Job ID = 2010016 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 38,989,426 reads read : 77,978,852 reads written : 77,978,852 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: 00:22:57 38989426 reads; of these: 38989426 (100.00%) were paired; of these: 7022361 (18.01%) aligned concordantly 0 times 25032466 (64.20%) aligned concordantly exactly 1 time 6934599 (17.79%) aligned concordantly >1 times ---- 7022361 pairs aligned concordantly 0 times; of these: 157576 (2.24%) aligned discordantly 1 time ---- 6864785 pairs aligned 0 times concordantly or discordantly; of these: 13729570 mates make up the pairs; of these: 12860499 (93.67%) aligned 0 times 593585 (4.32%) aligned exactly 1 time 275486 (2.01%) aligned >1 times 83.51% overall alignment rate Time searching: 00:22:57 Overall time: 00:22:57 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 20 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] 10159675 / 32064228 = 0.3169 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 21:56:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.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 21:56:28: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:56:28: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:56:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.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 21:56:29: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:56:29: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:56:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.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 21:56:30: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:56:30: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:56:35: 1000000 INFO @ Fri, 05 Jul 2019 21:56:37: 1000000 INFO @ Fri, 05 Jul 2019 21:56:37: 1000000 INFO @ Fri, 05 Jul 2019 21:56:41: 2000000 INFO @ Fri, 05 Jul 2019 21:56:44: 2000000 INFO @ Fri, 05 Jul 2019 21:56:44: 2000000 INFO @ Fri, 05 Jul 2019 21:56:47: 3000000 INFO @ Fri, 05 Jul 2019 21:56:50: 3000000 INFO @ Fri, 05 Jul 2019 21:56:52: 3000000 INFO @ Fri, 05 Jul 2019 21:56:53: 4000000 INFO @ Fri, 05 Jul 2019 21:56:57: 4000000 INFO @ Fri, 05 Jul 2019 21:56:59: 4000000 INFO @ Fri, 05 Jul 2019 21:57:00: 5000000 INFO @ Fri, 05 Jul 2019 21:57:04: 5000000 INFO @ Fri, 05 Jul 2019 21:57:07: 6000000 INFO @ Fri, 05 Jul 2019 21:57:07: 5000000 INFO @ Fri, 05 Jul 2019 21:57:11: 6000000 INFO @ Fri, 05 Jul 2019 21:57:14: 7000000 INFO @ Fri, 05 Jul 2019 21:57:14: 6000000 INFO @ Fri, 05 Jul 2019 21:57:18: 7000000 INFO @ Fri, 05 Jul 2019 21:57:21: 8000000 INFO @ Fri, 05 Jul 2019 21:57:22: 7000000 INFO @ Fri, 05 Jul 2019 21:57:25: 8000000 INFO @ Fri, 05 Jul 2019 21:57:28: 9000000 INFO @ Fri, 05 Jul 2019 21:57:30: 8000000 INFO @ Fri, 05 Jul 2019 21:57:32: 9000000 INFO @ Fri, 05 Jul 2019 21:57:34: 10000000 INFO @ Fri, 05 Jul 2019 21:57:38: 9000000 INFO @ Fri, 05 Jul 2019 21:57:38: 10000000 INFO @ Fri, 05 Jul 2019 21:57:41: 11000000 INFO @ Fri, 05 Jul 2019 21:57:46: 11000000 INFO @ Fri, 05 Jul 2019 21:57:46: 10000000 INFO @ Fri, 05 Jul 2019 21:57:48: 12000000 INFO @ Fri, 05 Jul 2019 21:57:52: 12000000 INFO @ Fri, 05 Jul 2019 21:57:54: 11000000 INFO @ Fri, 05 Jul 2019 21:57:55: 13000000 INFO @ Fri, 05 Jul 2019 21:57:59: 13000000 INFO @ Fri, 05 Jul 2019 21:58:01: 12000000 INFO @ Fri, 05 Jul 2019 21:58:02: 14000000 INFO @ Fri, 05 Jul 2019 21:58:06: 14000000 INFO @ Fri, 05 Jul 2019 21:58:08: 15000000 INFO @ Fri, 05 Jul 2019 21:58:09: 13000000 INFO @ Fri, 05 Jul 2019 21:58:12: 15000000 INFO @ Fri, 05 Jul 2019 21:58:15: 16000000 INFO @ Fri, 05 Jul 2019 21:58:17: 14000000 INFO @ Fri, 05 Jul 2019 21:58:19: 16000000 INFO @ Fri, 05 Jul 2019 21:58:21: 17000000 INFO @ Fri, 05 Jul 2019 21:58:24: 15000000 INFO @ Fri, 05 Jul 2019 21:58:25: 17000000 INFO @ Fri, 05 Jul 2019 21:58:27: 18000000 INFO @ Fri, 05 Jul 2019 21:58:31: 18000000 INFO @ Fri, 05 Jul 2019 21:58:32: 16000000 INFO @ Fri, 05 Jul 2019 21:58:33: 19000000 INFO @ Fri, 05 Jul 2019 21:58:37: 19000000 INFO @ Fri, 05 Jul 2019 21:58:39: 17000000 INFO @ Fri, 05 Jul 2019 21:58:39: 20000000 INFO @ Fri, 05 Jul 2019 21:58:43: 20000000 INFO @ Fri, 05 Jul 2019 21:58:45: 21000000 INFO @ Fri, 05 Jul 2019 21:58:45: 18000000 INFO @ Fri, 05 Jul 2019 21:58:48: 21000000 INFO @ Fri, 05 Jul 2019 21:58:51: 22000000 INFO @ Fri, 05 Jul 2019 21:58:52: 19000000 INFO @ Fri, 05 Jul 2019 21:58:54: 22000000 INFO @ Fri, 05 Jul 2019 21:58:56: 23000000 INFO @ Fri, 05 Jul 2019 21:58:59: 20000000 INFO @ Fri, 05 Jul 2019 21:59:00: 23000000 INFO @ Fri, 05 Jul 2019 21:59:02: 24000000 INFO @ Fri, 05 Jul 2019 21:59:05: 21000000 INFO @ Fri, 05 Jul 2019 21:59:06: 24000000 INFO @ Fri, 05 Jul 2019 21:59:08: 25000000 INFO @ Fri, 05 Jul 2019 21:59:12: 22000000 INFO @ Fri, 05 Jul 2019 21:59:12: 25000000 INFO @ Fri, 05 Jul 2019 21:59:14: 26000000 INFO @ Fri, 05 Jul 2019 21:59:18: 26000000 INFO @ Fri, 05 Jul 2019 21:59:18: 23000000 INFO @ Fri, 05 Jul 2019 21:59:21: 27000000 INFO @ Fri, 05 Jul 2019 21:59:24: 27000000 INFO @ Fri, 05 Jul 2019 21:59:25: 24000000 INFO @ Fri, 05 Jul 2019 21:59:27: 28000000 INFO @ Fri, 05 Jul 2019 21:59:31: 28000000 INFO @ Fri, 05 Jul 2019 21:59:32: 25000000 INFO @ Fri, 05 Jul 2019 21:59:33: 29000000 INFO @ Fri, 05 Jul 2019 21:59:36: 29000000 INFO @ Fri, 05 Jul 2019 21:59:38: 26000000 INFO @ Fri, 05 Jul 2019 21:59:39: 30000000 INFO @ Fri, 05 Jul 2019 21:59:42: 30000000 INFO @ Fri, 05 Jul 2019 21:59:45: 31000000 INFO @ Fri, 05 Jul 2019 21:59:46: 27000000 INFO @ Fri, 05 Jul 2019 21:59:48: 31000000 INFO @ Fri, 05 Jul 2019 21:59:51: 32000000 INFO @ Fri, 05 Jul 2019 21:59:52: 28000000 INFO @ Fri, 05 Jul 2019 21:59:54: 32000000 INFO @ Fri, 05 Jul 2019 21:59:57: 33000000 INFO @ Fri, 05 Jul 2019 21:59:59: 29000000 INFO @ Fri, 05 Jul 2019 22:00:00: 33000000 INFO @ Fri, 05 Jul 2019 22:00:04: 34000000 INFO @ Fri, 05 Jul 2019 22:00:06: 30000000 INFO @ Fri, 05 Jul 2019 22:00:06: 34000000 INFO @ Fri, 05 Jul 2019 22:00:10: 35000000 INFO @ Fri, 05 Jul 2019 22:00:13: 35000000 INFO @ Fri, 05 Jul 2019 22:00:13: 31000000 INFO @ Fri, 05 Jul 2019 22:00:16: 36000000 INFO @ Fri, 05 Jul 2019 22:00:19: 36000000 INFO @ Fri, 05 Jul 2019 22:00:20: 32000000 INFO @ Fri, 05 Jul 2019 22:00:22: 37000000 INFO @ Fri, 05 Jul 2019 22:00:25: 37000000 INFO @ Fri, 05 Jul 2019 22:00:27: 33000000 INFO @ Fri, 05 Jul 2019 22:00:28: 38000000 INFO @ Fri, 05 Jul 2019 22:00:32: 38000000 INFO @ Fri, 05 Jul 2019 22:00:34: 39000000 INFO @ Fri, 05 Jul 2019 22:00:34: 34000000 INFO @ Fri, 05 Jul 2019 22:00:38: 39000000 INFO @ Fri, 05 Jul 2019 22:00:40: 40000000 INFO @ Fri, 05 Jul 2019 22:00:41: 35000000 INFO @ Fri, 05 Jul 2019 22:00:44: 40000000 INFO @ Fri, 05 Jul 2019 22:00:46: 41000000 INFO @ Fri, 05 Jul 2019 22:00:48: 36000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 22:00:50: 41000000 INFO @ Fri, 05 Jul 2019 22:00:51: 42000000 INFO @ Fri, 05 Jul 2019 22:00:55: 37000000 INFO @ Fri, 05 Jul 2019 22:00:56: 42000000 INFO @ Fri, 05 Jul 2019 22:00:57: 43000000 INFO @ Fri, 05 Jul 2019 22:01:02: 38000000 INFO @ Fri, 05 Jul 2019 22:01:02: 43000000 INFO @ Fri, 05 Jul 2019 22:01:03: 44000000 INFO @ Fri, 05 Jul 2019 22:01:08: #1 tag size is determined as 24 bps INFO @ Fri, 05 Jul 2019 22:01:08: #1 tag size = 24 INFO @ Fri, 05 Jul 2019 22:01:08: #1 total tags in treatment: 21808918 INFO @ Fri, 05 Jul 2019 22:01:08: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:01:08: #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 22:01:08: 39000000 INFO @ Fri, 05 Jul 2019 22:01:09: 44000000 INFO @ Fri, 05 Jul 2019 22:01:09: #1 tags after filtering in treatment: 7892615 INFO @ Fri, 05 Jul 2019 22:01:09: #1 Redundant rate of treatment: 0.64 INFO @ Fri, 05 Jul 2019 22:01:09: #1 finished! INFO @ Fri, 05 Jul 2019 22:01:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:01:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:01:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:01:09: 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 22:01:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.05_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/SRX235692/SRX235692.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 22:01:14: #1 tag size is determined as 24 bps INFO @ Fri, 05 Jul 2019 22:01:14: #1 tag size = 24 INFO @ Fri, 05 Jul 2019 22:01:14: #1 total tags in treatment: 21808918 INFO @ Fri, 05 Jul 2019 22:01:14: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:01:14: #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 22:01:14: #1 tags after filtering in treatment: 7892615 INFO @ Fri, 05 Jul 2019 22:01:14: #1 Redundant rate of treatment: 0.64 INFO @ Fri, 05 Jul 2019 22:01:14: #1 finished! INFO @ Fri, 05 Jul 2019 22:01:14: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:01:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:01:15: 40000000 INFO @ Fri, 05 Jul 2019 22:01:15: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:01:15: 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 22:01:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.20_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/SRX235692/SRX235692.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:01:21: 41000000 INFO @ Fri, 05 Jul 2019 22:01:28: 42000000 INFO @ Fri, 05 Jul 2019 22:01:35: 43000000 INFO @ Fri, 05 Jul 2019 22:01:41: 44000000 INFO @ Fri, 05 Jul 2019 22:01:47: #1 tag size is determined as 24 bps INFO @ Fri, 05 Jul 2019 22:01:47: #1 tag size = 24 INFO @ Fri, 05 Jul 2019 22:01:47: #1 total tags in treatment: 21808918 INFO @ Fri, 05 Jul 2019 22:01:47: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:01:47: #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 22:01:47: #1 tags after filtering in treatment: 7892615 INFO @ Fri, 05 Jul 2019 22:01:47: #1 Redundant rate of treatment: 0.64 INFO @ Fri, 05 Jul 2019 22:01:47: #1 finished! INFO @ Fri, 05 Jul 2019 22:01:47: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:01:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:01:48: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:01:48: 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 @ Fri, 05 Jul 2019 22:01:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.10_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/SRX235692/SRX235692.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX235692/SRX235692.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling