Job ID = 2010538 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,345,493 reads read : 22,690,986 reads written : 22,690,986 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: 00:08:08 11345493 reads; of these: 11345493 (100.00%) were paired; of these: 2514563 (22.16%) aligned concordantly 0 times 7318730 (64.51%) aligned concordantly exactly 1 time 1512200 (13.33%) aligned concordantly >1 times ---- 2514563 pairs aligned concordantly 0 times; of these: 415265 (16.51%) aligned discordantly 1 time ---- 2099298 pairs aligned 0 times concordantly or discordantly; of these: 4198596 mates make up the pairs; of these: 3801927 (90.55%) aligned 0 times 172708 (4.11%) aligned exactly 1 time 223961 (5.33%) aligned >1 times 83.24% overall alignment rate Time searching: 00:08:08 Overall time: 00:08:08 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] 837758 / 9235285 = 0.0907 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 23:16:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.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 23:16:42: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:16:42: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:16:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.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 23:16:43: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:16:43: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:16:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.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 23:16:44: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:16:44: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:16:51: 1000000 INFO @ Fri, 05 Jul 2019 23:16:52: 1000000 INFO @ Fri, 05 Jul 2019 23:16:53: 1000000 INFO @ Fri, 05 Jul 2019 23:16:58: 2000000 INFO @ Fri, 05 Jul 2019 23:16:59: 2000000 INFO @ Fri, 05 Jul 2019 23:17:04: 2000000 INFO @ Fri, 05 Jul 2019 23:17:05: 3000000 INFO @ Fri, 05 Jul 2019 23:17:06: 3000000 INFO @ Fri, 05 Jul 2019 23:17:12: 4000000 INFO @ Fri, 05 Jul 2019 23:17:14: 4000000 INFO @ Fri, 05 Jul 2019 23:17:14: 3000000 INFO @ Fri, 05 Jul 2019 23:17:19: 5000000 INFO @ Fri, 05 Jul 2019 23:17:21: 5000000 INFO @ Fri, 05 Jul 2019 23:17:25: 4000000 INFO @ Fri, 05 Jul 2019 23:17:26: 6000000 INFO @ Fri, 05 Jul 2019 23:17:28: 6000000 INFO @ Fri, 05 Jul 2019 23:17:33: 7000000 INFO @ Fri, 05 Jul 2019 23:17:35: 5000000 INFO @ Fri, 05 Jul 2019 23:17:35: 7000000 INFO @ Fri, 05 Jul 2019 23:17:40: 8000000 INFO @ Fri, 05 Jul 2019 23:17:42: 8000000 INFO @ Fri, 05 Jul 2019 23:17:43: 6000000 INFO @ Fri, 05 Jul 2019 23:17:47: 9000000 INFO @ Fri, 05 Jul 2019 23:17:49: 9000000 INFO @ Fri, 05 Jul 2019 23:17:52: 7000000 INFO @ Fri, 05 Jul 2019 23:17:54: 10000000 INFO @ Fri, 05 Jul 2019 23:17:56: 10000000 INFO @ Fri, 05 Jul 2019 23:18:01: 11000000 INFO @ Fri, 05 Jul 2019 23:18:02: 8000000 INFO @ Fri, 05 Jul 2019 23:18:03: 11000000 INFO @ Fri, 05 Jul 2019 23:18:08: 12000000 INFO @ Fri, 05 Jul 2019 23:18:10: 12000000 INFO @ Fri, 05 Jul 2019 23:18:12: 9000000 INFO @ Fri, 05 Jul 2019 23:18:15: 13000000 INFO @ Fri, 05 Jul 2019 23:18:17: 13000000 INFO @ Fri, 05 Jul 2019 23:18:22: 10000000 INFO @ Fri, 05 Jul 2019 23:18:22: 14000000 INFO @ Fri, 05 Jul 2019 23:18:24: 14000000 INFO @ Fri, 05 Jul 2019 23:18:29: 15000000 INFO @ Fri, 05 Jul 2019 23:18:31: 15000000 INFO @ Fri, 05 Jul 2019 23:18:32: 11000000 INFO @ Fri, 05 Jul 2019 23:18:36: 16000000 INFO @ Fri, 05 Jul 2019 23:18:38: 16000000 INFO @ Fri, 05 Jul 2019 23:18:43: 17000000 INFO @ Fri, 05 Jul 2019 23:18:43: 12000000 INFO @ Fri, 05 Jul 2019 23:18:45: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:18:45: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:18:45: #1 total tags in treatment: 8039080 INFO @ Fri, 05 Jul 2019 23:18:45: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:18:45: #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 23:18:45: #1 tags after filtering in treatment: 5325533 INFO @ Fri, 05 Jul 2019 23:18:45: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 23:18:45: #1 finished! INFO @ Fri, 05 Jul 2019 23:18:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:18:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:18:45: 17000000 INFO @ Fri, 05 Jul 2019 23:18:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:18:45: 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 23:18:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.10_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/SRX381240/SRX381240.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:18:47: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:18:47: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:18:47: #1 total tags in treatment: 8039080 INFO @ Fri, 05 Jul 2019 23:18:47: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:18:47: #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 23:18:47: #1 tags after filtering in treatment: 5325533 INFO @ Fri, 05 Jul 2019 23:18:47: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 23:18:47: #1 finished! INFO @ Fri, 05 Jul 2019 23:18:47: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:18:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:18:47: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:18:47: 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 23:18:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.20_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/SRX381240/SRX381240.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:18:54: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:19:04: 14000000 INFO @ Fri, 05 Jul 2019 23:19:14: 15000000 INFO @ Fri, 05 Jul 2019 23:19:25: 16000000 INFO @ Fri, 05 Jul 2019 23:19:36: 17000000 INFO @ Fri, 05 Jul 2019 23:19:38: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:19:38: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:19:38: #1 total tags in treatment: 8039080 INFO @ Fri, 05 Jul 2019 23:19:38: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:19:38: #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 23:19:38: #1 tags after filtering in treatment: 5325533 INFO @ Fri, 05 Jul 2019 23:19:38: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 23:19:38: #1 finished! INFO @ Fri, 05 Jul 2019 23:19:38: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:19:38: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:19:38: 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 23:19:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.05_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/SRX381240/SRX381240.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381240/SRX381240.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。