Job ID = 2009736 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 3,274,284 reads read : 3,274,284 reads written : 3,274,284 spots read : 3,293,337 reads read : 3,293,337 reads written : 3,293,337 spots read : 3,275,580 reads read : 3,275,580 reads written : 3,275,580 rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR441515.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR441516.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR441517.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: 00:01:39 9843201 reads; of these: 9843201 (100.00%) were unpaired; of these: 657079 (6.68%) aligned 0 times 8184014 (83.14%) aligned exactly 1 time 1002108 (10.18%) aligned >1 times 93.32% overall alignment rate Time searching: 00:01:39 Overall time: 00:01:39 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_rmdupse_core] 2617541 / 9186122 = 0.2849 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 19:48:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.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 19:48:42: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:48:42: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:48:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.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 19:48:43: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:48:43: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:48:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.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 19:48:44: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:48:44: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:48:52: 1000000 INFO @ Fri, 05 Jul 2019 19:48:52: 1000000 INFO @ Fri, 05 Jul 2019 19:48:54: 1000000 INFO @ Fri, 05 Jul 2019 19:48:59: 2000000 INFO @ Fri, 05 Jul 2019 19:49:01: 2000000 INFO @ Fri, 05 Jul 2019 19:49:03: 2000000 INFO @ Fri, 05 Jul 2019 19:49:07: 3000000 INFO @ Fri, 05 Jul 2019 19:49:10: 3000000 INFO @ Fri, 05 Jul 2019 19:49:13: 3000000 INFO @ Fri, 05 Jul 2019 19:49:14: 4000000 INFO @ Fri, 05 Jul 2019 19:49:20: 4000000 INFO @ Fri, 05 Jul 2019 19:49:22: 5000000 INFO @ Fri, 05 Jul 2019 19:49:22: 4000000 INFO @ Fri, 05 Jul 2019 19:49:28: 5000000 INFO @ Fri, 05 Jul 2019 19:49:29: 6000000 INFO @ Fri, 05 Jul 2019 19:49:32: 5000000 INFO @ Fri, 05 Jul 2019 19:49:33: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 19:49:33: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 19:49:33: #1 total tags in treatment: 6568581 INFO @ Fri, 05 Jul 2019 19:49:33: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:49:33: #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 19:49:33: #1 tags after filtering in treatment: 6568581 INFO @ Fri, 05 Jul 2019 19:49:33: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 19:49:33: #1 finished! INFO @ Fri, 05 Jul 2019 19:49:33: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:49:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:49:33: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:49:33: 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 19:49:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.10_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/SRX127920/SRX127920.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:49:37: 6000000 INFO @ Fri, 05 Jul 2019 19:49:41: 6000000 INFO @ Fri, 05 Jul 2019 19:49:42: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 19:49:42: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 19:49:42: #1 total tags in treatment: 6568581 INFO @ Fri, 05 Jul 2019 19:49:42: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:49:42: #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 19:49:42: #1 tags after filtering in treatment: 6568581 INFO @ Fri, 05 Jul 2019 19:49:42: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 19:49:42: #1 finished! INFO @ Fri, 05 Jul 2019 19:49:42: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:49:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:49:43: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:49:43: 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 19:49:43: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:49:46: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 19:49:46: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 19:49:46: #1 total tags in treatment: 6568581 INFO @ Fri, 05 Jul 2019 19:49:46: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:49:46: #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 19:49:46: #1 tags after filtering in treatment: 6568581 INFO @ Fri, 05 Jul 2019 19:49:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 19:49:46: #1 finished! INFO @ Fri, 05 Jul 2019 19:49:46: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:49:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:49:47: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:49:47: 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 19:49:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.20_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/SRX127920/SRX127920.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 186 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX127920/SRX127920.05_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。