Job ID = 2641146 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 27,453,835 reads read : 54,907,670 reads written : 54,907,670 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: 00:21:32 27453835 reads; of these: 27453835 (100.00%) were paired; of these: 3535934 (12.88%) aligned concordantly 0 times 20711081 (75.44%) aligned concordantly exactly 1 time 3206820 (11.68%) aligned concordantly >1 times ---- 3535934 pairs aligned concordantly 0 times; of these: 957969 (27.09%) aligned discordantly 1 time ---- 2577965 pairs aligned 0 times concordantly or discordantly; of these: 5155930 mates make up the pairs; of these: 4177028 (81.01%) aligned 0 times 517413 (10.04%) aligned exactly 1 time 461489 (8.95%) aligned >1 times 92.39% overall alignment rate Time searching: 00:21:32 Overall time: 00:21:32 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] 4813571 / 24209956 = 0.1988 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 22:26:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.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 22:26:32: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:26:32: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:26:40: 1000000 INFO @ Sat, 24 Aug 2019 22:26:48: 2000000 INFO @ Sat, 24 Aug 2019 22:26:56: 3000000 INFO @ Sat, 24 Aug 2019 22:27:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.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 22:27:01: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:27:01: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:27:04: 4000000 INFO @ Sat, 24 Aug 2019 22:27:09: 1000000 INFO @ Sat, 24 Aug 2019 22:27:12: 5000000 INFO @ Sat, 24 Aug 2019 22:27:17: 2000000 INFO @ Sat, 24 Aug 2019 22:27:20: 6000000 INFO @ Sat, 24 Aug 2019 22:27:25: 3000000 INFO @ Sat, 24 Aug 2019 22:27:28: 7000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 22:27:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.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 22:27:31: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:27:31: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:27:34: 4000000 INFO @ Sat, 24 Aug 2019 22:27:36: 8000000 INFO @ Sat, 24 Aug 2019 22:27:40: 1000000 INFO @ Sat, 24 Aug 2019 22:27:42: 5000000 INFO @ Sat, 24 Aug 2019 22:27:44: 9000000 INFO @ Sat, 24 Aug 2019 22:27:48: 2000000 INFO @ Sat, 24 Aug 2019 22:27:50: 6000000 INFO @ Sat, 24 Aug 2019 22:27:51: 10000000 INFO @ Sat, 24 Aug 2019 22:27:57: 3000000 INFO @ Sat, 24 Aug 2019 22:27:58: 7000000 INFO @ Sat, 24 Aug 2019 22:27:59: 11000000 INFO @ Sat, 24 Aug 2019 22:28:05: 4000000 INFO @ Sat, 24 Aug 2019 22:28:06: 8000000 INFO @ Sat, 24 Aug 2019 22:28:07: 12000000 INFO @ Sat, 24 Aug 2019 22:28:13: 5000000 INFO @ Sat, 24 Aug 2019 22:28:14: 9000000 INFO @ Sat, 24 Aug 2019 22:28:15: 13000000 INFO @ Sat, 24 Aug 2019 22:28:22: 6000000 INFO @ Sat, 24 Aug 2019 22:28:22: 10000000 INFO @ Sat, 24 Aug 2019 22:28:23: 14000000 INFO @ Sat, 24 Aug 2019 22:28:30: 15000000 INFO @ Sat, 24 Aug 2019 22:28:30: 11000000 INFO @ Sat, 24 Aug 2019 22:28:30: 7000000 INFO @ Sat, 24 Aug 2019 22:28:36: 16000000 INFO @ Sat, 24 Aug 2019 22:28:38: 12000000 INFO @ Sat, 24 Aug 2019 22:28:38: 8000000 INFO @ Sat, 24 Aug 2019 22:28:43: 17000000 INFO @ Sat, 24 Aug 2019 22:28:46: 13000000 INFO @ Sat, 24 Aug 2019 22:28:46: 9000000 INFO @ Sat, 24 Aug 2019 22:28:50: 18000000 INFO @ Sat, 24 Aug 2019 22:28:53: 14000000 INFO @ Sat, 24 Aug 2019 22:28:55: 10000000 INFO @ Sat, 24 Aug 2019 22:28:58: 19000000 INFO @ Sat, 24 Aug 2019 22:29:01: 15000000 INFO @ Sat, 24 Aug 2019 22:29:03: 11000000 INFO @ Sat, 24 Aug 2019 22:29:05: 20000000 INFO @ Sat, 24 Aug 2019 22:29:08: 16000000 INFO @ Sat, 24 Aug 2019 22:29:11: 12000000 INFO @ Sat, 24 Aug 2019 22:29:12: 21000000 INFO @ Sat, 24 Aug 2019 22:29:16: 17000000 INFO @ Sat, 24 Aug 2019 22:29:19: 22000000 INFO @ Sat, 24 Aug 2019 22:29:19: 13000000 INFO @ Sat, 24 Aug 2019 22:29:23: 18000000 INFO @ Sat, 24 Aug 2019 22:29:25: 23000000 INFO @ Sat, 24 Aug 2019 22:29:27: 14000000 INFO @ Sat, 24 Aug 2019 22:29:30: 19000000 INFO @ Sat, 24 Aug 2019 22:29:32: 24000000 INFO @ Sat, 24 Aug 2019 22:29:34: 15000000 INFO @ Sat, 24 Aug 2019 22:29:38: 20000000 INFO @ Sat, 24 Aug 2019 22:29:38: 25000000 INFO @ Sat, 24 Aug 2019 22:29:42: 16000000 INFO @ Sat, 24 Aug 2019 22:29:45: 26000000 INFO @ Sat, 24 Aug 2019 22:29:45: 21000000 INFO @ Sat, 24 Aug 2019 22:29:49: 17000000 INFO @ Sat, 24 Aug 2019 22:29:51: 27000000 INFO @ Sat, 24 Aug 2019 22:29:53: 22000000 INFO @ Sat, 24 Aug 2019 22:29:56: 18000000 INFO @ Sat, 24 Aug 2019 22:29:57: 28000000 INFO @ Sat, 24 Aug 2019 22:30:00: 23000000 INFO @ Sat, 24 Aug 2019 22:30:02: 19000000 INFO @ Sat, 24 Aug 2019 22:30:04: 29000000 INFO @ Sat, 24 Aug 2019 22:30:07: 24000000 INFO @ Sat, 24 Aug 2019 22:30:09: 20000000 INFO @ Sat, 24 Aug 2019 22:30:10: 30000000 INFO @ Sat, 24 Aug 2019 22:30:15: 25000000 INFO @ Sat, 24 Aug 2019 22:30:16: 21000000 INFO @ Sat, 24 Aug 2019 22:30:17: 31000000 INFO @ Sat, 24 Aug 2019 22:30:22: 26000000 INFO @ Sat, 24 Aug 2019 22:30:23: 32000000 INFO @ Sat, 24 Aug 2019 22:30:24: 22000000 INFO @ Sat, 24 Aug 2019 22:30:29: 27000000 INFO @ Sat, 24 Aug 2019 22:30:30: 33000000 INFO @ Sat, 24 Aug 2019 22:30:31: 23000000 INFO @ Sat, 24 Aug 2019 22:30:36: 34000000 INFO @ Sat, 24 Aug 2019 22:30:37: 28000000 INFO @ Sat, 24 Aug 2019 22:30:38: 24000000 INFO @ Sat, 24 Aug 2019 22:30:43: 35000000 INFO @ Sat, 24 Aug 2019 22:30:44: 29000000 INFO @ Sat, 24 Aug 2019 22:30:46: 25000000 INFO @ Sat, 24 Aug 2019 22:30:49: 36000000 INFO @ Sat, 24 Aug 2019 22:30:51: 30000000 INFO @ Sat, 24 Aug 2019 22:30:53: 26000000 INFO @ Sat, 24 Aug 2019 22:30:56: 37000000 INFO @ Sat, 24 Aug 2019 22:30:58: 31000000 INFO @ Sat, 24 Aug 2019 22:31:01: 27000000 INFO @ Sat, 24 Aug 2019 22:31:02: 38000000 INFO @ Sat, 24 Aug 2019 22:31:06: 32000000 INFO @ Sat, 24 Aug 2019 22:31:08: 28000000 INFO @ Sat, 24 Aug 2019 22:31:08: 39000000 INFO @ Sat, 24 Aug 2019 22:31:13: 33000000 INFO @ Sat, 24 Aug 2019 22:31:15: 40000000 INFO @ Sat, 24 Aug 2019 22:31:15: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 22:31:20: 34000000 INFO @ Sat, 24 Aug 2019 22:31:21: 41000000 INFO @ Sat, 24 Aug 2019 22:31:22: 30000000 INFO @ Sat, 24 Aug 2019 22:31:22: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:31:22: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:31:22: #1 total tags in treatment: 19122103 INFO @ Sat, 24 Aug 2019 22:31:22: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:31:22: #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 22:31:23: #1 tags after filtering in treatment: 7503500 INFO @ Sat, 24 Aug 2019 22:31:23: #1 Redundant rate of treatment: 0.61 INFO @ Sat, 24 Aug 2019 22:31:23: #1 finished! INFO @ Sat, 24 Aug 2019 22:31:23: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:31:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:31:23: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:31:23: 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 22:31:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.05_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/SRX5811101/SRX5811101.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:31:28: 35000000 INFO @ Sat, 24 Aug 2019 22:31:30: 31000000 INFO @ Sat, 24 Aug 2019 22:31:35: 36000000 INFO @ Sat, 24 Aug 2019 22:31:37: 32000000 BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 22:31:42: 37000000 INFO @ Sat, 24 Aug 2019 22:31:44: 33000000 INFO @ Sat, 24 Aug 2019 22:31:49: 38000000 INFO @ Sat, 24 Aug 2019 22:31:51: 34000000 INFO @ Sat, 24 Aug 2019 22:31:57: 39000000 INFO @ Sat, 24 Aug 2019 22:31:59: 35000000 INFO @ Sat, 24 Aug 2019 22:32:04: 40000000 INFO @ Sat, 24 Aug 2019 22:32:06: 36000000 INFO @ Sat, 24 Aug 2019 22:32:11: 41000000 INFO @ Sat, 24 Aug 2019 22:32:12: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:32:12: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:32:12: #1 total tags in treatment: 19122103 INFO @ Sat, 24 Aug 2019 22:32:12: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:32:12: #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 22:32:13: #1 tags after filtering in treatment: 7503500 INFO @ Sat, 24 Aug 2019 22:32:13: #1 Redundant rate of treatment: 0.61 INFO @ Sat, 24 Aug 2019 22:32:13: #1 finished! INFO @ Sat, 24 Aug 2019 22:32:13: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:32:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:32:13: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:32:13: 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 22:32:13: Process for pairing-model is terminated! INFO @ Sat, 24 Aug 2019 22:32:13: 37000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.10_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/SRX5811101/SRX5811101.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:32:20: 38000000 INFO @ Sat, 24 Aug 2019 22:32:27: 39000000 INFO @ Sat, 24 Aug 2019 22:32:35: 40000000 INFO @ Sat, 24 Aug 2019 22:32:42: 41000000 INFO @ Sat, 24 Aug 2019 22:32:42: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:32:42: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:32:42: #1 total tags in treatment: 19122103 INFO @ Sat, 24 Aug 2019 22:32:42: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:32:42: #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 22:32:43: #1 tags after filtering in treatment: 7503500 INFO @ Sat, 24 Aug 2019 22:32:43: #1 Redundant rate of treatment: 0.61 INFO @ Sat, 24 Aug 2019 22:32:43: #1 finished! INFO @ Sat, 24 Aug 2019 22:32:43: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:32:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:32:44: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:32:44: 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, 24 Aug 2019 22:32:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.20_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/SRX5811101/SRX5811101.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5811101/SRX5811101.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling