Job ID = 2640895 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 27,065,106 reads read : 54,130,212 reads written : 27,065,106 reads 0-length : 27,065,106 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: 00:04:35 27065106 reads; of these: 27065106 (100.00%) were unpaired; of these: 3289308 (12.15%) aligned 0 times 21144339 (78.12%) aligned exactly 1 time 2631459 (9.72%) aligned >1 times 87.85% overall alignment rate Time searching: 00:04:35 Overall time: 00:04:35 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] 11500290 / 23775798 = 0.4837 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:01:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.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 20:01:21: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:01:21: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:01:28: 1000000 INFO @ Sat, 24 Aug 2019 20:01:34: 2000000 INFO @ Sat, 24 Aug 2019 20:01:41: 3000000 INFO @ Sat, 24 Aug 2019 20:01:48: 4000000 INFO @ Sat, 24 Aug 2019 20:01:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.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 20:01:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:01:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:01:55: 5000000 INFO @ Sat, 24 Aug 2019 20:01:58: 1000000 INFO @ Sat, 24 Aug 2019 20:02:02: 6000000 INFO @ Sat, 24 Aug 2019 20:02:07: 2000000 INFO @ Sat, 24 Aug 2019 20:02:09: 7000000 INFO @ Sat, 24 Aug 2019 20:02:15: 3000000 INFO @ Sat, 24 Aug 2019 20:02:16: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:02:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.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 20:02:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:02:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:02:23: 9000000 INFO @ Sat, 24 Aug 2019 20:02:23: 4000000 INFO @ Sat, 24 Aug 2019 20:02:30: 1000000 INFO @ Sat, 24 Aug 2019 20:02:30: 10000000 INFO @ Sat, 24 Aug 2019 20:02:31: 5000000 INFO @ Sat, 24 Aug 2019 20:02:38: 11000000 INFO @ Sat, 24 Aug 2019 20:02:39: 2000000 INFO @ Sat, 24 Aug 2019 20:02:40: 6000000 INFO @ Sat, 24 Aug 2019 20:02:45: 12000000 INFO @ Sat, 24 Aug 2019 20:02:47: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:02:47: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:02:47: #1 total tags in treatment: 12275508 INFO @ Sat, 24 Aug 2019 20:02:47: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:02:47: #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 20:02:47: #1 tags after filtering in treatment: 12275508 INFO @ Sat, 24 Aug 2019 20:02:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:02:47: #1 finished! INFO @ Sat, 24 Aug 2019 20:02:47: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:02:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:02:48: 7000000 INFO @ Sat, 24 Aug 2019 20:02:48: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:02:48: 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 20:02:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.05_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/SRX3944381/SRX3944381.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:02:49: 3000000 INFO @ Sat, 24 Aug 2019 20:02:56: 8000000 INFO @ Sat, 24 Aug 2019 20:02:58: 4000000 INFO @ Sat, 24 Aug 2019 20:03:05: 9000000 INFO @ Sat, 24 Aug 2019 20:03:07: 5000000 INFO @ Sat, 24 Aug 2019 20:03:14: 10000000 INFO @ Sat, 24 Aug 2019 20:03:16: 6000000 INFO @ Sat, 24 Aug 2019 20:03:23: 11000000 INFO @ Sat, 24 Aug 2019 20:03:25: 7000000 INFO @ Sat, 24 Aug 2019 20:03:32: 12000000 INFO @ Sat, 24 Aug 2019 20:03:34: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:03:34: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:03:34: #1 total tags in treatment: 12275508 INFO @ Sat, 24 Aug 2019 20:03:34: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:03:34: #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 20:03:34: 8000000 INFO @ Sat, 24 Aug 2019 20:03:34: #1 tags after filtering in treatment: 12275508 INFO @ Sat, 24 Aug 2019 20:03:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:03:34: #1 finished! INFO @ Sat, 24 Aug 2019 20:03:34: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:03:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:03:35: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:03:35: 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 20:03:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.10_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/SRX3944381/SRX3944381.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:03:43: 9000000 INFO @ Sat, 24 Aug 2019 20:03:52: 10000000 INFO @ Sat, 24 Aug 2019 20:04:01: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 20:04:10: 12000000 INFO @ Sat, 24 Aug 2019 20:04:13: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:04:13: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:04:13: #1 total tags in treatment: 12275508 INFO @ Sat, 24 Aug 2019 20:04:13: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:04:13: #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 20:04:13: #1 tags after filtering in treatment: 12275508 INFO @ Sat, 24 Aug 2019 20:04:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:04:13: #1 finished! INFO @ Sat, 24 Aug 2019 20:04:13: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:04:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:04:14: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:04:14: 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 20:04:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.20_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/SRX3944381/SRX3944381.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944381/SRX3944381.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。