Job ID = 2640801 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 8,358,715 reads read : 16,717,430 reads written : 8,358,715 reads 0-length : 8,358,715 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: 00:03:24 8358715 reads; of these: 8358715 (100.00%) were unpaired; of these: 984350 (11.78%) aligned 0 times 5362619 (64.16%) aligned exactly 1 time 2011746 (24.07%) aligned >1 times 88.22% overall alignment rate Time searching: 00:03:24 Overall time: 00:03:24 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 8 files... [bam_rmdupse_core] 4187348 / 7374365 = 0.5678 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:32:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.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 19:32:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:32:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:32:32: 1000000 INFO @ Sat, 24 Aug 2019 19:32:44: 2000000 INFO @ Sat, 24 Aug 2019 19:32:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.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 19:32:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:32:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:32:57: 3000000 INFO @ Sat, 24 Aug 2019 19:32:59: #1 tag size is determined as 123 bps INFO @ Sat, 24 Aug 2019 19:32:59: #1 tag size = 123 INFO @ Sat, 24 Aug 2019 19:32:59: #1 total tags in treatment: 3187017 INFO @ Sat, 24 Aug 2019 19:32:59: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:32:59: #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 19:32:59: #1 tags after filtering in treatment: 3187017 INFO @ Sat, 24 Aug 2019 19:32:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:32:59: #1 finished! INFO @ Sat, 24 Aug 2019 19:32:59: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:32:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:32:59: #2 number of paired peaks: 61 WARNING @ Sat, 24 Aug 2019 19:32:59: Too few paired peaks (61) 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 19:32:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.05_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/SRX2439289/SRX2439289.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:33:04: 1000000 INFO @ Sat, 24 Aug 2019 19:33:16: 2000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:33:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.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 19:33:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:33:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:33:30: 3000000 INFO @ Sat, 24 Aug 2019 19:33:32: #1 tag size is determined as 123 bps INFO @ Sat, 24 Aug 2019 19:33:32: #1 tag size = 123 INFO @ Sat, 24 Aug 2019 19:33:32: #1 total tags in treatment: 3187017 INFO @ Sat, 24 Aug 2019 19:33:32: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:33:32: #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 19:33:32: #1 tags after filtering in treatment: 3187017 INFO @ Sat, 24 Aug 2019 19:33:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:33:32: #1 finished! INFO @ Sat, 24 Aug 2019 19:33:32: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:33:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:33:33: #2 number of paired peaks: 61 WARNING @ Sat, 24 Aug 2019 19:33:33: Too few paired peaks (61) 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 19:33:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.10_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/SRX2439289/SRX2439289.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:33:36: 1000000 INFO @ Sat, 24 Aug 2019 19:33:51: 2000000 INFO @ Sat, 24 Aug 2019 19:34:06: 3000000 INFO @ Sat, 24 Aug 2019 19:34:09: #1 tag size is determined as 123 bps INFO @ Sat, 24 Aug 2019 19:34:09: #1 tag size = 123 INFO @ Sat, 24 Aug 2019 19:34:09: #1 total tags in treatment: 3187017 INFO @ Sat, 24 Aug 2019 19:34:09: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:34:09: #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 19:34:09: #1 tags after filtering in treatment: 3187017 INFO @ Sat, 24 Aug 2019 19:34:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:34:09: #1 finished! INFO @ Sat, 24 Aug 2019 19:34:09: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:34:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:34:09: #2 number of paired peaks: 61 WARNING @ Sat, 24 Aug 2019 19:34:09: Too few paired peaks (61) 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 19:34:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.20_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/SRX2439289/SRX2439289.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439289/SRX2439289.20_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。