Job ID = 2010583 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 13,530,449 reads read : 27,060,898 reads written : 27,060,898 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: 00:10:54 13530449 reads; of these: 13530449 (100.00%) were paired; of these: 927480 (6.85%) aligned concordantly 0 times 10052659 (74.30%) aligned concordantly exactly 1 time 2550310 (18.85%) aligned concordantly >1 times ---- 927480 pairs aligned concordantly 0 times; of these: 278810 (30.06%) aligned discordantly 1 time ---- 648670 pairs aligned 0 times concordantly or discordantly; of these: 1297340 mates make up the pairs; of these: 1024194 (78.95%) aligned 0 times 110541 (8.52%) aligned exactly 1 time 162605 (12.53%) aligned >1 times 96.22% overall alignment rate Time searching: 00:10:54 Overall time: 00:10:54 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] 1199855 / 12850559 = 0.0934 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 23:53:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.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 23:53:50: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:53:50: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:53:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.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 23:53:51: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:53:51: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:53:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.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 23:53:52: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:53:52: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:53:57: 1000000 INFO @ Fri, 05 Jul 2019 23:53:59: 1000000 INFO @ Fri, 05 Jul 2019 23:53:59: 1000000 INFO @ Fri, 05 Jul 2019 23:54:04: 2000000 INFO @ Fri, 05 Jul 2019 23:54:06: 2000000 INFO @ Fri, 05 Jul 2019 23:54:07: 2000000 INFO @ Fri, 05 Jul 2019 23:54:11: 3000000 INFO @ Fri, 05 Jul 2019 23:54:13: 3000000 INFO @ Fri, 05 Jul 2019 23:54:15: 3000000 INFO @ Fri, 05 Jul 2019 23:54:18: 4000000 INFO @ Fri, 05 Jul 2019 23:54:20: 4000000 INFO @ Fri, 05 Jul 2019 23:54:22: 4000000 INFO @ Fri, 05 Jul 2019 23:54:26: 5000000 INFO @ Fri, 05 Jul 2019 23:54:26: 5000000 INFO @ Fri, 05 Jul 2019 23:54:30: 5000000 INFO @ Fri, 05 Jul 2019 23:54:33: 6000000 INFO @ Fri, 05 Jul 2019 23:54:34: 6000000 INFO @ Fri, 05 Jul 2019 23:54:38: 6000000 INFO @ Fri, 05 Jul 2019 23:54:40: 7000000 INFO @ Fri, 05 Jul 2019 23:54:41: 7000000 INFO @ Fri, 05 Jul 2019 23:54:45: 7000000 INFO @ Fri, 05 Jul 2019 23:54:48: 8000000 INFO @ Fri, 05 Jul 2019 23:54:48: 8000000 INFO @ Fri, 05 Jul 2019 23:54:53: 8000000 INFO @ Fri, 05 Jul 2019 23:54:55: 9000000 INFO @ Fri, 05 Jul 2019 23:54:56: 9000000 INFO @ Fri, 05 Jul 2019 23:55:00: 9000000 INFO @ Fri, 05 Jul 2019 23:55:03: 10000000 INFO @ Fri, 05 Jul 2019 23:55:04: 10000000 INFO @ Fri, 05 Jul 2019 23:55:08: 10000000 INFO @ Fri, 05 Jul 2019 23:55:09: 11000000 INFO @ Fri, 05 Jul 2019 23:55:12: 11000000 INFO @ Fri, 05 Jul 2019 23:55:15: 11000000 INFO @ Fri, 05 Jul 2019 23:55:16: 12000000 INFO @ Fri, 05 Jul 2019 23:55:20: 12000000 INFO @ Fri, 05 Jul 2019 23:55:23: 12000000 INFO @ Fri, 05 Jul 2019 23:55:23: 13000000 INFO @ Fri, 05 Jul 2019 23:55:28: 13000000 INFO @ Fri, 05 Jul 2019 23:55:29: 14000000 INFO @ Fri, 05 Jul 2019 23:55:30: 13000000 INFO @ Fri, 05 Jul 2019 23:55:35: 14000000 INFO @ Fri, 05 Jul 2019 23:55:36: 15000000 INFO @ Fri, 05 Jul 2019 23:55:37: 14000000 INFO @ Fri, 05 Jul 2019 23:55:42: 16000000 INFO @ Fri, 05 Jul 2019 23:55:43: 15000000 INFO @ Fri, 05 Jul 2019 23:55:45: 15000000 INFO @ Fri, 05 Jul 2019 23:55:48: 17000000 INFO @ Fri, 05 Jul 2019 23:55:50: 16000000 INFO @ Fri, 05 Jul 2019 23:55:52: 16000000 INFO @ Fri, 05 Jul 2019 23:55:55: 18000000 INFO @ Fri, 05 Jul 2019 23:55:57: 17000000 INFO @ Fri, 05 Jul 2019 23:55:59: 17000000 INFO @ Fri, 05 Jul 2019 23:56:02: 19000000 INFO @ Fri, 05 Jul 2019 23:56:05: 18000000 INFO @ Fri, 05 Jul 2019 23:56:06: 18000000 INFO @ Fri, 05 Jul 2019 23:56:09: 20000000 INFO @ Fri, 05 Jul 2019 23:56:13: 19000000 INFO @ Fri, 05 Jul 2019 23:56:14: 19000000 INFO @ Fri, 05 Jul 2019 23:56:15: 21000000 INFO @ Fri, 05 Jul 2019 23:56:21: 20000000 INFO @ Fri, 05 Jul 2019 23:56:21: 20000000 INFO @ Fri, 05 Jul 2019 23:56:22: 22000000 INFO @ Fri, 05 Jul 2019 23:56:29: 23000000 INFO @ Fri, 05 Jul 2019 23:56:29: 21000000 INFO @ Fri, 05 Jul 2019 23:56:29: 21000000 INFO @ Fri, 05 Jul 2019 23:56:33: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:56:33: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:56:33: #1 total tags in treatment: 11409772 INFO @ Fri, 05 Jul 2019 23:56:33: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:56:33: #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 23:56:33: #1 tags after filtering in treatment: 7788270 INFO @ Fri, 05 Jul 2019 23:56:33: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:56:33: #1 finished! INFO @ Fri, 05 Jul 2019 23:56:33: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:56:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:56:34: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:56:34: 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 23:56:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.05_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/SRX381284/SRX381284.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:56:37: 22000000 INFO @ Fri, 05 Jul 2019 23:56:37: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:56:44: 23000000 INFO @ Fri, 05 Jul 2019 23:56:45: 23000000 INFO @ Fri, 05 Jul 2019 23:56:49: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:56:49: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:56:49: #1 total tags in treatment: 11409772 INFO @ Fri, 05 Jul 2019 23:56:49: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:56:49: #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 23:56:49: #1 tags after filtering in treatment: 7788270 INFO @ Fri, 05 Jul 2019 23:56:49: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:56:49: #1 finished! INFO @ Fri, 05 Jul 2019 23:56:49: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:56:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:56:50: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:56:50: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:56:50: #1 total tags in treatment: 11409772 INFO @ Fri, 05 Jul 2019 23:56:50: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:56:50: #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 23:56:50: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:56:50: 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 23:56:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:56:50: #1 tags after filtering in treatment: 7788270 INFO @ Fri, 05 Jul 2019 23:56:50: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:56:50: #1 finished! INFO @ Fri, 05 Jul 2019 23:56:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:56:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:56:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:56:51: 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 23:56:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.20_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/SRX381284/SRX381284.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381284/SRX381284.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。