Job ID = 2008195 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,644,142 reads read : 19,288,284 reads written : 19,288,284 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: 00:11:00 9644142 reads; of these: 9644142 (100.00%) were paired; of these: 604134 (6.26%) aligned concordantly 0 times 8306781 (86.13%) aligned concordantly exactly 1 time 733227 (7.60%) aligned concordantly >1 times ---- 604134 pairs aligned concordantly 0 times; of these: 158036 (26.16%) aligned discordantly 1 time ---- 446098 pairs aligned 0 times concordantly or discordantly; of these: 892196 mates make up the pairs; of these: 818732 (91.77%) aligned 0 times 43649 (4.89%) aligned exactly 1 time 29815 (3.34%) aligned >1 times 95.76% overall alignment rate Time searching: 00:11:00 Overall time: 00:11:00 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 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] 1519635 / 9167068 = 0.1658 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 18:16:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.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 18:16:48: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:16:48: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:16:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.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 18:16:49: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:16:49: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:16:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.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 18:16:50: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:16:50: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:16:57: 1000000 INFO @ Fri, 05 Jul 2019 18:16:59: 1000000 INFO @ Fri, 05 Jul 2019 18:16:59: 1000000 INFO @ Fri, 05 Jul 2019 18:17:05: 2000000 INFO @ Fri, 05 Jul 2019 18:17:07: 2000000 INFO @ Fri, 05 Jul 2019 18:17:08: 2000000 INFO @ Fri, 05 Jul 2019 18:17:13: 3000000 INFO @ Fri, 05 Jul 2019 18:17:15: 3000000 INFO @ Fri, 05 Jul 2019 18:17:19: 3000000 INFO @ Fri, 05 Jul 2019 18:17:22: 4000000 INFO @ Fri, 05 Jul 2019 18:17:23: 4000000 INFO @ Fri, 05 Jul 2019 18:17:29: 4000000 INFO @ Fri, 05 Jul 2019 18:17:30: 5000000 INFO @ Fri, 05 Jul 2019 18:17:31: 5000000 INFO @ Fri, 05 Jul 2019 18:17:38: 6000000 INFO @ Fri, 05 Jul 2019 18:17:38: 5000000 INFO @ Fri, 05 Jul 2019 18:17:39: 6000000 INFO @ Fri, 05 Jul 2019 18:17:46: 7000000 INFO @ Fri, 05 Jul 2019 18:17:47: 7000000 INFO @ Fri, 05 Jul 2019 18:17:48: 6000000 INFO @ Fri, 05 Jul 2019 18:17:54: 8000000 INFO @ Fri, 05 Jul 2019 18:17:56: 8000000 INFO @ Fri, 05 Jul 2019 18:17:58: 7000000 INFO @ Fri, 05 Jul 2019 18:18:02: 9000000 INFO @ Fri, 05 Jul 2019 18:18:04: 9000000 INFO @ Fri, 05 Jul 2019 18:18:09: 8000000 INFO @ Fri, 05 Jul 2019 18:18:10: 10000000 INFO @ Fri, 05 Jul 2019 18:18:12: 10000000 INFO @ Fri, 05 Jul 2019 18:18:18: 11000000 INFO @ Fri, 05 Jul 2019 18:18:20: 11000000 INFO @ Fri, 05 Jul 2019 18:18:20: 9000000 INFO @ Fri, 05 Jul 2019 18:18:27: 12000000 INFO @ Fri, 05 Jul 2019 18:18:28: 12000000 INFO @ Fri, 05 Jul 2019 18:18:30: 10000000 INFO @ Fri, 05 Jul 2019 18:18:35: 13000000 INFO @ Fri, 05 Jul 2019 18:18:36: 13000000 INFO @ Fri, 05 Jul 2019 18:18:40: 11000000 INFO @ Fri, 05 Jul 2019 18:18:43: 14000000 INFO @ Fri, 05 Jul 2019 18:18:44: 14000000 INFO @ Fri, 05 Jul 2019 18:18:51: 12000000 INFO @ Fri, 05 Jul 2019 18:18:52: 15000000 INFO @ Fri, 05 Jul 2019 18:18:52: 15000000 INFO @ Fri, 05 Jul 2019 18:18:56: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:18:56: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:18:56: #1 total tags in treatment: 7525596 INFO @ Fri, 05 Jul 2019 18:18:56: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:18:56: #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 18:18:56: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:18:56: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:18:56: #1 total tags in treatment: 7525596 INFO @ Fri, 05 Jul 2019 18:18:56: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:18:56: #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 18:18:56: #1 tags after filtering in treatment: 4134167 INFO @ Fri, 05 Jul 2019 18:18:56: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 05 Jul 2019 18:18:56: #1 finished! INFO @ Fri, 05 Jul 2019 18:18:56: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:18:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:18:56: #1 tags after filtering in treatment: 4134167 INFO @ Fri, 05 Jul 2019 18:18:56: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 05 Jul 2019 18:18:56: #1 finished! INFO @ Fri, 05 Jul 2019 18:18:56: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:18:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:18:57: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:18:57: 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 18:18:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.20_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 18:18:57: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:18:57: 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 18:18:57: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling cut: /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.05_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/ERX585730/ERX585730.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:19:01: 13000000 INFO @ Fri, 05 Jul 2019 18:19:10: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 18:19:19: 15000000 INFO @ Fri, 05 Jul 2019 18:19:23: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:19:23: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:19:23: #1 total tags in treatment: 7525596 INFO @ Fri, 05 Jul 2019 18:19:23: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:19:23: #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 18:19:23: #1 tags after filtering in treatment: 4134167 INFO @ Fri, 05 Jul 2019 18:19:23: #1 Redundant rate of treatment: 0.45 INFO @ Fri, 05 Jul 2019 18:19:23: #1 finished! INFO @ Fri, 05 Jul 2019 18:19:23: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:19:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:19:24: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:19:24: 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 @ Fri, 05 Jul 2019 18:19:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.10_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/ERX585730/ERX585730.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585730/ERX585730.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。