Job ID = 2641037 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,983,732 reads read : 45,967,464 reads written : 22,983,732 reads 0-length : 22,983,732 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: 00:04:16 22983732 reads; of these: 22983732 (100.00%) were unpaired; of these: 1197560 (5.21%) aligned 0 times 18973592 (82.55%) aligned exactly 1 time 2812580 (12.24%) aligned >1 times 94.79% overall alignment rate Time searching: 00:04:16 Overall time: 00:04:16 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_rmdupse_core] 12122979 / 21786172 = 0.5565 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:06:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.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 21:06:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:06:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:06:29: 1000000 INFO @ Sat, 24 Aug 2019 21:06:37: 2000000 INFO @ Sat, 24 Aug 2019 21:06:45: 3000000 INFO @ Sat, 24 Aug 2019 21:06:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.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 21:06:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:06:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:06:53: 4000000 INFO @ Sat, 24 Aug 2019 21:06:58: 1000000 INFO @ Sat, 24 Aug 2019 21:07:01: 5000000 INFO @ Sat, 24 Aug 2019 21:07:07: 2000000 INFO @ Sat, 24 Aug 2019 21:07:10: 6000000 INFO @ Sat, 24 Aug 2019 21:07:15: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:07:18: 7000000 INFO @ Sat, 24 Aug 2019 21:07:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.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 21:07:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:07:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:07:24: 4000000 INFO @ Sat, 24 Aug 2019 21:07:27: 8000000 INFO @ Sat, 24 Aug 2019 21:07:28: 1000000 INFO @ Sat, 24 Aug 2019 21:07:32: 5000000 INFO @ Sat, 24 Aug 2019 21:07:34: 2000000 INFO @ Sat, 24 Aug 2019 21:07:35: 9000000 INFO @ Sat, 24 Aug 2019 21:07:41: 6000000 INFO @ Sat, 24 Aug 2019 21:07:41: 3000000 INFO @ Sat, 24 Aug 2019 21:07:41: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:07:41: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:07:41: #1 total tags in treatment: 9663193 INFO @ Sat, 24 Aug 2019 21:07:41: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:07:41: #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 21:07:41: #1 tags after filtering in treatment: 9663193 INFO @ Sat, 24 Aug 2019 21:07:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:07:41: #1 finished! INFO @ Sat, 24 Aug 2019 21:07:41: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:07:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:07:42: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:07:42: 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 @ Sat, 24 Aug 2019 21:07:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.05_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/SRX5257234/SRX5257234.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:07:47: 4000000 INFO @ Sat, 24 Aug 2019 21:07:49: 7000000 INFO @ Sat, 24 Aug 2019 21:07:54: 5000000 INFO @ Sat, 24 Aug 2019 21:07:57: 8000000 INFO @ Sat, 24 Aug 2019 21:08:00: 6000000 INFO @ Sat, 24 Aug 2019 21:08:06: 9000000 INFO @ Sat, 24 Aug 2019 21:08:07: 7000000 INFO @ Sat, 24 Aug 2019 21:08:12: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:08:12: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:08:12: #1 total tags in treatment: 9663193 INFO @ Sat, 24 Aug 2019 21:08:12: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:08:12: #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 21:08:12: #1 tags after filtering in treatment: 9663193 INFO @ Sat, 24 Aug 2019 21:08:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:08:12: #1 finished! INFO @ Sat, 24 Aug 2019 21:08:12: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:08:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:08:13: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:08:13: 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 @ Sat, 24 Aug 2019 21:08:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.10_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/SRX5257234/SRX5257234.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:08:13: 8000000 INFO @ Sat, 24 Aug 2019 21:08:20: 9000000 INFO @ Sat, 24 Aug 2019 21:08:24: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:08:24: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:08:24: #1 total tags in treatment: 9663193 INFO @ Sat, 24 Aug 2019 21:08:24: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:08:24: #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 21:08:24: #1 tags after filtering in treatment: 9663193 INFO @ Sat, 24 Aug 2019 21:08:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:08:24: #1 finished! INFO @ Sat, 24 Aug 2019 21:08:24: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:08:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:08:25: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:08:25: 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 @ Sat, 24 Aug 2019 21:08:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.20_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/SRX5257234/SRX5257234.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257234/SRX5257234.20_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。