Job ID = 2641207 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 32,733,681 reads read : 65,467,362 reads written : 65,467,362 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: 00:22:01 32733681 reads; of these: 32733681 (100.00%) were paired; of these: 5670053 (17.32%) aligned concordantly 0 times 24141971 (73.75%) aligned concordantly exactly 1 time 2921657 (8.93%) aligned concordantly >1 times ---- 5670053 pairs aligned concordantly 0 times; of these: 697258 (12.30%) aligned discordantly 1 time ---- 4972795 pairs aligned 0 times concordantly or discordantly; of these: 9945590 mates make up the pairs; of these: 9081228 (91.31%) aligned 0 times 570638 (5.74%) aligned exactly 1 time 293724 (2.95%) aligned >1 times 86.13% overall alignment rate Time searching: 00:22:01 Overall time: 00:22:01 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 24 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] 5654783 / 27285295 = 0.2072 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 22:33:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.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 @ Sat, 24 Aug 2019 22:33:29: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:33:29: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:33:36: 1000000 INFO @ Sat, 24 Aug 2019 22:33:42: 2000000 INFO @ Sat, 24 Aug 2019 22:33:48: 3000000 INFO @ Sat, 24 Aug 2019 22:33:55: 4000000 INFO @ Sat, 24 Aug 2019 22:33:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.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 @ Sat, 24 Aug 2019 22:33:59: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:33:59: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:34:01: 5000000 INFO @ Sat, 24 Aug 2019 22:34:05: 1000000 INFO @ Sat, 24 Aug 2019 22:34:07: 6000000 INFO @ Sat, 24 Aug 2019 22:34:11: 2000000 INFO @ Sat, 24 Aug 2019 22:34:14: 7000000 INFO @ Sat, 24 Aug 2019 22:34:17: 3000000 INFO @ Sat, 24 Aug 2019 22:34:20: 8000000 INFO @ Sat, 24 Aug 2019 22:34:23: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 22:34:27: 9000000 INFO @ Sat, 24 Aug 2019 22:34:29: 5000000 INFO @ Sat, 24 Aug 2019 22:34:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.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 @ Sat, 24 Aug 2019 22:34:29: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:34:29: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:34:33: 10000000 INFO @ Sat, 24 Aug 2019 22:34:35: 6000000 INFO @ Sat, 24 Aug 2019 22:34:35: 1000000 INFO @ Sat, 24 Aug 2019 22:34:40: 11000000 INFO @ Sat, 24 Aug 2019 22:34:41: 7000000 INFO @ Sat, 24 Aug 2019 22:34:41: 2000000 INFO @ Sat, 24 Aug 2019 22:34:46: 12000000 INFO @ Sat, 24 Aug 2019 22:34:46: 8000000 INFO @ Sat, 24 Aug 2019 22:34:47: 3000000 INFO @ Sat, 24 Aug 2019 22:34:52: 9000000 INFO @ Sat, 24 Aug 2019 22:34:52: 13000000 INFO @ Sat, 24 Aug 2019 22:34:52: 4000000 INFO @ Sat, 24 Aug 2019 22:34:58: 10000000 INFO @ Sat, 24 Aug 2019 22:34:58: 5000000 INFO @ Sat, 24 Aug 2019 22:34:59: 14000000 INFO @ Sat, 24 Aug 2019 22:35:04: 11000000 INFO @ Sat, 24 Aug 2019 22:35:04: 6000000 INFO @ Sat, 24 Aug 2019 22:35:05: 15000000 INFO @ Sat, 24 Aug 2019 22:35:10: 12000000 INFO @ Sat, 24 Aug 2019 22:35:10: 7000000 INFO @ Sat, 24 Aug 2019 22:35:12: 16000000 INFO @ Sat, 24 Aug 2019 22:35:16: 13000000 INFO @ Sat, 24 Aug 2019 22:35:16: 8000000 INFO @ Sat, 24 Aug 2019 22:35:18: 17000000 INFO @ Sat, 24 Aug 2019 22:35:21: 14000000 INFO @ Sat, 24 Aug 2019 22:35:22: 9000000 INFO @ Sat, 24 Aug 2019 22:35:24: 18000000 INFO @ Sat, 24 Aug 2019 22:35:27: 15000000 INFO @ Sat, 24 Aug 2019 22:35:27: 10000000 INFO @ Sat, 24 Aug 2019 22:35:31: 19000000 INFO @ Sat, 24 Aug 2019 22:35:33: 16000000 INFO @ Sat, 24 Aug 2019 22:35:33: 11000000 INFO @ Sat, 24 Aug 2019 22:35:37: 20000000 INFO @ Sat, 24 Aug 2019 22:35:39: 17000000 INFO @ Sat, 24 Aug 2019 22:35:39: 12000000 INFO @ Sat, 24 Aug 2019 22:35:43: 21000000 INFO @ Sat, 24 Aug 2019 22:35:45: 18000000 INFO @ Sat, 24 Aug 2019 22:35:45: 13000000 INFO @ Sat, 24 Aug 2019 22:35:50: 22000000 INFO @ Sat, 24 Aug 2019 22:35:50: 19000000 INFO @ Sat, 24 Aug 2019 22:35:51: 14000000 INFO @ Sat, 24 Aug 2019 22:35:56: 23000000 INFO @ Sat, 24 Aug 2019 22:35:56: 20000000 INFO @ Sat, 24 Aug 2019 22:35:56: 15000000 INFO @ Sat, 24 Aug 2019 22:36:02: 21000000 INFO @ Sat, 24 Aug 2019 22:36:02: 24000000 INFO @ Sat, 24 Aug 2019 22:36:02: 16000000 INFO @ Sat, 24 Aug 2019 22:36:08: 22000000 INFO @ Sat, 24 Aug 2019 22:36:08: 17000000 INFO @ Sat, 24 Aug 2019 22:36:08: 25000000 INFO @ Sat, 24 Aug 2019 22:36:13: 23000000 INFO @ Sat, 24 Aug 2019 22:36:14: 18000000 INFO @ Sat, 24 Aug 2019 22:36:14: 26000000 INFO @ Sat, 24 Aug 2019 22:36:19: 24000000 INFO @ Sat, 24 Aug 2019 22:36:20: 19000000 INFO @ Sat, 24 Aug 2019 22:36:21: 27000000 INFO @ Sat, 24 Aug 2019 22:36:25: 25000000 INFO @ Sat, 24 Aug 2019 22:36:26: 20000000 INFO @ Sat, 24 Aug 2019 22:36:27: 28000000 INFO @ Sat, 24 Aug 2019 22:36:30: 26000000 INFO @ Sat, 24 Aug 2019 22:36:31: 21000000 INFO @ Sat, 24 Aug 2019 22:36:33: 29000000 INFO @ Sat, 24 Aug 2019 22:36:36: 27000000 INFO @ Sat, 24 Aug 2019 22:36:37: 22000000 INFO @ Sat, 24 Aug 2019 22:36:39: 30000000 INFO @ Sat, 24 Aug 2019 22:36:42: 28000000 INFO @ Sat, 24 Aug 2019 22:36:43: 23000000 INFO @ Sat, 24 Aug 2019 22:36:45: 31000000 INFO @ Sat, 24 Aug 2019 22:36:47: 29000000 INFO @ Sat, 24 Aug 2019 22:36:48: 24000000 INFO @ Sat, 24 Aug 2019 22:36:51: 32000000 INFO @ Sat, 24 Aug 2019 22:36:53: 30000000 INFO @ Sat, 24 Aug 2019 22:36:54: 25000000 INFO @ Sat, 24 Aug 2019 22:36:57: 33000000 INFO @ Sat, 24 Aug 2019 22:36:59: 31000000 INFO @ Sat, 24 Aug 2019 22:37:00: 26000000 INFO @ Sat, 24 Aug 2019 22:37:03: 34000000 INFO @ Sat, 24 Aug 2019 22:37:04: 32000000 INFO @ Sat, 24 Aug 2019 22:37:06: 27000000 INFO @ Sat, 24 Aug 2019 22:37:10: 35000000 INFO @ Sat, 24 Aug 2019 22:37:10: 33000000 INFO @ Sat, 24 Aug 2019 22:37:11: 28000000 INFO @ Sat, 24 Aug 2019 22:37:16: 36000000 INFO @ Sat, 24 Aug 2019 22:37:16: 34000000 INFO @ Sat, 24 Aug 2019 22:37:17: 29000000 INFO @ Sat, 24 Aug 2019 22:37:21: 35000000 INFO @ Sat, 24 Aug 2019 22:37:22: 37000000 INFO @ Sat, 24 Aug 2019 22:37:23: 30000000 INFO @ Sat, 24 Aug 2019 22:37:27: 36000000 INFO @ Sat, 24 Aug 2019 22:37:28: 38000000 INFO @ Sat, 24 Aug 2019 22:37:28: 31000000 INFO @ Sat, 24 Aug 2019 22:37:32: 37000000 INFO @ Sat, 24 Aug 2019 22:37:34: 39000000 INFO @ Sat, 24 Aug 2019 22:37:34: 32000000 INFO @ Sat, 24 Aug 2019 22:37:38: 38000000 INFO @ Sat, 24 Aug 2019 22:37:39: 33000000 INFO @ Sat, 24 Aug 2019 22:37:40: 40000000 INFO @ Sat, 24 Aug 2019 22:37:44: 39000000 INFO @ Sat, 24 Aug 2019 22:37:45: 34000000 INFO @ Sat, 24 Aug 2019 22:37:46: 41000000 INFO @ Sat, 24 Aug 2019 22:37:49: 40000000 INFO @ Sat, 24 Aug 2019 22:37:51: 35000000 INFO @ Sat, 24 Aug 2019 22:37:52: 42000000 INFO @ Sat, 24 Aug 2019 22:37:55: 41000000 INFO @ Sat, 24 Aug 2019 22:37:56: 36000000 INFO @ Sat, 24 Aug 2019 22:37:58: 43000000 INFO @ Sat, 24 Aug 2019 22:38:01: 42000000 INFO @ Sat, 24 Aug 2019 22:38:02: 37000000 INFO @ Sat, 24 Aug 2019 22:38:04: 44000000 INFO @ Sat, 24 Aug 2019 22:38:06: 43000000 INFO @ Sat, 24 Aug 2019 22:38:08: 38000000 INFO @ Sat, 24 Aug 2019 22:38:10: 45000000 INFO @ Sat, 24 Aug 2019 22:38:11: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:38:11: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:38:11: #1 total tags in treatment: 21422935 INFO @ Sat, 24 Aug 2019 22:38:11: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:38:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 22:38:12: #1 tags after filtering in treatment: 8587167 INFO @ Sat, 24 Aug 2019 22:38:12: #1 Redundant rate of treatment: 0.60 INFO @ Sat, 24 Aug 2019 22:38:12: #1 finished! INFO @ Sat, 24 Aug 2019 22:38:12: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:38:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:38:12: 44000000 INFO @ Sat, 24 Aug 2019 22:38:12: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:38:12: 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 @ Sat, 24 Aug 2019 22:38:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.05_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/SRX5811108/SRX5811108.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:38:13: 39000000 INFO @ Sat, 24 Aug 2019 22:38:17: 45000000 INFO @ Sat, 24 Aug 2019 22:38:18: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:38:18: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:38:18: #1 total tags in treatment: 21422935 INFO @ Sat, 24 Aug 2019 22:38:18: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:38:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 22:38:19: #1 tags after filtering in treatment: 8587167 INFO @ Sat, 24 Aug 2019 22:38:19: #1 Redundant rate of treatment: 0.60 INFO @ Sat, 24 Aug 2019 22:38:19: #1 finished! INFO @ Sat, 24 Aug 2019 22:38:19: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:38:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:38:19: 40000000 INFO @ Sat, 24 Aug 2019 22:38:19: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:38:19: 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 @ Sat, 24 Aug 2019 22:38:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.10_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/SRX5811108/SRX5811108.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:38:24: 41000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 22:38:30: 42000000 INFO @ Sat, 24 Aug 2019 22:38:35: 43000000 INFO @ Sat, 24 Aug 2019 22:38:41: 44000000 INFO @ Sat, 24 Aug 2019 22:38:46: 45000000 INFO @ Sat, 24 Aug 2019 22:38:47: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:38:47: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:38:47: #1 total tags in treatment: 21422935 INFO @ Sat, 24 Aug 2019 22:38:47: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:38:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 22:38:48: #1 tags after filtering in treatment: 8587167 INFO @ Sat, 24 Aug 2019 22:38:48: #1 Redundant rate of treatment: 0.60 INFO @ Sat, 24 Aug 2019 22:38:48: #1 finished! INFO @ Sat, 24 Aug 2019 22:38:48: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:38:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:38:48: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:38:48: 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 @ Sat, 24 Aug 2019 22:38:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.20_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/SRX5811108/SRX5811108.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811108/SRX5811108.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。