Job ID = 4289285 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 41,535,153 reads read : 83,070,306 reads written : 41,535,153 reads 0-length : 41,535,153 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: 00:07:44 41535153 reads; of these: 41535153 (100.00%) were unpaired; of these: 1017224 (2.45%) aligned 0 times 31994300 (77.03%) aligned exactly 1 time 8523629 (20.52%) aligned >1 times 97.55% overall alignment rate Time searching: 00:07:44 Overall time: 00:07:44 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 20 files... [bam_rmdupse_core] 24334987 / 40517929 = 0.6006 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:23:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.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 14:23:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:23:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:23:08: 1000000 INFO @ Tue, 10 Dec 2019 14:23:15: 2000000 INFO @ Tue, 10 Dec 2019 14:23:23: 3000000 INFO @ Tue, 10 Dec 2019 14:23:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.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 14:23:30: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:23:30: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:23:30: 4000000 INFO @ Tue, 10 Dec 2019 14:23:38: 5000000 INFO @ Tue, 10 Dec 2019 14:23:39: 1000000 INFO @ Tue, 10 Dec 2019 14:23:45: 6000000 INFO @ Tue, 10 Dec 2019 14:23:48: 2000000 INFO @ Tue, 10 Dec 2019 14:23:52: 7000000 INFO @ Tue, 10 Dec 2019 14:23:56: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:24:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.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 14:24:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:24:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:24:00: 8000000 INFO @ Tue, 10 Dec 2019 14:24:03: 4000000 INFO @ Tue, 10 Dec 2019 14:24:07: 9000000 INFO @ Tue, 10 Dec 2019 14:24:09: 1000000 INFO @ Tue, 10 Dec 2019 14:24:11: 5000000 INFO @ Tue, 10 Dec 2019 14:24:15: 10000000 INFO @ Tue, 10 Dec 2019 14:24:18: 2000000 INFO @ Tue, 10 Dec 2019 14:24:18: 6000000 INFO @ Tue, 10 Dec 2019 14:24:22: 11000000 INFO @ Tue, 10 Dec 2019 14:24:26: 7000000 INFO @ Tue, 10 Dec 2019 14:24:27: 3000000 INFO @ Tue, 10 Dec 2019 14:24:30: 12000000 INFO @ Tue, 10 Dec 2019 14:24:34: 8000000 INFO @ Tue, 10 Dec 2019 14:24:36: 4000000 INFO @ Tue, 10 Dec 2019 14:24:37: 13000000 INFO @ Tue, 10 Dec 2019 14:24:41: 9000000 INFO @ Tue, 10 Dec 2019 14:24:44: 14000000 INFO @ Tue, 10 Dec 2019 14:24:45: 5000000 INFO @ Tue, 10 Dec 2019 14:24:49: 10000000 INFO @ Tue, 10 Dec 2019 14:24:52: 15000000 INFO @ Tue, 10 Dec 2019 14:24:54: 6000000 INFO @ Tue, 10 Dec 2019 14:24:57: 11000000 INFO @ Tue, 10 Dec 2019 14:24:59: 16000000 INFO @ Tue, 10 Dec 2019 14:25:00: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:25:00: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:25:00: #1 total tags in treatment: 16182942 INFO @ Tue, 10 Dec 2019 14:25:00: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:25:00: #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 14:25:01: #1 tags after filtering in treatment: 16182942 INFO @ Tue, 10 Dec 2019 14:25:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:25:01: #1 finished! INFO @ Tue, 10 Dec 2019 14:25:01: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:25:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:25:02: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:25:02: 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 14:25:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.05_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/SRX6635436/SRX6635436.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:25:03: 7000000 INFO @ Tue, 10 Dec 2019 14:25:04: 12000000 INFO @ Tue, 10 Dec 2019 14:25:11: 8000000 INFO @ Tue, 10 Dec 2019 14:25:11: 13000000 INFO @ Tue, 10 Dec 2019 14:25:19: 14000000 INFO @ Tue, 10 Dec 2019 14:25:19: 9000000 INFO @ Tue, 10 Dec 2019 14:25:26: 15000000 INFO @ Tue, 10 Dec 2019 14:25:27: 10000000 INFO @ Tue, 10 Dec 2019 14:25:33: 16000000 INFO @ Tue, 10 Dec 2019 14:25:34: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:25:34: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:25:34: #1 total tags in treatment: 16182942 INFO @ Tue, 10 Dec 2019 14:25:34: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:25:34: #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 14:25:34: #1 tags after filtering in treatment: 16182942 INFO @ Tue, 10 Dec 2019 14:25:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:25:34: #1 finished! INFO @ Tue, 10 Dec 2019 14:25:34: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:25:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:25:35: 11000000 INFO @ Tue, 10 Dec 2019 14:25:36: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:25:36: 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 14:25:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.10_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/SRX6635436/SRX6635436.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:25:42: 12000000 INFO @ Tue, 10 Dec 2019 14:25:50: 13000000 INFO @ Tue, 10 Dec 2019 14:25:58: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:26:05: 15000000 INFO @ Tue, 10 Dec 2019 14:26:13: 16000000 INFO @ Tue, 10 Dec 2019 14:26:15: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:26:15: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:26:15: #1 total tags in treatment: 16182942 INFO @ Tue, 10 Dec 2019 14:26:15: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:26:15: #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 14:26:15: #1 tags after filtering in treatment: 16182942 INFO @ Tue, 10 Dec 2019 14:26:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:26:15: #1 finished! INFO @ Tue, 10 Dec 2019 14:26:15: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:26:15: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 10 Dec 2019 14:26:16: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:26:16: 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 14:26:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.20_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/SRX6635436/SRX6635436.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635436/SRX6635436.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling