Job ID = 4289283 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 34,643,658 reads read : 69,287,316 reads written : 34,643,658 reads 0-length : 34,643,658 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: 00:05:58 34643658 reads; of these: 34643658 (100.00%) were unpaired; of these: 1648981 (4.76%) aligned 0 times 25595322 (73.88%) aligned exactly 1 time 7399355 (21.36%) aligned >1 times 95.24% overall alignment rate Time searching: 00:05:58 Overall time: 00:05:58 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] 18814098 / 32994677 = 0.5702 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:17:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.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 14:17:21: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:17:21: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:17:30: 1000000 INFO @ Tue, 10 Dec 2019 14:17:39: 2000000 INFO @ Tue, 10 Dec 2019 14:17:48: 3000000 INFO @ Tue, 10 Dec 2019 14:17:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.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 14:17:51: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:17:51: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:17:57: 4000000 INFO @ Tue, 10 Dec 2019 14:17:59: 1000000 INFO @ Tue, 10 Dec 2019 14:18:06: 5000000 INFO @ Tue, 10 Dec 2019 14:18:06: 2000000 INFO @ Tue, 10 Dec 2019 14:18:14: 3000000 INFO @ Tue, 10 Dec 2019 14:18:15: 6000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:18:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.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 14:18:21: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:18:21: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:18:21: 4000000 INFO @ Tue, 10 Dec 2019 14:18:24: 7000000 INFO @ Tue, 10 Dec 2019 14:18:28: 5000000 INFO @ Tue, 10 Dec 2019 14:18:31: 1000000 INFO @ Tue, 10 Dec 2019 14:18:34: 8000000 INFO @ Tue, 10 Dec 2019 14:18:36: 6000000 INFO @ Tue, 10 Dec 2019 14:18:41: 2000000 INFO @ Tue, 10 Dec 2019 14:18:42: 9000000 INFO @ Tue, 10 Dec 2019 14:18:43: 7000000 INFO @ Tue, 10 Dec 2019 14:18:51: 10000000 INFO @ Tue, 10 Dec 2019 14:18:51: 8000000 INFO @ Tue, 10 Dec 2019 14:18:51: 3000000 INFO @ Tue, 10 Dec 2019 14:18:58: 9000000 INFO @ Tue, 10 Dec 2019 14:18:59: 11000000 INFO @ Tue, 10 Dec 2019 14:19:02: 4000000 INFO @ Tue, 10 Dec 2019 14:19:05: 10000000 INFO @ Tue, 10 Dec 2019 14:19:08: 12000000 INFO @ Tue, 10 Dec 2019 14:19:12: 5000000 INFO @ Tue, 10 Dec 2019 14:19:13: 11000000 INFO @ Tue, 10 Dec 2019 14:19:17: 13000000 INFO @ Tue, 10 Dec 2019 14:19:20: 12000000 INFO @ Tue, 10 Dec 2019 14:19:23: 6000000 INFO @ Tue, 10 Dec 2019 14:19:25: 14000000 INFO @ Tue, 10 Dec 2019 14:19:27: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:19:27: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:19:27: #1 total tags in treatment: 14180579 INFO @ Tue, 10 Dec 2019 14:19:27: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:19:27: #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 14:19:27: #1 tags after filtering in treatment: 14180579 INFO @ Tue, 10 Dec 2019 14:19:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:19:27: #1 finished! INFO @ Tue, 10 Dec 2019 14:19:27: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:19:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:19:27: 13000000 INFO @ Tue, 10 Dec 2019 14:19:28: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:19:28: 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 14:19:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.05_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/SRX6635434/SRX6635434.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:19:33: 7000000 INFO @ Tue, 10 Dec 2019 14:19:34: 14000000 INFO @ Tue, 10 Dec 2019 14:19:36: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:19:36: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:19:36: #1 total tags in treatment: 14180579 INFO @ Tue, 10 Dec 2019 14:19:36: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:19:36: #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 14:19:36: #1 tags after filtering in treatment: 14180579 INFO @ Tue, 10 Dec 2019 14:19:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:19:36: #1 finished! INFO @ Tue, 10 Dec 2019 14:19:36: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:19:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:19:37: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:19:37: 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 14:19:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.10_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/SRX6635434/SRX6635434.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:19:44: 8000000 INFO @ Tue, 10 Dec 2019 14:19:54: 9000000 INFO @ Tue, 10 Dec 2019 14:20:03: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:20:13: 11000000 INFO @ Tue, 10 Dec 2019 14:20:22: 12000000 BigWig に変換しました。 INFO @ Tue, 10 Dec 2019 14:20:32: 13000000 INFO @ Tue, 10 Dec 2019 14:20:41: 14000000 INFO @ Tue, 10 Dec 2019 14:20:43: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:20:43: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:20:43: #1 total tags in treatment: 14180579 INFO @ Tue, 10 Dec 2019 14:20:43: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:20:43: #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 14:20:43: #1 tags after filtering in treatment: 14180579 INFO @ Tue, 10 Dec 2019 14:20:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:20:43: #1 finished! INFO @ Tue, 10 Dec 2019 14:20:43: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:20:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:20:44: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:20:44: 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 14:20:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.20_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/SRX6635434/SRX6635434.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635434/SRX6635434.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling