Job ID = 2009740 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 15,725,286 reads read : 31,450,572 reads written : 31,450,572 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: 00:11:49 15725286 reads; of these: 15725286 (100.00%) were paired; of these: 1601750 (10.19%) aligned concordantly 0 times 12292685 (78.17%) aligned concordantly exactly 1 time 1830851 (11.64%) aligned concordantly >1 times ---- 1601750 pairs aligned concordantly 0 times; of these: 585914 (36.58%) aligned discordantly 1 time ---- 1015836 pairs aligned 0 times concordantly or discordantly; of these: 2031672 mates make up the pairs; of these: 1510338 (74.34%) aligned 0 times 238312 (11.73%) aligned exactly 1 time 283022 (13.93%) aligned >1 times 95.20% overall alignment rate Time searching: 00:11:49 Overall time: 00:11:49 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 16 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] 591410 / 14477117 = 0.0409 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 20:15:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.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 20:15:00: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:15:00: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:15:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.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 20:15:01: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:15:01: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:15:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.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 20:15:02: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:15:02: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:15:08: 1000000 INFO @ Fri, 05 Jul 2019 20:15:09: 1000000 INFO @ Fri, 05 Jul 2019 20:15:11: 1000000 INFO @ Fri, 05 Jul 2019 20:15:15: 2000000 INFO @ Fri, 05 Jul 2019 20:15:17: 2000000 INFO @ Fri, 05 Jul 2019 20:15:19: 2000000 INFO @ Fri, 05 Jul 2019 20:15:22: 3000000 INFO @ Fri, 05 Jul 2019 20:15:26: 3000000 INFO @ Fri, 05 Jul 2019 20:15:28: 3000000 INFO @ Fri, 05 Jul 2019 20:15:29: 4000000 INFO @ Fri, 05 Jul 2019 20:15:34: 4000000 INFO @ Fri, 05 Jul 2019 20:15:36: 5000000 INFO @ Fri, 05 Jul 2019 20:15:36: 4000000 INFO @ Fri, 05 Jul 2019 20:15:43: 5000000 INFO @ Fri, 05 Jul 2019 20:15:43: 6000000 INFO @ Fri, 05 Jul 2019 20:15:45: 5000000 INFO @ Fri, 05 Jul 2019 20:15:50: 7000000 INFO @ Fri, 05 Jul 2019 20:15:51: 6000000 INFO @ Fri, 05 Jul 2019 20:15:53: 6000000 INFO @ Fri, 05 Jul 2019 20:15:57: 8000000 INFO @ Fri, 05 Jul 2019 20:15:59: 7000000 INFO @ Fri, 05 Jul 2019 20:16:01: 7000000 INFO @ Fri, 05 Jul 2019 20:16:04: 9000000 INFO @ Fri, 05 Jul 2019 20:16:07: 8000000 INFO @ Fri, 05 Jul 2019 20:16:10: 8000000 INFO @ Fri, 05 Jul 2019 20:16:10: 10000000 INFO @ Fri, 05 Jul 2019 20:16:15: 9000000 INFO @ Fri, 05 Jul 2019 20:16:17: 11000000 INFO @ Fri, 05 Jul 2019 20:16:18: 9000000 INFO @ Fri, 05 Jul 2019 20:16:24: 10000000 INFO @ Fri, 05 Jul 2019 20:16:24: 12000000 INFO @ Fri, 05 Jul 2019 20:16:26: 10000000 INFO @ Fri, 05 Jul 2019 20:16:31: 13000000 INFO @ Fri, 05 Jul 2019 20:16:32: 11000000 INFO @ Fri, 05 Jul 2019 20:16:34: 11000000 INFO @ Fri, 05 Jul 2019 20:16:38: 14000000 INFO @ Fri, 05 Jul 2019 20:16:40: 12000000 INFO @ Fri, 05 Jul 2019 20:16:42: 12000000 INFO @ Fri, 05 Jul 2019 20:16:44: 15000000 INFO @ Fri, 05 Jul 2019 20:16:48: 13000000 INFO @ Fri, 05 Jul 2019 20:16:50: 13000000 INFO @ Fri, 05 Jul 2019 20:16:52: 16000000 INFO @ Fri, 05 Jul 2019 20:16:55: 14000000 INFO @ Fri, 05 Jul 2019 20:16:58: 14000000 INFO @ Fri, 05 Jul 2019 20:17:00: 17000000 INFO @ Fri, 05 Jul 2019 20:17:02: 15000000 INFO @ Fri, 05 Jul 2019 20:17:06: 15000000 INFO @ Fri, 05 Jul 2019 20:17:08: 18000000 INFO @ Fri, 05 Jul 2019 20:17:10: 16000000 INFO @ Fri, 05 Jul 2019 20:17:14: 16000000 INFO @ Fri, 05 Jul 2019 20:17:16: 19000000 INFO @ Fri, 05 Jul 2019 20:17:17: 17000000 INFO @ Fri, 05 Jul 2019 20:17:22: 17000000 INFO @ Fri, 05 Jul 2019 20:17:23: 20000000 INFO @ Fri, 05 Jul 2019 20:17:24: 18000000 INFO @ Fri, 05 Jul 2019 20:17:29: 18000000 INFO @ Fri, 05 Jul 2019 20:17:31: 21000000 INFO @ Fri, 05 Jul 2019 20:17:32: 19000000 INFO @ Fri, 05 Jul 2019 20:17:37: 19000000 INFO @ Fri, 05 Jul 2019 20:17:39: 22000000 INFO @ Fri, 05 Jul 2019 20:17:39: 20000000 INFO @ Fri, 05 Jul 2019 20:17:45: 20000000 INFO @ Fri, 05 Jul 2019 20:17:46: 21000000 INFO @ Fri, 05 Jul 2019 20:17:46: 23000000 INFO @ Fri, 05 Jul 2019 20:17:53: 21000000 INFO @ Fri, 05 Jul 2019 20:17:53: 22000000 INFO @ Fri, 05 Jul 2019 20:17:54: 24000000 INFO @ Fri, 05 Jul 2019 20:18:00: 23000000 INFO @ Fri, 05 Jul 2019 20:18:00: 22000000 INFO @ Fri, 05 Jul 2019 20:18:02: 25000000 INFO @ Fri, 05 Jul 2019 20:18:08: 24000000 INFO @ Fri, 05 Jul 2019 20:18:08: 23000000 INFO @ Fri, 05 Jul 2019 20:18:09: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 20:18:16: 27000000 INFO @ Fri, 05 Jul 2019 20:18:17: 25000000 INFO @ Fri, 05 Jul 2019 20:18:17: 24000000 INFO @ Fri, 05 Jul 2019 20:18:24: 28000000 INFO @ Fri, 05 Jul 2019 20:18:25: 26000000 INFO @ Fri, 05 Jul 2019 20:18:25: 25000000 INFO @ Fri, 05 Jul 2019 20:18:30: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:18:30: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:18:30: #1 total tags in treatment: 13537962 INFO @ Fri, 05 Jul 2019 20:18:30: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:18:30: #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 20:18:30: #1 tags after filtering in treatment: 8752111 INFO @ Fri, 05 Jul 2019 20:18:30: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 05 Jul 2019 20:18:30: #1 finished! INFO @ Fri, 05 Jul 2019 20:18:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:18:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:18:31: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:18:31: 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 20:18:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.10_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/SRX1462589/SRX1462589.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 20:18:32: 26000000 INFO @ Fri, 05 Jul 2019 20:18:32: 27000000 INFO @ Fri, 05 Jul 2019 20:18:38: 28000000 INFO @ Fri, 05 Jul 2019 20:18:38: 27000000 INFO @ Fri, 05 Jul 2019 20:18:43: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:18:43: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:18:43: #1 total tags in treatment: 13537962 INFO @ Fri, 05 Jul 2019 20:18:43: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:18:43: #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 20:18:44: #1 tags after filtering in treatment: 8752111 INFO @ Fri, 05 Jul 2019 20:18:44: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 05 Jul 2019 20:18:44: #1 finished! INFO @ Fri, 05 Jul 2019 20:18:44: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:18:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:18:44: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:18:44: 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 @ Fri, 05 Jul 2019 20:18:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.05_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/SRX1462589/SRX1462589.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:18:45: 28000000 INFO @ Fri, 05 Jul 2019 20:18:50: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:18:50: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:18:50: #1 total tags in treatment: 13537962 INFO @ Fri, 05 Jul 2019 20:18:50: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:18:50: #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 20:18:50: #1 tags after filtering in treatment: 8752111 INFO @ Fri, 05 Jul 2019 20:18:50: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 05 Jul 2019 20:18:50: #1 finished! INFO @ Fri, 05 Jul 2019 20:18:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:18:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:18:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:18:51: 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 20:18:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.20_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/SRX1462589/SRX1462589.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462589/SRX1462589.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling