Job ID = 2010312 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 60,712,007 reads read : 121,424,014 reads written : 60,712,007 reads 0-length : 60,712,007 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: 00:09:51 60712007 reads; of these: 60712007 (100.00%) were unpaired; of these: 5712632 (9.41%) aligned 0 times 43969617 (72.42%) aligned exactly 1 time 11029758 (18.17%) aligned >1 times 90.59% overall alignment rate Time searching: 00:09:51 Overall time: 00:09:51 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 24 files... [bam_rmdupse_core] 36325504 / 54999375 = 0.6605 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Fri, 05 Jul 2019 22:46:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.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 @ Fri, 05 Jul 2019 22:46:02: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:46:02: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:46:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.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 @ Fri, 05 Jul 2019 22:46:03: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:46:03: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:46:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.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 @ Fri, 05 Jul 2019 22:46:04: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:46:04: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:46:11: 1000000 INFO @ Fri, 05 Jul 2019 22:46:13: 1000000 INFO @ Fri, 05 Jul 2019 22:46:13: 1000000 INFO @ Fri, 05 Jul 2019 22:46:20: 2000000 INFO @ Fri, 05 Jul 2019 22:46:22: 2000000 INFO @ Fri, 05 Jul 2019 22:46:22: 2000000 INFO @ Fri, 05 Jul 2019 22:46:29: 3000000 INFO @ Fri, 05 Jul 2019 22:46:30: 3000000 INFO @ Fri, 05 Jul 2019 22:46:31: 3000000 INFO @ Fri, 05 Jul 2019 22:46:38: 4000000 INFO @ Fri, 05 Jul 2019 22:46:39: 4000000 INFO @ Fri, 05 Jul 2019 22:46:39: 4000000 INFO @ Fri, 05 Jul 2019 22:46:46: 5000000 INFO @ Fri, 05 Jul 2019 22:46:48: 5000000 INFO @ Fri, 05 Jul 2019 22:46:48: 5000000 INFO @ Fri, 05 Jul 2019 22:46:56: 6000000 INFO @ Fri, 05 Jul 2019 22:46:56: 6000000 INFO @ Fri, 05 Jul 2019 22:46:56: 6000000 INFO @ Fri, 05 Jul 2019 22:47:05: 7000000 INFO @ Fri, 05 Jul 2019 22:47:05: 7000000 INFO @ Fri, 05 Jul 2019 22:47:05: 7000000 INFO @ Fri, 05 Jul 2019 22:47:14: 8000000 INFO @ Fri, 05 Jul 2019 22:47:14: 8000000 INFO @ Fri, 05 Jul 2019 22:47:14: 8000000 INFO @ Fri, 05 Jul 2019 22:47:22: 9000000 INFO @ Fri, 05 Jul 2019 22:47:23: 9000000 INFO @ Fri, 05 Jul 2019 22:47:23: 9000000 INFO @ Fri, 05 Jul 2019 22:47:31: 10000000 INFO @ Fri, 05 Jul 2019 22:47:31: 10000000 INFO @ Fri, 05 Jul 2019 22:47:31: 10000000 INFO @ Fri, 05 Jul 2019 22:47:40: 11000000 INFO @ Fri, 05 Jul 2019 22:47:40: 11000000 INFO @ Fri, 05 Jul 2019 22:47:40: 11000000 INFO @ Fri, 05 Jul 2019 22:47:48: 12000000 INFO @ Fri, 05 Jul 2019 22:47:48: 12000000 INFO @ Fri, 05 Jul 2019 22:47:49: 12000000 INFO @ Fri, 05 Jul 2019 22:47:56: 13000000 INFO @ Fri, 05 Jul 2019 22:47:57: 13000000 INFO @ Fri, 05 Jul 2019 22:47:58: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 22:48:05: 14000000 INFO @ Fri, 05 Jul 2019 22:48:06: 14000000 INFO @ Fri, 05 Jul 2019 22:48:07: 14000000 INFO @ Fri, 05 Jul 2019 22:48:13: 15000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 22:48:14: 15000000 INFO @ Fri, 05 Jul 2019 22:48:15: 15000000 INFO @ Fri, 05 Jul 2019 22:48:22: 16000000 INFO @ Fri, 05 Jul 2019 22:48:22: 16000000 INFO @ Fri, 05 Jul 2019 22:48:24: 16000000 INFO @ Fri, 05 Jul 2019 22:48:31: 17000000 INFO @ Fri, 05 Jul 2019 22:48:32: 17000000 INFO @ Fri, 05 Jul 2019 22:48:33: 17000000 INFO @ Fri, 05 Jul 2019 22:48:39: 18000000 INFO @ Fri, 05 Jul 2019 22:48:40: 18000000 INFO @ Fri, 05 Jul 2019 22:48:44: 18000000 INFO @ Fri, 05 Jul 2019 22:48:44: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:48:44: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:48:44: #1 total tags in treatment: 18673871 INFO @ Fri, 05 Jul 2019 22:48:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:48:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:48:45: #1 tags after filtering in treatment: 18673871 INFO @ Fri, 05 Jul 2019 22:48:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:48:45: #1 finished! INFO @ Fri, 05 Jul 2019 22:48:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:48:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:48:46: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:48:46: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:48:46: #1 total tags in treatment: 18673871 INFO @ Fri, 05 Jul 2019 22:48:46: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:48:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:48:46: #1 tags after filtering in treatment: 18673871 INFO @ Fri, 05 Jul 2019 22:48:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:48:46: #1 finished! INFO @ Fri, 05 Jul 2019 22:48:46: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:48:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:48:46: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:48:46: 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 @ Fri, 05 Jul 2019 22:48:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.20_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/SRX3334037/SRX3334037.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:48:47: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:48:47: 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 @ Fri, 05 Jul 2019 22:48:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.10_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/SRX3334037/SRX3334037.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:48:50: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:48:50: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:48:50: #1 total tags in treatment: 18673871 INFO @ Fri, 05 Jul 2019 22:48:50: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:48:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:48:50: #1 tags after filtering in treatment: 18673871 INFO @ Fri, 05 Jul 2019 22:48:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:48:50: #1 finished! INFO @ Fri, 05 Jul 2019 22:48:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:48:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:48:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:48:51: 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 @ Fri, 05 Jul 2019 22:48:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.05_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/SRX3334037/SRX3334037.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334037/SRX3334037.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling