Job ID = 4289354 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 25,543,241 reads read : 25,543,241 reads written : 25,543,241 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: 00:05:09 25543241 reads; of these: 25543241 (100.00%) were unpaired; of these: 996931 (3.90%) aligned 0 times 21929916 (85.85%) aligned exactly 1 time 2616394 (10.24%) aligned >1 times 96.10% overall alignment rate Time searching: 00:05:09 Overall time: 00:05:09 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 12 files... [bam_rmdupse_core] 12205016 / 24546310 = 0.4972 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:36:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.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 14:36:04: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:36:04: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:36:12: 1000000 INFO @ Tue, 10 Dec 2019 14:36:19: 2000000 INFO @ Tue, 10 Dec 2019 14:36:27: 3000000 INFO @ Tue, 10 Dec 2019 14:36:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.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 14:36:34: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:36:34: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:36:35: 4000000 INFO @ Tue, 10 Dec 2019 14:36:44: 5000000 INFO @ Tue, 10 Dec 2019 14:36:44: 1000000 INFO @ Tue, 10 Dec 2019 14:36:52: 6000000 INFO @ Tue, 10 Dec 2019 14:36:53: 2000000 INFO @ Tue, 10 Dec 2019 14:37:00: 7000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:37:02: 3000000 INFO @ Tue, 10 Dec 2019 14:37:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.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 14:37:04: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:37:04: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:37:09: 8000000 INFO @ Tue, 10 Dec 2019 14:37:12: 4000000 INFO @ Tue, 10 Dec 2019 14:37:15: 1000000 INFO @ Tue, 10 Dec 2019 14:37:18: 9000000 INFO @ Tue, 10 Dec 2019 14:37:21: 5000000 INFO @ Tue, 10 Dec 2019 14:37:25: 2000000 INFO @ Tue, 10 Dec 2019 14:37:27: 10000000 INFO @ Tue, 10 Dec 2019 14:37:31: 6000000 INFO @ Tue, 10 Dec 2019 14:37:35: 11000000 INFO @ Tue, 10 Dec 2019 14:37:36: 3000000 INFO @ Tue, 10 Dec 2019 14:37:40: 7000000 INFO @ Tue, 10 Dec 2019 14:37:44: 12000000 INFO @ Tue, 10 Dec 2019 14:37:47: 4000000 INFO @ Tue, 10 Dec 2019 14:37:47: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:37:47: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:37:47: #1 total tags in treatment: 12341294 INFO @ Tue, 10 Dec 2019 14:37:47: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:37:47: #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 14:37:47: #1 tags after filtering in treatment: 12341294 INFO @ Tue, 10 Dec 2019 14:37:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:37:47: #1 finished! INFO @ Tue, 10 Dec 2019 14:37:47: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:37:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:37:48: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:37:48: 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 @ Tue, 10 Dec 2019 14:37:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.05_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/SRX6678250/SRX6678250.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:37:50: 8000000 INFO @ Tue, 10 Dec 2019 14:37:57: 5000000 INFO @ Tue, 10 Dec 2019 14:37:59: 9000000 INFO @ Tue, 10 Dec 2019 14:38:07: 6000000 INFO @ Tue, 10 Dec 2019 14:38:08: 10000000 INFO @ Tue, 10 Dec 2019 14:38:18: 11000000 INFO @ Tue, 10 Dec 2019 14:38:18: 7000000 INFO @ Tue, 10 Dec 2019 14:38:27: 12000000 INFO @ Tue, 10 Dec 2019 14:38:28: 8000000 INFO @ Tue, 10 Dec 2019 14:38:30: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:38:30: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:38:30: #1 total tags in treatment: 12341294 INFO @ Tue, 10 Dec 2019 14:38:30: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:38:30: #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 14:38:30: #1 tags after filtering in treatment: 12341294 INFO @ Tue, 10 Dec 2019 14:38:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:38:30: #1 finished! INFO @ Tue, 10 Dec 2019 14:38:30: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:38:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:38:31: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:38:31: 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 14:38:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.10_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/SRX6678250/SRX6678250.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:38:38: 9000000 INFO @ Tue, 10 Dec 2019 14:38:48: 10000000 INFO @ Tue, 10 Dec 2019 14:38:58: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:39:09: 12000000 INFO @ Tue, 10 Dec 2019 14:39:12: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:39:12: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:39:12: #1 total tags in treatment: 12341294 INFO @ Tue, 10 Dec 2019 14:39:12: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:39:12: #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 14:39:12: #1 tags after filtering in treatment: 12341294 INFO @ Tue, 10 Dec 2019 14:39:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:39:12: #1 finished! INFO @ Tue, 10 Dec 2019 14:39:12: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:39:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:39:13: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:39:13: 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 14:39:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.20_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/SRX6678250/SRX6678250.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678250/SRX6678250.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。