Job ID = 2010579 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,297,137 reads read : 24,594,274 reads written : 24,594,274 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: 00:10:33 12297137 reads; of these: 12297137 (100.00%) were paired; of these: 1332368 (10.83%) aligned concordantly 0 times 8848530 (71.96%) aligned concordantly exactly 1 time 2116239 (17.21%) aligned concordantly >1 times ---- 1332368 pairs aligned concordantly 0 times; of these: 285679 (21.44%) aligned discordantly 1 time ---- 1046689 pairs aligned 0 times concordantly or discordantly; of these: 2093378 mates make up the pairs; of these: 1832827 (87.55%) aligned 0 times 101338 (4.84%) aligned exactly 1 time 159213 (7.61%) aligned >1 times 92.55% overall alignment rate Time searching: 00:10:33 Overall time: 00:10:33 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] 667895 / 11231816 = 0.0595 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 23:45:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.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 23:45:38: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:45:38: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:45:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.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 23:45:38: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:45:38: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:45:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.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 23:45:39: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:45:39: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:45:45: 1000000 INFO @ Fri, 05 Jul 2019 23:45:46: 1000000 INFO @ Fri, 05 Jul 2019 23:45:48: 1000000 INFO @ Fri, 05 Jul 2019 23:45:52: 2000000 INFO @ Fri, 05 Jul 2019 23:45:54: 2000000 INFO @ Fri, 05 Jul 2019 23:45:57: 2000000 INFO @ Fri, 05 Jul 2019 23:45:58: 3000000 INFO @ Fri, 05 Jul 2019 23:46:01: 3000000 INFO @ Fri, 05 Jul 2019 23:46:05: 4000000 INFO @ Fri, 05 Jul 2019 23:46:07: 3000000 INFO @ Fri, 05 Jul 2019 23:46:09: 4000000 INFO @ Fri, 05 Jul 2019 23:46:12: 5000000 INFO @ Fri, 05 Jul 2019 23:46:16: 4000000 INFO @ Fri, 05 Jul 2019 23:46:16: 5000000 INFO @ Fri, 05 Jul 2019 23:46:18: 6000000 INFO @ Fri, 05 Jul 2019 23:46:24: 6000000 INFO @ Fri, 05 Jul 2019 23:46:25: 5000000 INFO @ Fri, 05 Jul 2019 23:46:25: 7000000 INFO @ Fri, 05 Jul 2019 23:46:31: 7000000 INFO @ Fri, 05 Jul 2019 23:46:32: 8000000 INFO @ Fri, 05 Jul 2019 23:46:34: 6000000 INFO @ Fri, 05 Jul 2019 23:46:38: 9000000 INFO @ Fri, 05 Jul 2019 23:46:39: 8000000 INFO @ Fri, 05 Jul 2019 23:46:43: 7000000 INFO @ Fri, 05 Jul 2019 23:46:45: 10000000 INFO @ Fri, 05 Jul 2019 23:46:46: 9000000 INFO @ Fri, 05 Jul 2019 23:46:51: 8000000 INFO @ Fri, 05 Jul 2019 23:46:52: 11000000 INFO @ Fri, 05 Jul 2019 23:46:54: 10000000 INFO @ Fri, 05 Jul 2019 23:46:58: 12000000 INFO @ Fri, 05 Jul 2019 23:47:00: 9000000 INFO @ Fri, 05 Jul 2019 23:47:01: 11000000 INFO @ Fri, 05 Jul 2019 23:47:05: 13000000 INFO @ Fri, 05 Jul 2019 23:47:09: 12000000 INFO @ Fri, 05 Jul 2019 23:47:09: 10000000 INFO @ Fri, 05 Jul 2019 23:47:11: 14000000 INFO @ Fri, 05 Jul 2019 23:47:16: 13000000 INFO @ Fri, 05 Jul 2019 23:47:18: 15000000 INFO @ Fri, 05 Jul 2019 23:47:18: 11000000 INFO @ Fri, 05 Jul 2019 23:47:24: 14000000 INFO @ Fri, 05 Jul 2019 23:47:25: 16000000 INFO @ Fri, 05 Jul 2019 23:47:27: 12000000 INFO @ Fri, 05 Jul 2019 23:47:31: 15000000 INFO @ Fri, 05 Jul 2019 23:47:31: 17000000 INFO @ Fri, 05 Jul 2019 23:47:36: 13000000 INFO @ Fri, 05 Jul 2019 23:47:38: 18000000 INFO @ Fri, 05 Jul 2019 23:47:38: 16000000 INFO @ Fri, 05 Jul 2019 23:47:45: 19000000 INFO @ Fri, 05 Jul 2019 23:47:45: 14000000 INFO @ Fri, 05 Jul 2019 23:47:46: 17000000 INFO @ Fri, 05 Jul 2019 23:47:51: 20000000 INFO @ Fri, 05 Jul 2019 23:47:53: 18000000 INFO @ Fri, 05 Jul 2019 23:47:53: 15000000 INFO @ Fri, 05 Jul 2019 23:47:58: 21000000 INFO @ Fri, 05 Jul 2019 23:48:01: 19000000 INFO @ Fri, 05 Jul 2019 23:48:01: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:48:01: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:48:01: #1 total tags in treatment: 10302281 INFO @ Fri, 05 Jul 2019 23:48:01: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:48:01: #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 23:48:01: #1 tags after filtering in treatment: 6837867 INFO @ Fri, 05 Jul 2019 23:48:01: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 23:48:01: #1 finished! INFO @ Fri, 05 Jul 2019 23:48:01: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:48:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:48:02: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:48:02: 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 23:48:02: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:48:02: 16000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.05_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/SRX381280/SRX381280.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:48:08: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:48:11: 17000000 INFO @ Fri, 05 Jul 2019 23:48:16: 21000000 INFO @ Fri, 05 Jul 2019 23:48:19: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:48:19: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:48:19: #1 total tags in treatment: 10302281 INFO @ Fri, 05 Jul 2019 23:48:19: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:48:19: #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 23:48:19: #1 tags after filtering in treatment: 6837867 INFO @ Fri, 05 Jul 2019 23:48:19: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 23:48:19: #1 finished! INFO @ Fri, 05 Jul 2019 23:48:19: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:48:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:48:20: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:48:20: 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 23:48:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.10_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/SRX381280/SRX381280.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:48:20: 18000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 23:48:29: 19000000 INFO @ Fri, 05 Jul 2019 23:48:37: 20000000 INFO @ Fri, 05 Jul 2019 23:48:45: 21000000 INFO @ Fri, 05 Jul 2019 23:48:49: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:48:49: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:48:49: #1 total tags in treatment: 10302281 INFO @ Fri, 05 Jul 2019 23:48:49: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:48:49: #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 23:48:49: #1 tags after filtering in treatment: 6837867 INFO @ Fri, 05 Jul 2019 23:48:49: #1 Redundant rate of treatment: 0.34 INFO @ Fri, 05 Jul 2019 23:48:49: #1 finished! INFO @ Fri, 05 Jul 2019 23:48:49: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:48:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:48:50: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:48:50: 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 23:48:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.20_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/SRX381280/SRX381280.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381280/SRX381280.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling