Job ID = 4289158 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 29,569,642 reads read : 59,139,284 reads written : 29,569,642 reads 0-length : 29,569,642 spots read : 28,749,262 reads read : 57,498,524 reads written : 28,749,262 reads 0-length : 28,749,262 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: 00:07:29 58318904 reads; of these: 58318904 (100.00%) were unpaired; of these: 23099012 (39.61%) aligned 0 times 25420999 (43.59%) aligned exactly 1 time 9798893 (16.80%) aligned >1 times 60.39% overall alignment rate Time searching: 00:07:29 Overall time: 00:07:29 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] 20585347 / 35219892 = 0.5845 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:13:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.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 @ Tue, 10 Dec 2019 14:13:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:13:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:13:06: 1000000 INFO @ Tue, 10 Dec 2019 14:13:14: 2000000 INFO @ Tue, 10 Dec 2019 14:13:21: 3000000 INFO @ Tue, 10 Dec 2019 14:13:28: 4000000 INFO @ Tue, 10 Dec 2019 14:13:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.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 @ Tue, 10 Dec 2019 14:13:28: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:13:28: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:13:35: 5000000 INFO @ Tue, 10 Dec 2019 14:13:35: 1000000 INFO @ Tue, 10 Dec 2019 14:13:42: 6000000 INFO @ Tue, 10 Dec 2019 14:13:42: 2000000 INFO @ Tue, 10 Dec 2019 14:13:49: 7000000 INFO @ Tue, 10 Dec 2019 14:13:50: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:13:56: 8000000 INFO @ Tue, 10 Dec 2019 14:13:57: 4000000 INFO @ Tue, 10 Dec 2019 14:13:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.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 @ Tue, 10 Dec 2019 14:13:58: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:13:58: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:14:04: 9000000 INFO @ Tue, 10 Dec 2019 14:14:04: 5000000 INFO @ Tue, 10 Dec 2019 14:14:07: 1000000 INFO @ Tue, 10 Dec 2019 14:14:11: 6000000 INFO @ Tue, 10 Dec 2019 14:14:11: 10000000 INFO @ Tue, 10 Dec 2019 14:14:17: 2000000 INFO @ Tue, 10 Dec 2019 14:14:18: 7000000 INFO @ Tue, 10 Dec 2019 14:14:19: 11000000 INFO @ Tue, 10 Dec 2019 14:14:25: 8000000 INFO @ Tue, 10 Dec 2019 14:14:26: 3000000 INFO @ Tue, 10 Dec 2019 14:14:26: 12000000 INFO @ Tue, 10 Dec 2019 14:14:33: 9000000 INFO @ Tue, 10 Dec 2019 14:14:33: 13000000 INFO @ Tue, 10 Dec 2019 14:14:35: 4000000 INFO @ Tue, 10 Dec 2019 14:14:40: 10000000 INFO @ Tue, 10 Dec 2019 14:14:40: 14000000 INFO @ Tue, 10 Dec 2019 14:14:44: 5000000 INFO @ Tue, 10 Dec 2019 14:14:45: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:14:45: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:14:45: #1 total tags in treatment: 14634545 INFO @ Tue, 10 Dec 2019 14:14:45: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:14:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:14:45: #1 tags after filtering in treatment: 14634545 INFO @ Tue, 10 Dec 2019 14:14:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:14:45: #1 finished! INFO @ Tue, 10 Dec 2019 14:14:45: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:14:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:14:46: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:14:46: 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 @ Tue, 10 Dec 2019 14:14:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.05_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/SRX6616772/SRX6616772.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:14:47: 11000000 INFO @ Tue, 10 Dec 2019 14:14:53: 6000000 INFO @ Tue, 10 Dec 2019 14:14:55: 12000000 INFO @ Tue, 10 Dec 2019 14:15:02: 7000000 INFO @ Tue, 10 Dec 2019 14:15:02: 13000000 INFO @ Tue, 10 Dec 2019 14:15:09: 14000000 INFO @ Tue, 10 Dec 2019 14:15:11: 8000000 INFO @ Tue, 10 Dec 2019 14:15:13: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:15:13: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:15:13: #1 total tags in treatment: 14634545 INFO @ Tue, 10 Dec 2019 14:15:13: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:15:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:15:14: #1 tags after filtering in treatment: 14634545 INFO @ Tue, 10 Dec 2019 14:15:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:15:14: #1 finished! INFO @ Tue, 10 Dec 2019 14:15:14: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:15:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:15:15: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:15:15: 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 @ Tue, 10 Dec 2019 14:15:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.10_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/SRX6616772/SRX6616772.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:15:19: 9000000 INFO @ Tue, 10 Dec 2019 14:15:27: 10000000 INFO @ Tue, 10 Dec 2019 14:15:36: 11000000 INFO @ Tue, 10 Dec 2019 14:15:44: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:15:52: 13000000 INFO @ Tue, 10 Dec 2019 14:16:01: 14000000 BigWig に変換しました。 INFO @ Tue, 10 Dec 2019 14:16:06: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:16:06: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:16:06: #1 total tags in treatment: 14634545 INFO @ Tue, 10 Dec 2019 14:16:06: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:16:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:16:06: #1 tags after filtering in treatment: 14634545 INFO @ Tue, 10 Dec 2019 14:16:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:16:06: #1 finished! INFO @ Tue, 10 Dec 2019 14:16:06: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:16:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:16:07: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:16:07: 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 @ Tue, 10 Dec 2019 14:16:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.20_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/SRX6616772/SRX6616772.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6616772/SRX6616772.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling