Job ID = 4289284 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 40,922,693 reads read : 81,845,386 reads written : 40,922,693 reads 0-length : 40,922,693 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: 00:07:26 40922693 reads; of these: 40922693 (100.00%) were unpaired; of these: 728975 (1.78%) aligned 0 times 31543478 (77.08%) aligned exactly 1 time 8650240 (21.14%) aligned >1 times 98.22% overall alignment rate Time searching: 00:07:26 Overall time: 00:07:26 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] 24278960 / 40193718 = 0.6040 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:22:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.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 14:22:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:22:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:22:09: 1000000 INFO @ Tue, 10 Dec 2019 14:22:17: 2000000 INFO @ Tue, 10 Dec 2019 14:22:25: 3000000 INFO @ Tue, 10 Dec 2019 14:22:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.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 14:22:30: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:22:30: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:22:33: 4000000 INFO @ Tue, 10 Dec 2019 14:22:40: 1000000 INFO @ Tue, 10 Dec 2019 14:22:41: 5000000 INFO @ Tue, 10 Dec 2019 14:22:49: 6000000 INFO @ Tue, 10 Dec 2019 14:22:51: 2000000 INFO @ Tue, 10 Dec 2019 14:22:57: 7000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:23:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.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 14:23:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:23:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:23:01: 3000000 INFO @ Tue, 10 Dec 2019 14:23:07: 8000000 INFO @ Tue, 10 Dec 2019 14:23:10: 1000000 INFO @ Tue, 10 Dec 2019 14:23:11: 4000000 INFO @ Tue, 10 Dec 2019 14:23:16: 9000000 INFO @ Tue, 10 Dec 2019 14:23:19: 2000000 INFO @ Tue, 10 Dec 2019 14:23:21: 5000000 INFO @ Tue, 10 Dec 2019 14:23:26: 10000000 INFO @ Tue, 10 Dec 2019 14:23:29: 3000000 INFO @ Tue, 10 Dec 2019 14:23:32: 6000000 INFO @ Tue, 10 Dec 2019 14:23:35: 11000000 INFO @ Tue, 10 Dec 2019 14:23:38: 4000000 INFO @ Tue, 10 Dec 2019 14:23:42: 7000000 INFO @ Tue, 10 Dec 2019 14:23:45: 12000000 INFO @ Tue, 10 Dec 2019 14:23:48: 5000000 INFO @ Tue, 10 Dec 2019 14:23:53: 8000000 INFO @ Tue, 10 Dec 2019 14:23:55: 13000000 INFO @ Tue, 10 Dec 2019 14:23:58: 6000000 INFO @ Tue, 10 Dec 2019 14:24:03: 9000000 INFO @ Tue, 10 Dec 2019 14:24:04: 14000000 INFO @ Tue, 10 Dec 2019 14:24:07: 7000000 INFO @ Tue, 10 Dec 2019 14:24:14: 10000000 INFO @ Tue, 10 Dec 2019 14:24:14: 15000000 INFO @ Tue, 10 Dec 2019 14:24:17: 8000000 INFO @ Tue, 10 Dec 2019 14:24:23: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:24:23: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:24:23: #1 total tags in treatment: 15914758 INFO @ Tue, 10 Dec 2019 14:24:23: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:24:23: #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 14:24:23: #1 tags after filtering in treatment: 15914758 INFO @ Tue, 10 Dec 2019 14:24:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:24:23: #1 finished! INFO @ Tue, 10 Dec 2019 14:24:23: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:24:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:24:24: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:24:24: 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 14:24:24: Process for pairing-model is terminated! INFO @ Tue, 10 Dec 2019 14:24:24: 11000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.05_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/SRX6635435/SRX6635435.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:24:26: 9000000 INFO @ Tue, 10 Dec 2019 14:24:34: 10000000 INFO @ Tue, 10 Dec 2019 14:24:34: 12000000 INFO @ Tue, 10 Dec 2019 14:24:43: 11000000 INFO @ Tue, 10 Dec 2019 14:24:45: 13000000 INFO @ Tue, 10 Dec 2019 14:24:51: 12000000 INFO @ Tue, 10 Dec 2019 14:24:55: 14000000 INFO @ Tue, 10 Dec 2019 14:24:59: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:25:05: 15000000 INFO @ Tue, 10 Dec 2019 14:25:07: 14000000 INFO @ Tue, 10 Dec 2019 14:25:14: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:25:14: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:25:14: #1 total tags in treatment: 15914758 INFO @ Tue, 10 Dec 2019 14:25:14: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:25:14: #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 14:25:15: #1 tags after filtering in treatment: 15914758 INFO @ Tue, 10 Dec 2019 14:25:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:25:15: #1 finished! INFO @ Tue, 10 Dec 2019 14:25:15: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:25:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:25:15: 15000000 INFO @ Tue, 10 Dec 2019 14:25:16: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:25:16: 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 14:25:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.10_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/SRX6635435/SRX6635435.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 10 Dec 2019 14:25:22: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:25:22: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:25:22: #1 total tags in treatment: 15914758 INFO @ Tue, 10 Dec 2019 14:25:22: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:25:22: #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 14:25:23: #1 tags after filtering in treatment: 15914758 INFO @ Tue, 10 Dec 2019 14:25:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:25:23: #1 finished! INFO @ Tue, 10 Dec 2019 14:25:23: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:25:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:25:24: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:25:24: 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 14:25:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.20_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/SRX6635435/SRX6635435.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635435/SRX6635435.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling