Job ID = 2641141 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 32,787,699 reads read : 65,575,398 reads written : 65,575,398 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: 00:39:45 32787699 reads; of these: 32787699 (100.00%) were paired; of these: 3374632 (10.29%) aligned concordantly 0 times 23954522 (73.06%) aligned concordantly exactly 1 time 5458545 (16.65%) aligned concordantly >1 times ---- 3374632 pairs aligned concordantly 0 times; of these: 388324 (11.51%) aligned discordantly 1 time ---- 2986308 pairs aligned 0 times concordantly or discordantly; of these: 5972616 mates make up the pairs; of these: 5551157 (92.94%) aligned 0 times 164879 (2.76%) aligned exactly 1 time 256580 (4.30%) aligned >1 times 91.53% overall alignment rate Time searching: 00:39:45 Overall time: 00:39:45 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] 9350298 / 29763277 = 0.3142 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 22:58:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.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 22:58:44: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:58:44: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:58:51: 1000000 INFO @ Sat, 24 Aug 2019 22:58:57: 2000000 INFO @ Sat, 24 Aug 2019 22:59:04: 3000000 INFO @ Sat, 24 Aug 2019 22:59:10: 4000000 INFO @ Sat, 24 Aug 2019 22:59:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.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 22:59:14: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:59:14: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:59:17: 5000000 INFO @ Sat, 24 Aug 2019 22:59:21: 1000000 INFO @ Sat, 24 Aug 2019 22:59:23: 6000000 INFO @ Sat, 24 Aug 2019 22:59:27: 2000000 INFO @ Sat, 24 Aug 2019 22:59:29: 7000000 INFO @ Sat, 24 Aug 2019 22:59:34: 3000000 INFO @ Sat, 24 Aug 2019 22:59:36: 8000000 INFO @ Sat, 24 Aug 2019 22:59:40: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 22:59:42: 9000000 INFO @ Sat, 24 Aug 2019 22:59:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.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 22:59:44: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:59:44: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:59:47: 5000000 INFO @ Sat, 24 Aug 2019 22:59:49: 10000000 INFO @ Sat, 24 Aug 2019 22:59:52: 1000000 INFO @ Sat, 24 Aug 2019 22:59:53: 6000000 INFO @ Sat, 24 Aug 2019 22:59:57: 11000000 INFO @ Sat, 24 Aug 2019 22:59:59: 2000000 INFO @ Sat, 24 Aug 2019 23:00:00: 7000000 INFO @ Sat, 24 Aug 2019 23:00:04: 12000000 INFO @ Sat, 24 Aug 2019 23:00:06: 3000000 INFO @ Sat, 24 Aug 2019 23:00:07: 8000000 INFO @ Sat, 24 Aug 2019 23:00:12: 13000000 INFO @ Sat, 24 Aug 2019 23:00:13: 9000000 INFO @ Sat, 24 Aug 2019 23:00:14: 4000000 INFO @ Sat, 24 Aug 2019 23:00:20: 10000000 INFO @ Sat, 24 Aug 2019 23:00:20: 14000000 INFO @ Sat, 24 Aug 2019 23:00:21: 5000000 INFO @ Sat, 24 Aug 2019 23:00:26: 11000000 INFO @ Sat, 24 Aug 2019 23:00:28: 6000000 INFO @ Sat, 24 Aug 2019 23:00:28: 15000000 INFO @ Sat, 24 Aug 2019 23:00:33: 12000000 INFO @ Sat, 24 Aug 2019 23:00:35: 7000000 INFO @ Sat, 24 Aug 2019 23:00:36: 16000000 INFO @ Sat, 24 Aug 2019 23:00:39: 13000000 INFO @ Sat, 24 Aug 2019 23:00:43: 8000000 INFO @ Sat, 24 Aug 2019 23:00:45: 17000000 INFO @ Sat, 24 Aug 2019 23:00:45: 14000000 INFO @ Sat, 24 Aug 2019 23:00:50: 9000000 INFO @ Sat, 24 Aug 2019 23:00:52: 15000000 INFO @ Sat, 24 Aug 2019 23:00:53: 18000000 INFO @ Sat, 24 Aug 2019 23:00:57: 10000000 INFO @ Sat, 24 Aug 2019 23:00:58: 16000000 INFO @ Sat, 24 Aug 2019 23:01:01: 19000000 INFO @ Sat, 24 Aug 2019 23:01:04: 11000000 INFO @ Sat, 24 Aug 2019 23:01:04: 17000000 INFO @ Sat, 24 Aug 2019 23:01:09: 20000000 INFO @ Sat, 24 Aug 2019 23:01:11: 18000000 INFO @ Sat, 24 Aug 2019 23:01:11: 12000000 INFO @ Sat, 24 Aug 2019 23:01:17: 19000000 INFO @ Sat, 24 Aug 2019 23:01:17: 21000000 INFO @ Sat, 24 Aug 2019 23:01:18: 13000000 INFO @ Sat, 24 Aug 2019 23:01:23: 20000000 INFO @ Sat, 24 Aug 2019 23:01:25: 14000000 INFO @ Sat, 24 Aug 2019 23:01:25: 22000000 INFO @ Sat, 24 Aug 2019 23:01:30: 21000000 INFO @ Sat, 24 Aug 2019 23:01:32: 15000000 INFO @ Sat, 24 Aug 2019 23:01:33: 23000000 INFO @ Sat, 24 Aug 2019 23:01:36: 22000000 INFO @ Sat, 24 Aug 2019 23:01:39: 16000000 INFO @ Sat, 24 Aug 2019 23:01:41: 24000000 INFO @ Sat, 24 Aug 2019 23:01:42: 23000000 INFO @ Sat, 24 Aug 2019 23:01:46: 17000000 INFO @ Sat, 24 Aug 2019 23:01:48: 24000000 INFO @ Sat, 24 Aug 2019 23:01:49: 25000000 INFO @ Sat, 24 Aug 2019 23:01:53: 18000000 INFO @ Sat, 24 Aug 2019 23:01:55: 25000000 INFO @ Sat, 24 Aug 2019 23:01:57: 26000000 INFO @ Sat, 24 Aug 2019 23:02:00: 19000000 INFO @ Sat, 24 Aug 2019 23:02:01: 26000000 INFO @ Sat, 24 Aug 2019 23:02:05: 27000000 INFO @ Sat, 24 Aug 2019 23:02:07: 20000000 INFO @ Sat, 24 Aug 2019 23:02:07: 27000000 INFO @ Sat, 24 Aug 2019 23:02:13: 28000000 INFO @ Sat, 24 Aug 2019 23:02:13: 21000000 INFO @ Sat, 24 Aug 2019 23:02:14: 28000000 INFO @ Sat, 24 Aug 2019 23:02:20: 29000000 INFO @ Sat, 24 Aug 2019 23:02:20: 22000000 INFO @ Sat, 24 Aug 2019 23:02:22: 29000000 INFO @ Sat, 24 Aug 2019 23:02:26: 30000000 INFO @ Sat, 24 Aug 2019 23:02:27: 23000000 INFO @ Sat, 24 Aug 2019 23:02:30: 30000000 INFO @ Sat, 24 Aug 2019 23:02:32: 31000000 INFO @ Sat, 24 Aug 2019 23:02:34: 24000000 INFO @ Sat, 24 Aug 2019 23:02:38: 31000000 INFO @ Sat, 24 Aug 2019 23:02:38: 32000000 INFO @ Sat, 24 Aug 2019 23:02:41: 25000000 INFO @ Sat, 24 Aug 2019 23:02:45: 33000000 INFO @ Sat, 24 Aug 2019 23:02:46: 32000000 INFO @ Sat, 24 Aug 2019 23:02:48: 26000000 INFO @ Sat, 24 Aug 2019 23:02:51: 34000000 INFO @ Sat, 24 Aug 2019 23:02:54: 33000000 INFO @ Sat, 24 Aug 2019 23:02:55: 27000000 INFO @ Sat, 24 Aug 2019 23:02:57: 35000000 INFO @ Sat, 24 Aug 2019 23:03:01: 28000000 INFO @ Sat, 24 Aug 2019 23:03:02: 34000000 INFO @ Sat, 24 Aug 2019 23:03:04: 36000000 INFO @ Sat, 24 Aug 2019 23:03:08: 29000000 INFO @ Sat, 24 Aug 2019 23:03:10: 37000000 INFO @ Sat, 24 Aug 2019 23:03:10: 35000000 INFO @ Sat, 24 Aug 2019 23:03:15: 30000000 INFO @ Sat, 24 Aug 2019 23:03:16: 38000000 INFO @ Sat, 24 Aug 2019 23:03:18: 36000000 INFO @ Sat, 24 Aug 2019 23:03:22: 31000000 INFO @ Sat, 24 Aug 2019 23:03:23: 39000000 INFO @ Sat, 24 Aug 2019 23:03:26: 37000000 INFO @ Sat, 24 Aug 2019 23:03:29: 40000000 INFO @ Sat, 24 Aug 2019 23:03:29: 32000000 INFO @ Sat, 24 Aug 2019 23:03:34: 38000000 INFO @ Sat, 24 Aug 2019 23:03:35: 41000000 INFO @ Sat, 24 Aug 2019 23:03:36: 33000000 INFO @ Sat, 24 Aug 2019 23:03:37: #1 tag size is determined as 101 bps INFO @ Sat, 24 Aug 2019 23:03:37: #1 tag size = 101 INFO @ Sat, 24 Aug 2019 23:03:37: #1 total tags in treatment: 20149585 INFO @ Sat, 24 Aug 2019 23:03:37: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 23:03:37: #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 23:03:38: #1 tags after filtering in treatment: 11977815 INFO @ Sat, 24 Aug 2019 23:03:38: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 24 Aug 2019 23:03:38: #1 finished! INFO @ Sat, 24 Aug 2019 23:03:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 23:03:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 23:03:39: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 23:03:39: 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 23:03:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.10_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/SRX5781919/SRX5781919.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 23:03:42: 39000000 INFO @ Sat, 24 Aug 2019 23:03:43: 34000000 INFO @ Sat, 24 Aug 2019 23:03:50: 35000000 INFO @ Sat, 24 Aug 2019 23:03:50: 40000000 INFO @ Sat, 24 Aug 2019 23:03:57: 36000000 INFO @ Sat, 24 Aug 2019 23:03:58: 41000000 INFO @ Sat, 24 Aug 2019 23:04:01: #1 tag size is determined as 101 bps INFO @ Sat, 24 Aug 2019 23:04:01: #1 tag size = 101 INFO @ Sat, 24 Aug 2019 23:04:01: #1 total tags in treatment: 20149585 INFO @ Sat, 24 Aug 2019 23:04:01: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 23:04:01: #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 23:04:02: #1 tags after filtering in treatment: 11977815 INFO @ Sat, 24 Aug 2019 23:04:02: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 24 Aug 2019 23:04:02: #1 finished! INFO @ Sat, 24 Aug 2019 23:04:02: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 23:04:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 23:04:03: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 23:04:03: 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 23:04:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 24 Aug 2019 23:04:03: 37000000 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 23:04:10: 38000000 INFO @ Sat, 24 Aug 2019 23:04:17: 39000000 INFO @ Sat, 24 Aug 2019 23:04:24: 40000000 BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 23:04:31: 41000000 INFO @ Sat, 24 Aug 2019 23:04:33: #1 tag size is determined as 101 bps INFO @ Sat, 24 Aug 2019 23:04:33: #1 tag size = 101 INFO @ Sat, 24 Aug 2019 23:04:33: #1 total tags in treatment: 20149585 INFO @ Sat, 24 Aug 2019 23:04:33: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 23:04:33: #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 23:04:34: #1 tags after filtering in treatment: 11977815 INFO @ Sat, 24 Aug 2019 23:04:34: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 24 Aug 2019 23:04:34: #1 finished! INFO @ Sat, 24 Aug 2019 23:04:34: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 23:04:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 23:04:35: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 23:04:35: 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 23:04:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.20_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/SRX5781919/SRX5781919.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5781919/SRX5781919.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling