Job ID = 2010551 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,158,733 reads read : 22,317,466 reads written : 22,317,466 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: 00:09:22 11158733 reads; of these: 11158733 (100.00%) were paired; of these: 689124 (6.18%) aligned concordantly 0 times 8675901 (77.75%) aligned concordantly exactly 1 time 1793708 (16.07%) aligned concordantly >1 times ---- 689124 pairs aligned concordantly 0 times; of these: 229612 (33.32%) aligned discordantly 1 time ---- 459512 pairs aligned 0 times concordantly or discordantly; of these: 919024 mates make up the pairs; of these: 649286 (70.65%) aligned 0 times 140141 (15.25%) aligned exactly 1 time 129597 (14.10%) aligned >1 times 97.09% overall alignment rate Time searching: 00:09:22 Overall time: 00:09:22 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] 345862 / 10681538 = 0.0324 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 23:23:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.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 23:23:55: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:23:55: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:23:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.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 23:23:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:23:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:23:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.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 23:23:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:23:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:24:04: 1000000 INFO @ Fri, 05 Jul 2019 23:24:04: 1000000 INFO @ Fri, 05 Jul 2019 23:24:05: 1000000 INFO @ Fri, 05 Jul 2019 23:24:11: 2000000 INFO @ Fri, 05 Jul 2019 23:24:12: 2000000 INFO @ Fri, 05 Jul 2019 23:24:13: 2000000 INFO @ Fri, 05 Jul 2019 23:24:19: 3000000 INFO @ Fri, 05 Jul 2019 23:24:21: 3000000 INFO @ Fri, 05 Jul 2019 23:24:22: 3000000 INFO @ Fri, 05 Jul 2019 23:24:26: 4000000 INFO @ Fri, 05 Jul 2019 23:24:29: 4000000 INFO @ Fri, 05 Jul 2019 23:24:30: 4000000 INFO @ Fri, 05 Jul 2019 23:24:33: 5000000 INFO @ Fri, 05 Jul 2019 23:24:38: 5000000 INFO @ Fri, 05 Jul 2019 23:24:38: 5000000 INFO @ Fri, 05 Jul 2019 23:24:40: 6000000 INFO @ Fri, 05 Jul 2019 23:24:46: 6000000 INFO @ Fri, 05 Jul 2019 23:24:46: 6000000 INFO @ Fri, 05 Jul 2019 23:24:48: 7000000 INFO @ Fri, 05 Jul 2019 23:24:54: 7000000 INFO @ Fri, 05 Jul 2019 23:24:55: 7000000 INFO @ Fri, 05 Jul 2019 23:24:55: 8000000 INFO @ Fri, 05 Jul 2019 23:25:02: 9000000 INFO @ Fri, 05 Jul 2019 23:25:03: 8000000 INFO @ Fri, 05 Jul 2019 23:25:03: 8000000 INFO @ Fri, 05 Jul 2019 23:25:10: 10000000 INFO @ Fri, 05 Jul 2019 23:25:11: 9000000 INFO @ Fri, 05 Jul 2019 23:25:12: 9000000 INFO @ Fri, 05 Jul 2019 23:25:17: 11000000 INFO @ Fri, 05 Jul 2019 23:25:20: 10000000 INFO @ Fri, 05 Jul 2019 23:25:20: 10000000 INFO @ Fri, 05 Jul 2019 23:25:24: 12000000 INFO @ Fri, 05 Jul 2019 23:25:28: 11000000 INFO @ Fri, 05 Jul 2019 23:25:29: 11000000 INFO @ Fri, 05 Jul 2019 23:25:32: 13000000 INFO @ Fri, 05 Jul 2019 23:25:36: 12000000 INFO @ Fri, 05 Jul 2019 23:25:37: 12000000 INFO @ Fri, 05 Jul 2019 23:25:39: 14000000 INFO @ Fri, 05 Jul 2019 23:25:45: 13000000 INFO @ Fri, 05 Jul 2019 23:25:45: 13000000 INFO @ Fri, 05 Jul 2019 23:25:46: 15000000 INFO @ Fri, 05 Jul 2019 23:25:53: 16000000 INFO @ Fri, 05 Jul 2019 23:25:54: 14000000 INFO @ Fri, 05 Jul 2019 23:25:54: 14000000 INFO @ Fri, 05 Jul 2019 23:26:01: 17000000 INFO @ Fri, 05 Jul 2019 23:26:03: 15000000 INFO @ Fri, 05 Jul 2019 23:26:03: 15000000 INFO @ Fri, 05 Jul 2019 23:26:08: 18000000 INFO @ Fri, 05 Jul 2019 23:26:12: 16000000 INFO @ Fri, 05 Jul 2019 23:26:12: 16000000 INFO @ Fri, 05 Jul 2019 23:26:15: 19000000 INFO @ Fri, 05 Jul 2019 23:26:20: 17000000 INFO @ Fri, 05 Jul 2019 23:26:20: 17000000 INFO @ Fri, 05 Jul 2019 23:26:23: 20000000 INFO @ Fri, 05 Jul 2019 23:26:29: 18000000 INFO @ Fri, 05 Jul 2019 23:26:29: 18000000 INFO @ Fri, 05 Jul 2019 23:26:30: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:26:30: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:26:30: #1 total tags in treatment: 10125432 INFO @ Fri, 05 Jul 2019 23:26:30: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:26:30: #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 23:26:30: #1 tags after filtering in treatment: 6926820 INFO @ Fri, 05 Jul 2019 23:26:30: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:26:30: #1 finished! INFO @ Fri, 05 Jul 2019 23:26:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:26:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:26:31: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:26:31: 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 23:26:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.20_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/SRX381252/SRX381252.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:26:37: 19000000 INFO @ Fri, 05 Jul 2019 23:26:38: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:26:46: 20000000 INFO @ Fri, 05 Jul 2019 23:26:47: 20000000 INFO @ Fri, 05 Jul 2019 23:26:54: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:26:54: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:26:54: #1 total tags in treatment: 10125432 INFO @ Fri, 05 Jul 2019 23:26:54: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:26:54: #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 23:26:54: #1 tags after filtering in treatment: 6926820 INFO @ Fri, 05 Jul 2019 23:26:54: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:26:54: #1 finished! INFO @ Fri, 05 Jul 2019 23:26:54: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:26:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:26:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:26:55: 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 23:26:55: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:26:55: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:26:55: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:26:55: #1 total tags in treatment: 10125432 INFO @ Fri, 05 Jul 2019 23:26:55: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:26:55: #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 23:26:55: #1 tags after filtering in treatment: 6926820 INFO @ Fri, 05 Jul 2019 23:26:55: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:26:55: #1 finished! INFO @ Fri, 05 Jul 2019 23:26:55: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:26:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:26:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:26:55: 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 23:26:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.10_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/SRX381252/SRX381252.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381252/SRX381252.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。