Job ID = 2011006 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 33,404,623 reads read : 66,809,246 reads written : 33,404,623 reads 0-length : 33,404,623 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: 00:06:23 33404623 reads; of these: 33404623 (100.00%) were unpaired; of these: 2362526 (7.07%) aligned 0 times 26875835 (80.46%) aligned exactly 1 time 4166262 (12.47%) aligned >1 times 92.93% overall alignment rate Time searching: 00:06:23 Overall time: 00:06:23 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 16 files... [bam_rmdupse_core] 18001887 / 31042097 = 0.5799 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 @ Sat, 06 Jul 2019 02:00:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.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, 06 Jul 2019 02:00:31: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:00:31: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:00:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.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, 06 Jul 2019 02:00:32: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:00:32: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:00:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.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, 06 Jul 2019 02:00:33: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:00:33: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:00:42: 1000000 INFO @ Sat, 06 Jul 2019 02:00:43: 1000000 INFO @ Sat, 06 Jul 2019 02:00:45: 1000000 INFO @ Sat, 06 Jul 2019 02:00:54: 2000000 INFO @ Sat, 06 Jul 2019 02:00:54: 2000000 INFO @ Sat, 06 Jul 2019 02:00:56: 2000000 INFO @ Sat, 06 Jul 2019 02:01:04: 3000000 INFO @ Sat, 06 Jul 2019 02:01:04: 3000000 INFO @ Sat, 06 Jul 2019 02:01:06: 3000000 INFO @ Sat, 06 Jul 2019 02:01:13: 4000000 INFO @ Sat, 06 Jul 2019 02:01:14: 4000000 INFO @ Sat, 06 Jul 2019 02:01:14: 4000000 INFO @ Sat, 06 Jul 2019 02:01:24: 5000000 INFO @ Sat, 06 Jul 2019 02:01:25: 5000000 INFO @ Sat, 06 Jul 2019 02:01:26: 5000000 INFO @ Sat, 06 Jul 2019 02:01:35: 6000000 INFO @ Sat, 06 Jul 2019 02:01:36: 6000000 INFO @ Sat, 06 Jul 2019 02:01:37: 6000000 INFO @ Sat, 06 Jul 2019 02:01:44: 7000000 INFO @ Sat, 06 Jul 2019 02:01:46: 7000000 INFO @ Sat, 06 Jul 2019 02:01:48: 7000000 INFO @ Sat, 06 Jul 2019 02:01:53: 8000000 INFO @ Sat, 06 Jul 2019 02:01:57: 8000000 INFO @ Sat, 06 Jul 2019 02:01:58: 8000000 INFO @ Sat, 06 Jul 2019 02:02:02: 9000000 INFO @ Sat, 06 Jul 2019 02:02:08: 9000000 INFO @ Sat, 06 Jul 2019 02:02:09: 9000000 INFO @ Sat, 06 Jul 2019 02:02:12: 10000000 INFO @ Sat, 06 Jul 2019 02:02:19: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:02:20: 10000000 INFO @ Sat, 06 Jul 2019 02:02:22: 11000000 INFO @ Sat, 06 Jul 2019 02:02:31: 11000000 INFO @ Sat, 06 Jul 2019 02:02:32: 11000000 INFO @ Sat, 06 Jul 2019 02:02:32: 12000000 INFO @ Sat, 06 Jul 2019 02:02:41: 13000000 INFO @ Sat, 06 Jul 2019 02:02:41: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:02:41: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:02:41: #1 total tags in treatment: 13040210 INFO @ Sat, 06 Jul 2019 02:02:41: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:02:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:02:41: #1 tags after filtering in treatment: 13040210 INFO @ Sat, 06 Jul 2019 02:02:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:02:41: #1 finished! INFO @ Sat, 06 Jul 2019 02:02:41: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:02:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:02:41: 12000000 INFO @ Sat, 06 Jul 2019 02:02:42: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:02:42: 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, 06 Jul 2019 02:02:42: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 02:02:43: 12000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.10_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/SRX4409374/SRX4409374.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:02:50: 13000000 INFO @ Sat, 06 Jul 2019 02:02:51: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:02:51: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:02:51: #1 total tags in treatment: 13040210 INFO @ Sat, 06 Jul 2019 02:02:51: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:02:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:02:51: #1 tags after filtering in treatment: 13040210 INFO @ Sat, 06 Jul 2019 02:02:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:02:51: #1 finished! INFO @ Sat, 06 Jul 2019 02:02:51: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:02:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:02:52: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:02:52: 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, 06 Jul 2019 02:02:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.05_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/SRX4409374/SRX4409374.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:02:52: 13000000 INFO @ Sat, 06 Jul 2019 02:02:53: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:02:53: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:02:53: #1 total tags in treatment: 13040210 INFO @ Sat, 06 Jul 2019 02:02:53: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:02:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:02:53: #1 tags after filtering in treatment: 13040210 INFO @ Sat, 06 Jul 2019 02:02:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:02:53: #1 finished! INFO @ Sat, 06 Jul 2019 02:02:53: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:02:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:02:54: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:02:54: 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, 06 Jul 2019 02:02:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.20_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/SRX4409374/SRX4409374.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409374/SRX4409374.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。