Job ID = 2010326 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 29,760,657 reads read : 59,521,314 reads written : 59,521,314 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1009163.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: 00:38:12 29760657 reads; of these: 29760657 (100.00%) were paired; of these: 4754603 (15.98%) aligned concordantly 0 times 20587399 (69.18%) aligned concordantly exactly 1 time 4418655 (14.85%) aligned concordantly >1 times ---- 4754603 pairs aligned concordantly 0 times; of these: 1451722 (30.53%) aligned discordantly 1 time ---- 3302881 pairs aligned 0 times concordantly or discordantly; of these: 6605762 mates make up the pairs; of these: 5151248 (77.98%) aligned 0 times 453271 (6.86%) aligned exactly 1 time 1001243 (15.16%) aligned >1 times 91.35% overall alignment rate Time searching: 00:38:12 Overall time: 00:38:12 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] 7503931 / 26295674 = 0.2854 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 23:22:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.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 23:22:11: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:22:11: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:22:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.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 23:22:12: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:22:12: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:22:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.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 23:22:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:22:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:22:22: 1000000 INFO @ Fri, 05 Jul 2019 23:22:22: 1000000 INFO @ Fri, 05 Jul 2019 23:22:24: 1000000 INFO @ Fri, 05 Jul 2019 23:22:31: 2000000 INFO @ Fri, 05 Jul 2019 23:22:34: 2000000 INFO @ Fri, 05 Jul 2019 23:22:35: 2000000 INFO @ Fri, 05 Jul 2019 23:22:40: 3000000 INFO @ Fri, 05 Jul 2019 23:22:45: 3000000 INFO @ Fri, 05 Jul 2019 23:22:46: 3000000 INFO @ Fri, 05 Jul 2019 23:22:49: 4000000 INFO @ Fri, 05 Jul 2019 23:22:56: 4000000 INFO @ Fri, 05 Jul 2019 23:22:57: 4000000 INFO @ Fri, 05 Jul 2019 23:22:58: 5000000 INFO @ Fri, 05 Jul 2019 23:23:07: 6000000 INFO @ Fri, 05 Jul 2019 23:23:08: 5000000 INFO @ Fri, 05 Jul 2019 23:23:09: 5000000 INFO @ Fri, 05 Jul 2019 23:23:16: 7000000 INFO @ Fri, 05 Jul 2019 23:23:19: 6000000 INFO @ Fri, 05 Jul 2019 23:23:20: 6000000 INFO @ Fri, 05 Jul 2019 23:23:25: 8000000 INFO @ Fri, 05 Jul 2019 23:23:30: 7000000 INFO @ Fri, 05 Jul 2019 23:23:30: 7000000 INFO @ Fri, 05 Jul 2019 23:23:34: 9000000 INFO @ Fri, 05 Jul 2019 23:23:40: 8000000 INFO @ Fri, 05 Jul 2019 23:23:41: 8000000 INFO @ Fri, 05 Jul 2019 23:23:43: 10000000 INFO @ Fri, 05 Jul 2019 23:23:50: 9000000 INFO @ Fri, 05 Jul 2019 23:23:52: 11000000 INFO @ Fri, 05 Jul 2019 23:23:52: 9000000 INFO @ Fri, 05 Jul 2019 23:24:01: 10000000 INFO @ Fri, 05 Jul 2019 23:24:01: 12000000 INFO @ Fri, 05 Jul 2019 23:24:03: 10000000 INFO @ Fri, 05 Jul 2019 23:24:09: 13000000 INFO @ Fri, 05 Jul 2019 23:24:11: 11000000 INFO @ Fri, 05 Jul 2019 23:24:14: 11000000 INFO @ Fri, 05 Jul 2019 23:24:18: 14000000 INFO @ Fri, 05 Jul 2019 23:24:21: 12000000 INFO @ Fri, 05 Jul 2019 23:24:25: 12000000 INFO @ Fri, 05 Jul 2019 23:24:27: 15000000 INFO @ Fri, 05 Jul 2019 23:24:31: 13000000 INFO @ Fri, 05 Jul 2019 23:24:36: 16000000 INFO @ Fri, 05 Jul 2019 23:24:36: 13000000 INFO @ Fri, 05 Jul 2019 23:24:41: 14000000 INFO @ Fri, 05 Jul 2019 23:24:44: 17000000 INFO @ Fri, 05 Jul 2019 23:24:46: 14000000 INFO @ Fri, 05 Jul 2019 23:24:51: 15000000 INFO @ Fri, 05 Jul 2019 23:24:52: 18000000 INFO @ Fri, 05 Jul 2019 23:24:57: 15000000 INFO @ Fri, 05 Jul 2019 23:25:01: 19000000 INFO @ Fri, 05 Jul 2019 23:25:02: 16000000 INFO @ Fri, 05 Jul 2019 23:25:08: 16000000 INFO @ Fri, 05 Jul 2019 23:25:09: 20000000 INFO @ Fri, 05 Jul 2019 23:25:12: 17000000 INFO @ Fri, 05 Jul 2019 23:25:17: 21000000 INFO @ Fri, 05 Jul 2019 23:25:19: 17000000 INFO @ Fri, 05 Jul 2019 23:25:21: 18000000 INFO @ Fri, 05 Jul 2019 23:25:25: 22000000 INFO @ Fri, 05 Jul 2019 23:25:29: 18000000 INFO @ Fri, 05 Jul 2019 23:25:31: 19000000 INFO @ Fri, 05 Jul 2019 23:25:33: 23000000 INFO @ Fri, 05 Jul 2019 23:25:38: 19000000 INFO @ Fri, 05 Jul 2019 23:25:40: 20000000 INFO @ Fri, 05 Jul 2019 23:25:41: 24000000 INFO @ Fri, 05 Jul 2019 23:25:48: 20000000 INFO @ Fri, 05 Jul 2019 23:25:49: 25000000 INFO @ Fri, 05 Jul 2019 23:25:49: 21000000 INFO @ Fri, 05 Jul 2019 23:25:57: 26000000 INFO @ Fri, 05 Jul 2019 23:25:58: 21000000 INFO @ Fri, 05 Jul 2019 23:25:59: 22000000 INFO @ Fri, 05 Jul 2019 23:26:05: 27000000 INFO @ Fri, 05 Jul 2019 23:26:07: 22000000 INFO @ Fri, 05 Jul 2019 23:26:08: 23000000 INFO @ Fri, 05 Jul 2019 23:26:13: 28000000 INFO @ Fri, 05 Jul 2019 23:26:17: 23000000 INFO @ Fri, 05 Jul 2019 23:26:17: 24000000 INFO @ Fri, 05 Jul 2019 23:26:21: 29000000 INFO @ Fri, 05 Jul 2019 23:26:26: 24000000 INFO @ Fri, 05 Jul 2019 23:26:27: 25000000 INFO @ Fri, 05 Jul 2019 23:26:30: 30000000 INFO @ Fri, 05 Jul 2019 23:26:36: 26000000 INFO @ Fri, 05 Jul 2019 23:26:36: 25000000 INFO @ Fri, 05 Jul 2019 23:26:38: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:26:45: 27000000 INFO @ Fri, 05 Jul 2019 23:26:45: 26000000 INFO @ Fri, 05 Jul 2019 23:26:46: 32000000 INFO @ Fri, 05 Jul 2019 23:26:54: 33000000 INFO @ Fri, 05 Jul 2019 23:26:54: 28000000 INFO @ Fri, 05 Jul 2019 23:26:55: 27000000 INFO @ Fri, 05 Jul 2019 23:27:02: 34000000 INFO @ Fri, 05 Jul 2019 23:27:04: 29000000 INFO @ Fri, 05 Jul 2019 23:27:04: 28000000 INFO @ Fri, 05 Jul 2019 23:27:10: 35000000 INFO @ Fri, 05 Jul 2019 23:27:13: 30000000 INFO @ Fri, 05 Jul 2019 23:27:14: 29000000 INFO @ Fri, 05 Jul 2019 23:27:18: 36000000 INFO @ Fri, 05 Jul 2019 23:27:23: 30000000 INFO @ Fri, 05 Jul 2019 23:27:23: 31000000 INFO @ Fri, 05 Jul 2019 23:27:26: 37000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 23:27:33: 31000000 INFO @ Fri, 05 Jul 2019 23:27:33: 32000000 INFO @ Fri, 05 Jul 2019 23:27:34: 38000000 INFO @ Fri, 05 Jul 2019 23:27:42: 32000000 INFO @ Fri, 05 Jul 2019 23:27:42: 39000000 INFO @ Fri, 05 Jul 2019 23:27:43: 33000000 INFO @ Fri, 05 Jul 2019 23:27:46: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 23:27:46: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 23:27:46: #1 total tags in treatment: 17791204 INFO @ Fri, 05 Jul 2019 23:27:46: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:27:46: #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 23:27:46: #1 tags after filtering in treatment: 7439940 INFO @ Fri, 05 Jul 2019 23:27:46: #1 Redundant rate of treatment: 0.58 INFO @ Fri, 05 Jul 2019 23:27:46: #1 finished! INFO @ Fri, 05 Jul 2019 23:27:46: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:27:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:27:47: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:27:47: 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 23:27:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.10_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/SRX363274/SRX363274.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:27:51: 33000000 INFO @ Fri, 05 Jul 2019 23:27:52: 34000000 INFO @ Fri, 05 Jul 2019 23:28:00: 34000000 INFO @ Fri, 05 Jul 2019 23:28:01: 35000000 INFO @ Fri, 05 Jul 2019 23:28:10: 35000000 INFO @ Fri, 05 Jul 2019 23:28:11: 36000000 INFO @ Fri, 05 Jul 2019 23:28:20: 36000000 INFO @ Fri, 05 Jul 2019 23:28:20: 37000000 INFO @ Fri, 05 Jul 2019 23:28:29: 38000000 INFO @ Fri, 05 Jul 2019 23:28:29: 37000000 INFO @ Fri, 05 Jul 2019 23:28:38: 39000000 INFO @ Fri, 05 Jul 2019 23:28:39: 38000000 INFO @ Fri, 05 Jul 2019 23:28:42: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 23:28:42: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 23:28:42: #1 total tags in treatment: 17791204 INFO @ Fri, 05 Jul 2019 23:28:42: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:28:42: #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 23:28:42: #1 tags after filtering in treatment: 7439940 INFO @ Fri, 05 Jul 2019 23:28:42: #1 Redundant rate of treatment: 0.58 INFO @ Fri, 05 Jul 2019 23:28:42: #1 finished! INFO @ Fri, 05 Jul 2019 23:28:42: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:28:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:28:43: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:28:43: 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 23:28:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.05_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/SRX363274/SRX363274.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:28:48: 39000000 INFO @ Fri, 05 Jul 2019 23:28:52: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 23:28:52: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 23:28:52: #1 total tags in treatment: 17791204 INFO @ Fri, 05 Jul 2019 23:28:52: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:28:52: #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 23:28:53: #1 tags after filtering in treatment: 7439940 INFO @ Fri, 05 Jul 2019 23:28:53: #1 Redundant rate of treatment: 0.58 INFO @ Fri, 05 Jul 2019 23:28:53: #1 finished! INFO @ Fri, 05 Jul 2019 23:28:53: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:28:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:28:53: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:28:53: 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 23:28:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.20_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/SRX363274/SRX363274.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363274/SRX363274.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling