Job ID = 2640863 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 23,350,963 reads read : 46,701,926 reads written : 23,350,963 reads 0-length : 23,350,963 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: 00:04:09 23350963 reads; of these: 23350963 (100.00%) were unpaired; of these: 4028431 (17.25%) aligned 0 times 17252342 (73.88%) aligned exactly 1 time 2070190 (8.87%) aligned >1 times 82.75% overall alignment rate Time searching: 00:04:09 Overall time: 00:04:09 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] 8811383 / 19322532 = 0.4560 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:48:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.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 19:48:47: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:48:47: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:48:53: 1000000 INFO @ Sat, 24 Aug 2019 19:48:59: 2000000 INFO @ Sat, 24 Aug 2019 19:49:05: 3000000 INFO @ Sat, 24 Aug 2019 19:49:11: 4000000 INFO @ Sat, 24 Aug 2019 19:49:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.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 19:49:17: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:17: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:49:17: 5000000 INFO @ Sat, 24 Aug 2019 19:49:23: 6000000 INFO @ Sat, 24 Aug 2019 19:49:23: 1000000 INFO @ Sat, 24 Aug 2019 19:49:29: 7000000 INFO @ Sat, 24 Aug 2019 19:49:30: 2000000 INFO @ Sat, 24 Aug 2019 19:49:35: 8000000 INFO @ Sat, 24 Aug 2019 19:49:37: 3000000 INFO @ Sat, 24 Aug 2019 19:49:41: 9000000 INFO @ Sat, 24 Aug 2019 19:49:43: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:49:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.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 19:49:47: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:47: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:49:47: 10000000 INFO @ Sat, 24 Aug 2019 19:49:50: 5000000 INFO @ Sat, 24 Aug 2019 19:49:50: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:49:50: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:49:50: #1 total tags in treatment: 10511149 INFO @ Sat, 24 Aug 2019 19:49:50: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:49:50: #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 19:49:51: #1 tags after filtering in treatment: 10511149 INFO @ Sat, 24 Aug 2019 19:49:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:49:51: #1 finished! INFO @ Sat, 24 Aug 2019 19:49:51: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:49:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:49:51: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:49:51: 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 19:49:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.05_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/SRX3944359/SRX3944359.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:49:53: 1000000 INFO @ Sat, 24 Aug 2019 19:49:56: 6000000 INFO @ Sat, 24 Aug 2019 19:50:00: 2000000 INFO @ Sat, 24 Aug 2019 19:50:03: 7000000 INFO @ Sat, 24 Aug 2019 19:50:06: 3000000 INFO @ Sat, 24 Aug 2019 19:50:09: 8000000 INFO @ Sat, 24 Aug 2019 19:50:13: 4000000 INFO @ Sat, 24 Aug 2019 19:50:16: 9000000 INFO @ Sat, 24 Aug 2019 19:50:19: 5000000 INFO @ Sat, 24 Aug 2019 19:50:22: 10000000 INFO @ Sat, 24 Aug 2019 19:50:26: 6000000 INFO @ Sat, 24 Aug 2019 19:50:26: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:50:26: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:50:26: #1 total tags in treatment: 10511149 INFO @ Sat, 24 Aug 2019 19:50:26: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:50:26: #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 19:50:26: #1 tags after filtering in treatment: 10511149 INFO @ Sat, 24 Aug 2019 19:50:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:50:26: #1 finished! INFO @ Sat, 24 Aug 2019 19:50:26: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:50:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:50:27: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:50:27: 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 19:50:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.10_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/SRX3944359/SRX3944359.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:50:32: 7000000 INFO @ Sat, 24 Aug 2019 19:50:39: 8000000 INFO @ Sat, 24 Aug 2019 19:50:45: 9000000 INFO @ Sat, 24 Aug 2019 19:50:52: 10000000 INFO @ Sat, 24 Aug 2019 19:50:55: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:50:55: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:50:55: #1 total tags in treatment: 10511149 INFO @ Sat, 24 Aug 2019 19:50:55: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:50:55: #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 19:50:55: #1 tags after filtering in treatment: 10511149 INFO @ Sat, 24 Aug 2019 19:50:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:50:55: #1 finished! INFO @ Sat, 24 Aug 2019 19:50:55: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:50:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:50:56: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:50:56: 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 19:50:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.20_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/SRX3944359/SRX3944359.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944359/SRX3944359.20_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。