Job ID = 2011664 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 36,499,572 reads read : 72,999,144 reads written : 72,999,144 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146732.sra.cache’: 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: 00:27:18 36499572 reads; of these: 36499572 (100.00%) were paired; of these: 5067114 (13.88%) aligned concordantly 0 times 25679656 (70.36%) aligned concordantly exactly 1 time 5752802 (15.76%) aligned concordantly >1 times ---- 5067114 pairs aligned concordantly 0 times; of these: 358000 (7.07%) aligned discordantly 1 time ---- 4709114 pairs aligned 0 times concordantly or discordantly; of these: 9418228 mates make up the pairs; of these: 8927018 (94.78%) aligned 0 times 225712 (2.40%) aligned exactly 1 time 265498 (2.82%) aligned >1 times 87.77% overall alignment rate Time searching: 00:27:18 Overall time: 00:27:18 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 28 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] 11521410 / 31640348 = 0.3641 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 @ Sat, 06 Jul 2019 02:43:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.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, 06 Jul 2019 02:43:29: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:43:29: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:43:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.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, 06 Jul 2019 02:43:30: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:43:30: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:43:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.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, 06 Jul 2019 02:43:31: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:43:31: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:43:37: 1000000 INFO @ Sat, 06 Jul 2019 02:43:39: 1000000 INFO @ Sat, 06 Jul 2019 02:43:40: 1000000 INFO @ Sat, 06 Jul 2019 02:43:43: 2000000 INFO @ Sat, 06 Jul 2019 02:43:47: 2000000 INFO @ Sat, 06 Jul 2019 02:43:48: 2000000 INFO @ Sat, 06 Jul 2019 02:43:50: 3000000 INFO @ Sat, 06 Jul 2019 02:43:56: 3000000 INFO @ Sat, 06 Jul 2019 02:43:57: 4000000 INFO @ Sat, 06 Jul 2019 02:43:57: 3000000 INFO @ Sat, 06 Jul 2019 02:44:03: 5000000 INFO @ Sat, 06 Jul 2019 02:44:05: 4000000 INFO @ Sat, 06 Jul 2019 02:44:05: 4000000 INFO @ Sat, 06 Jul 2019 02:44:10: 6000000 INFO @ Sat, 06 Jul 2019 02:44:13: 5000000 INFO @ Sat, 06 Jul 2019 02:44:14: 5000000 INFO @ Sat, 06 Jul 2019 02:44:17: 7000000 INFO @ Sat, 06 Jul 2019 02:44:22: 6000000 INFO @ Sat, 06 Jul 2019 02:44:22: 6000000 INFO @ Sat, 06 Jul 2019 02:44:24: 8000000 INFO @ Sat, 06 Jul 2019 02:44:30: 7000000 INFO @ Sat, 06 Jul 2019 02:44:30: 9000000 INFO @ Sat, 06 Jul 2019 02:44:31: 7000000 INFO @ Sat, 06 Jul 2019 02:44:37: 10000000 INFO @ Sat, 06 Jul 2019 02:44:38: 8000000 INFO @ Sat, 06 Jul 2019 02:44:39: 8000000 INFO @ Sat, 06 Jul 2019 02:44:43: 11000000 INFO @ Sat, 06 Jul 2019 02:44:47: 9000000 INFO @ Sat, 06 Jul 2019 02:44:47: 9000000 INFO @ Sat, 06 Jul 2019 02:44:50: 12000000 INFO @ Sat, 06 Jul 2019 02:44:55: 10000000 INFO @ Sat, 06 Jul 2019 02:44:55: 10000000 INFO @ Sat, 06 Jul 2019 02:44:56: 13000000 INFO @ Sat, 06 Jul 2019 02:45:02: 11000000 INFO @ Sat, 06 Jul 2019 02:45:03: 14000000 INFO @ Sat, 06 Jul 2019 02:45:03: 11000000 