly; of these: 5608900 mates make up the pairs; of these: 5363209 (95.62%) aligned 0 times 150496 (2.68%) aligned exactly 1 time 95195 (1.70%) aligned >1 times 80.40% overall alignment rate Time searching: 00:08:55 Overall time: 00:08:55 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 12 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] 487479 / 10873943 = 0.0448 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 @ Fri, 05 Jul 2019 22:23:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.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 @ Fri, 05 Jul 2019 22:23:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:23:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:23:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.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 @ Fri, 05 Jul 2019 22:23:16: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:23:16: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:23:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.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 @ Fri, 05 Jul 2019 22:23:27: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:23:27: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:23:32: 1000000 INFO @ Fri, 05 Jul 2019 22:23:33: 1000000 INFO @ Fri, 05 Jul 2019 22:23:34: 1000000 INFO @ Fri, 05 Jul 2019 22:23:40: 2000000 INFO @ Fri, 05 Jul 2019 22:23:41: 2000000 INFO @ Fri, 05 Jul 2019 22:23:42: 2000000 INFO @ Fri, 05 Jul 2019 22:23:47: 3000000 INFO @ Fri, 05 Jul 2019 22:23:49: 3000000 INFO @ Fri, 05 Jul 2019 22:23:50: 3000000 INFO @ Fri, 05 Jul 2019 22:23:54: 4000000 INFO @ Fri, 05 Jul 2019 22:23:57: 4000000 INFO @ Fri, 05 Jul 2019 22:23:58: 4000000 INFO @ Fri, 05 Jul 2019 22:24:02: 5000000 INFO @ Fri, 05 Jul 2019 22:24:05: 5000000 INFO @ Fri, 05 Jul 2019 22:24:05: 5000000 INFO @ Fri, 05 Jul 2019 22:24:09: 6000000 INFO @ Fri, 05 Jul 2019 22:24:13: 6000000 INFO @ Fri, 05 Jul 2019 22:24:14: 6000000 INFO @ Fri, 05 Jul 2019 22:24:16: 7000000 INFO @ Fri, 05 Jul 2019 22:24:22: 7000000 INFO @ Fri, 05 Jul 2019 22:24:22: 7000000 INFO @ Fri, 05 Jul 2019 22:24:23: 8000000 INFO @ Fri, 05 Jul 2019 22:24:29: 8000000 INFO @ Fri, 05 Jul 2019 22:24:30: 8000000 INFO @ Fri, 05 Jul 2019 22:24:30: 9000000 INFO @ Fri, 05 Jul 2019 22:24:37: 10000000 INFO @ Fri, 05 Jul 2019 22:24:37: 9000000 INFO @ Fri, 05 Jul 2019 22:24:38: 9000000 INFO @ Fri, 05 Jul 2019 22:24:44: 11000000 INFO @ Fri, 05 Jul 2019 22:24:45: 10000000 INFO @ Fri, 05 Jul 2019 22:24:46: 10000000 INFO @ Fri, 05 Jul 2019 22:24:51: 12000000 INFO @ Fri, 05 Jul 2019 22:24:52: 11000000 INFO @ Fri, 05 Jul 2019 22:24:54: 11000000 INFO @ Fri, 05 Jul 2019 22:24:58: 13000000 INFO @ Fri, 05 Jul 2019 22:25:00: 12000000 INFO @ Fri, 05 Jul 2019 22:25:02: 12000000 INFO @ Fri, 05 Jul 2019 22:25:04: 14000000 INFO @ Fri, 05 Jul 2019 22:25:08: 13000000 INFO @ Fri, 05 Jul 2019 22:25:09: 13000000 INFO @ Fri, 05 Jul 2019 22:25:11: 15000000 INFO @ Fri, 05 Jul 2019 22:25:15: 14000000 INFO @ Fri, 05 Jul 2019 22:25:17: 14000000 INFO @ Fri, 05 Jul 2019 22:25:18: 16000000 INFO @ Fri, 05 Jul 2019 22:25:22: 15000000 INFO @ Fri, 05 Jul 2019 22:25:25: 15000000 INFO @ Fri, 05 Jul 2019 22:25:25: 17000000 INFO @ Fri, 05 Jul 2019 22:25:30: 16000000 INFO @ Fri, 05 Jul 2019 22:25:32: 18000000 INFO @ Fri, 05 Jul 2019 22:25:33: 16000000 INFO @ Fri, 05 Jul 2019 22:25:38: 17000000 INFO @ Fri, 05 Jul 2019 22:25:39: 19000000 INFO @ Fri, 05 Jul 2019 22:25:41: 17000000 INFO @ Fri, 05 Jul 2019 22:25:45: 18000000 INFO @ Fri, 05 Jul 2019 22:25:46: 20000000 INFO @ Fri, 05 Jul 2019 22:25:48: 18000000 INFO @ Fri, 05 Jul 2019 22:25:53: 21000000 INFO @ Fri, 05 Jul 2019 22:25:53: 19000000 INFO @ Fri, 05 Jul 2019 22:25:53: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 22:25:53: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 22:25:53: #1 total tags in treatment: 10379379 INFO @ Fri, 05 Jul 2019 22:25:53: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:25:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:25:53: #1 tags after filtering in treatment: 6835310 INFO @ Fri, 05 Jul 2019 22:25:53: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 22:25:53: #1 finished! INFO @ Fri, 05 Jul 2019 22:25:53: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:25:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:25:54: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:25:54: 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 @ Fri, 05 Jul 2019 22:25:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.05_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/SRX363262/SRX363262.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:25:56: 19000000 INFO @ Fri, 05 Jul 2019 22:26:00: 20000000 INFO @ Fri, 05 Jul 2019 22:26:04: 20000000 INFO @ Fri, 05 Jul 2019 22:26:08: 21000000 INFO @ Fri, 05 Jul 2019 22:26:08: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 22:26:08: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 22:26:08: #1 total tags in treatment: 10379379 INFO @ Fri, 05 Jul 2019 22:26:08: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:26:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:26:08: #1 tags after filtering in treatment: 6835310 INFO @ Fri, 05 Jul 2019 22:26:08: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 22:26:08: #1 finished! INFO @ Fri, 05 Jul 2019 22:26:08: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:26:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:26:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:26:09: 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 @ Fri, 05 Jul 2019 22:26:09: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 22:26:12: 21000000 INFO @ Fri, 05 Jul 2019 22:26:13: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 22:26:13: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 22:26:13: #1 total tags in treatment: 10379379 INFO @ Fri, 05 Jul 2019 22:26:13: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:26:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:26:13: #1 tags after filtering in treatment: 6835310 INFO @ Fri, 05 Jul 2019 22:26:13: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 22:26:13: #1 finished! INFO @ Fri, 05 Jul 2019 22:26:13: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:26:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:26:13: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:26:13: 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 @ Fri, 05 Jul 2019 22:26:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.20_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363262/SRX363262.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。