Job ID = 2008299 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,327,255 reads read : 22,654,510 reads written : 22,654,510 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629006.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: 00:13:34 11327255 reads; of these: 11327255 (100.00%) were paired; of these: 563149 (4.97%) aligned concordantly 0 times 9547821 (84.29%) aligned concordantly exactly 1 time 1216285 (10.74%) aligned concordantly >1 times ---- 563149 pairs aligned concordantly 0 times; of these: 163870 (29.10%) aligned discordantly 1 time ---- 399279 pairs aligned 0 times concordantly or discordantly; of these: 798558 mates make up the pairs; of these: 687912 (86.14%) aligned 0 times 61548 (7.71%) aligned exactly 1 time 49098 (6.15%) aligned >1 times 96.96% overall alignment rate Time searching: 00:13:34 Overall time: 00:13:34 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 12 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] 2642997 / 10893119 = 0.2426 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 18:50:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.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 18:50:23: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:50:23: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:50:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.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 18:50:24: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:50:24: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:50:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.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 18:50:45: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:50:45: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:50:56: 1000000 INFO @ Fri, 05 Jul 2019 18:50:56: 1000000 INFO @ Fri, 05 Jul 2019 18:50:59: 1000000 INFO @ Fri, 05 Jul 2019 18:51:09: 2000000 INFO @ Fri, 05 Jul 2019 18:51:10: 2000000 INFO @ Fri, 05 Jul 2019 18:51:14: 2000000 INFO @ Fri, 05 Jul 2019 18:51:21: 3000000 INFO @ Fri, 05 Jul 2019 18:51:25: 3000000 INFO @ Fri, 05 Jul 2019 18:51:28: 3000000 INFO @ Fri, 05 Jul 2019 18:51:33: 4000000 INFO @ Fri, 05 Jul 2019 18:51:37: 4000000 INFO @ Fri, 05 Jul 2019 18:51:39: 4000000 INFO @ Fri, 05 Jul 2019 18:51:43: 5000000 INFO @ Fri, 05 Jul 2019 18:51:48: 5000000 INFO @ Fri, 05 Jul 2019 18:51:49: 5000000 INFO @ Fri, 05 Jul 2019 18:51:54: 6000000 INFO @ Fri, 05 Jul 2019 18:51:56: 6000000 INFO @ Fri, 05 Jul 2019 18:52:01: 6000000 INFO @ Fri, 05 Jul 2019 18:52:04: 7000000 INFO @ Fri, 05 Jul 2019 18:52:06: 7000000 INFO @ Fri, 05 Jul 2019 18:52:13: 7000000 INFO @ Fri, 05 Jul 2019 18:52:15: 8000000 INFO @ Fri, 05 Jul 2019 18:52:19: 8000000 INFO @ Fri, 05 Jul 2019 18:52:23: 9000000 INFO @ Fri, 05 Jul 2019 18:52:26: 8000000 INFO @ Fri, 05 Jul 2019 18:52:31: 10000000 INFO @ Fri, 05 Jul 2019 18:52:32: 9000000 INFO @ Fri, 05 Jul 2019 18:52:38: 9000000 INFO @ Fri, 05 Jul 2019 18:52:39: 11000000 INFO @ Fri, 05 Jul 2019 18:52:44: 10000000 INFO @ Fri, 05 Jul 2019 18:52:47: 12000000 INFO @ Fri, 05 Jul 2019 18:52:50: 10000000 INFO @ Fri, 05 Jul 2019 18:52:54: 13000000 INFO @ Fri, 05 Jul 2019 18:52:55: 11000000 INFO @ Fri, 05 Jul 2019 18:53:01: 11000000 INFO @ Fri, 05 Jul 2019 18:53:02: 14000000 INFO @ Fri, 05 Jul 2019 18:53:06: 12000000 INFO @ Fri, 05 Jul 2019 18:53:10: 15000000 INFO @ Fri, 05 Jul 2019 18:53:13: 12000000 INFO @ Fri, 05 Jul 2019 18:53:17: 16000000 INFO @ Fri, 05 Jul 2019 18:53:18: 13000000 INFO @ Fri, 05 Jul 2019 18:53:22: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:53:22: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:53:22: #1 total tags in treatment: 8127980 INFO @ Fri, 05 Jul 2019 18:53:22: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:53:22: #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 18:53:23: #1 tags after filtering in treatment: 4367835 INFO @ Fri, 05 Jul 2019 18:53:23: #1 Redundant rate of treatment: 0.46 INFO @ Fri, 05 Jul 2019 18:53:23: #1 finished! INFO @ Fri, 05 Jul 2019 18:53:23: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:53:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:53:23: 13000000 INFO @ Fri, 05 Jul 2019 18:53:23: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:53:23: 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 @ Fri, 05 Jul 2019 18:53:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.20_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/ERX585809/ERX585809.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:53:28: 14000000 INFO @ Fri, 05 Jul 2019 18:53:32: 14000000 INFO @ Fri, 05 Jul 2019 18:53:38: 15000000 INFO @ Fri, 05 Jul 2019 18:53:41: 15000000 INFO @ Fri, 05 Jul 2019 18:53:49: 16000000 INFO @ Fri, 05 Jul 2019 18:53:51: 16000000 INFO @ Fri, 05 Jul 2019 18:53:57: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:53:57: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:53:57: #1 total tags in treatment: 8127980 INFO @ Fri, 05 Jul 2019 18:53:57: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:53:57: #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 18:53:57: #1 tags after filtering in treatment: 4367835 INFO @ Fri, 05 Jul 2019 18:53:57: #1 Redundant rate of treatment: 0.46 INFO @ Fri, 05 Jul 2019 18:53:57: #1 finished! INFO @ Fri, 05 Jul 2019 18:53:57: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:53:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:53:57: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:53:57: 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 18:53:57: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:53:59: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:53:59: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:53:59: #1 total tags in treatment: 8127980 INFO @ Fri, 05 Jul 2019 18:53:59: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:53:59: #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 18:53:59: #1 tags after filtering in treatment: 4367835 INFO @ Fri, 05 Jul 2019 18:53:59: #1 Redundant rate of treatment: 0.46 INFO @ Fri, 05 Jul 2019 18:53:59: #1 finished! INFO @ Fri, 05 Jul 2019 18:53:59: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:53:59: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:53:59: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:53:59: 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 18:53:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585809/ERX585809.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。