INFO @ Sat, 06 Jul 2019 02:45:09: 15000000 INFO @ Sat, 06 Jul 2019 02:45:11: 12000000 INFO @ Sat, 06 Jul 2019 02:45:11: 12000000 INFO @ Sat, 06 Jul 2019 02:45:16: 16000000 INFO @ Sat, 06 Jul 2019 02:45:19: 13000000 INFO @ Sat, 06 Jul 2019 02:45:19: 13000000 INFO @ Sat, 06 Jul 2019 02:45:22: 17000000 INFO @ Sat, 06 Jul 2019 02:45:27: 14000000 INFO @ Sat, 06 Jul 2019 02:45:27: 14000000 INFO @ Sat, 06 Jul 2019 02:45:28: 18000000 INFO @ Sat, 06 Jul 2019 02:45:34: 15000000 INFO @ Sat, 06 Jul 2019 02:45:35: 15000000 INFO @ Sat, 06 Jul 2019 02:45:35: 19000000 INFO @ Sat, 06 Jul 2019 02:45:41: 16000000 INFO @ Sat, 06 Jul 2019 02:45:42: 20000000 INFO @ Sat, 06 Jul 2019 02:45:42: 16000000 INFO @ Sat, 06 Jul 2019 02:45:48: 21000000 INFO @ Sat, 06 Jul 2019 02:45:49: 17000000 INFO @ Sat, 06 Jul 2019 02:45:49: 17000000 INFO @ Sat, 06 Jul 2019 02:45:55: 22000000 INFO @ Sat, 06 Jul 2019 02:45:56: 18000000 INFO @ Sat, 06 Jul 2019 02:45:56: 18000000 INFO @ Sat, 06 Jul 2019 02:46:01: 23000000 INFO @ Sat, 06 Jul 2019 02:46:04: 19000000 INFO @ Sat, 06 Jul 2019 02:46:04: 19000000 INFO @ Sat, 06 Jul 2019 02:46:07: 24000000 INFO @ Sat, 06 Jul 2019 02:46:11: 20000000 INFO @ Sat, 06 Jul 2019 02:46:11: 20000000 INFO @ Sat, 06 Jul 2019 02:46:14: 25000000 INFO @ Sat, 06 Jul 2019 02:46:18: 21000000 INFO @ Sat, 06 Jul 2019 02:46:18: 21000000 INFO @ Sat, 06 Jul 2019 02:46:20: 26000000 INFO @ Sat, 06 Jul 2019 02:46:26: 22000000 INFO @ Sat, 06 Jul 2019 02:46:26: 22000000 INFO @ Sat, 06 Jul 2019 02:46:27: 27000000 INFO @ Sat, 06 Jul 2019 02:46:33: 23000000 INFO @ Sat, 06 Jul 2019 02:46:33: 23000000 INFO @ Sat, 06 Jul 2019 02:46:33: 28000000 INFO @ Sat, 06 Jul 2019 02:46:40: 29000000 INFO @ Sat, 06 Jul 2019 02:46:40: 24000000 INFO @ Sat, 06 Jul 2019 02:46:40: 24000000 INFO @ Sat, 06 Jul 2019 02:46:46: 30000000 INFO @ Sat, 06 Jul 2019 02:46:47: 25000000 INFO @ Sat, 06 Jul 2019 02:46:47: 25000000 INFO @ Sat, 06 Jul 2019 02:46:53: 31000000 INFO @ Sat, 06 Jul 2019 02:46:54: 26000000 INFO @ Sat, 06 Jul 2019 02:46:55: 26000000 INFO @ Sat, 06 Jul 2019 02:46:59: 32000000 INFO @ Sat, 06 Jul 2019 02:47:02: 27000000 INFO @ Sat, 06 Jul 2019 02:47:02: 27000000 INFO @ Sat, 06 Jul 2019 02:47:06: 33000000 INFO @ Sat, 06 Jul 2019 02:47:09: 28000000 INFO @ Sat, 06 Jul 2019 02:47:09: 28000000 INFO @ Sat, 06 Jul 2019 02:47:12: 34000000 INFO @ Sat, 06 Jul 2019 02:47:16: 29000000 INFO @ Sat, 06 Jul 2019 02:47:16: 29000000 INFO @ Sat, 06 Jul 2019 02:47:19: 35000000 INFO @ Sat, 06 Jul 2019 02:47:23: 30000000 INFO @ Sat, 06 Jul 2019 02:47:24: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:47:25: 36000000 INFO @ Sat, 06 Jul 2019 02:47:31: 31000000 INFO @ Sat, 06 Jul 2019 02:47:31: 31000000 INFO @ Sat, 06 Jul 2019 02:47:32: 37000000 INFO @ Sat, 06 Jul 2019 02:47:38: 32000000 INFO @ Sat, 06 Jul 2019 02:47:38: 32000000 INFO @ Sat, 06 Jul 2019 02:47:38: 38000000 INFO @ Sat, 06 Jul 2019 02:47:45: 39000000 INFO @ Sat, 06 Jul 2019 02:47:45: 33000000 INFO @ Sat, 06 Jul 2019 02:47:46: 33000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 02:47:52: 40000000 INFO @ Sat, 06 Jul 2019 02:47:52: 34000000 INFO @ Sat, 06 Jul 2019 02:47:53: 34000000 INFO @ Sat, 06 Jul 2019 02:47:58: 41000000 INFO @ Sat, 06 Jul 2019 02:47:59: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:47:59: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:47:59: #1 total tags in treatment: 19999728 INFO @ Sat, 06 Jul 2019 02:47:59: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:47:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:47:59: #1 tags after filtering in treatment: 12177662 INFO @ Sat, 06 Jul 2019 02:47:59: #1 Redundant rate of treatment: 0.39 INFO @ Sat, 06 Jul 2019 02:47:59: #1 finished! INFO @ Sat, 06 Jul 2019 02:47:59: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:48:00: 35000000 INFO @ Sat, 06 Jul 2019 02:48:00: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:48:00: 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, 06 Jul 2019 02:48:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.05_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/SRX455442/SRX455442.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:48:00: 35000000 INFO @ Sat, 06 Jul 2019 02:48:07: 36000000 INFO @ Sat, 06 Jul 2019 02:48:07: 36000000 INFO @ Sat, 06 Jul 2019 02:48:14: 37000000 INFO @ Sat, 06 Jul 2019 02:48:15: 37000000 INFO @ Sat, 06 Jul 2019 02:48:21: 38000000 INFO @ Sat, 06 Jul 2019 02:48:22: 38000000 INFO @ Sat, 06 Jul 2019 02:48:28: 39000000 INFO @ Sat, 06 Jul 2019 02:48:29: 39000000 INFO @ Sat, 06 Jul 2019 02:48:35: 40000000 INFO @ Sat, 06 Jul 2019 02:48:37: 40000000 INFO @ Sat, 06 Jul 2019 02:48:43: 41000000 INFO @ Sat, 06 Jul 2019 02:48:43: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:48:43: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:48:43: #1 total tags in treatment: 19999728 INFO @ Sat, 06 Jul 2019 02:48:43: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:48:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:48:44: #1 tags after filtering in treatment: 12177662 INFO @ Sat, 06 Jul 2019 02:48:44: #1 Redundant rate of treatment: 0.39 INFO @ Sat, 06 Jul 2019 02:48:44: #1 finished! INFO @ Sat, 06 Jul 2019 02:48:44: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:48:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:48:44: 41000000 INFO @ Sat, 06 Jul 2019 02:48:44: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:48:44: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:48:44: #1 total tags in treatment: 19999728 INFO @ Sat, 06 Jul 2019 02:48:44: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:48:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:48:44: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:48:44: 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, 06 Jul 2019 02:48:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.20_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/SRX455442/SRX455442.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:48:45: #1 tags after filtering in treatment: 12177662 INFO @ Sat, 06 Jul 2019 02:48:45: #1 Redundant rate of treatment: 0.39 INFO @ Sat, 06 Jul 2019 02:48:45: #1 finished! INFO @ Sat, 06 Jul 2019 02:48:45: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:48:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:48:46: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:48:46: 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, 06 Jul 2019 02:48:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.10_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/SRX455442/SRX455442.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455442/SRX455442.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling