Job ID = 2640980 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 12,307,119 reads read : 24,614,238 reads written : 12,307,119 reads 0-length : 12,307,119 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: 00:02:08 12307119 reads; of these: 12307119 (100.00%) were unpaired; of these: 315148 (2.56%) aligned 0 times 10062142 (81.76%) aligned exactly 1 time 1929829 (15.68%) aligned >1 times 97.44% overall alignment rate Time searching: 00:02:08 Overall time: 00:02:08 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] 3728527 / 11991971 = 0.3109 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:18:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.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 20:18:55: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:18:55: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:19:02: 1000000 INFO @ Sat, 24 Aug 2019 20:19:08: 2000000 INFO @ Sat, 24 Aug 2019 20:19:15: 3000000 INFO @ Sat, 24 Aug 2019 20:19:21: 4000000 INFO @ Sat, 24 Aug 2019 20:19:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.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 20:19:25: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:19:25: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:19:27: 5000000 INFO @ Sat, 24 Aug 2019 20:19:32: 1000000 INFO @ Sat, 24 Aug 2019 20:19:33: 6000000 INFO @ Sat, 24 Aug 2019 20:19:38: 2000000 INFO @ Sat, 24 Aug 2019 20:19:40: 7000000 INFO @ Sat, 24 Aug 2019 20:19:45: 3000000 INFO @ Sat, 24 Aug 2019 20:19:46: 8000000 INFO @ Sat, 24 Aug 2019 20:19:47: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:19:47: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:19:47: #1 total tags in treatment: 8263444 INFO @ Sat, 24 Aug 2019 20:19:47: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:19:47: #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 20:19:48: #1 tags after filtering in treatment: 8263444 INFO @ Sat, 24 Aug 2019 20:19:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:19:48: #1 finished! INFO @ Sat, 24 Aug 2019 20:19:48: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:19:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:19:48: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:19:48: 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 20:19:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.05_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/SRX4908726/SRX4908726.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:19:51: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:19:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.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 20:19:55: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:19:55: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:19:57: 5000000 INFO @ Sat, 24 Aug 2019 20:20:03: 1000000 INFO @ Sat, 24 Aug 2019 20:20:03: 6000000 INFO @ Sat, 24 Aug 2019 20:20:10: 7000000 INFO @ Sat, 24 Aug 2019 20:20:11: 2000000 INFO @ Sat, 24 Aug 2019 20:20:16: 8000000 INFO @ Sat, 24 Aug 2019 20:20:18: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:20:18: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:20:18: #1 total tags in treatment: 8263444 INFO @ Sat, 24 Aug 2019 20:20:18: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:20:18: #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 20:20:18: #1 tags after filtering in treatment: 8263444 INFO @ Sat, 24 Aug 2019 20:20:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:20:18: #1 finished! INFO @ Sat, 24 Aug 2019 20:20:18: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:20:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:20:18: 3000000 INFO @ Sat, 24 Aug 2019 20:20:18: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:20:18: 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 20:20:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.10_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/SRX4908726/SRX4908726.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:20:25: 4000000 INFO @ Sat, 24 Aug 2019 20:20:32: 5000000 INFO @ Sat, 24 Aug 2019 20:20:39: 6000000 INFO @ Sat, 24 Aug 2019 20:20:46: 7000000 INFO @ Sat, 24 Aug 2019 20:20:53: 8000000 INFO @ Sat, 24 Aug 2019 20:20:55: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:20:55: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:20:55: #1 total tags in treatment: 8263444 INFO @ Sat, 24 Aug 2019 20:20:55: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:20:55: #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 20:20:55: #1 tags after filtering in treatment: 8263444 INFO @ Sat, 24 Aug 2019 20:20:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:20:55: #1 finished! INFO @ Sat, 24 Aug 2019 20:20:55: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:20:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:20:55: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:20:55: 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 20:20:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.20_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/SRX4908726/SRX4908726.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4908726/SRX4908726.20_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。