Job ID = 4289510 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 29,958,146 reads read : 29,958,146 reads written : 29,958,146 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: 00:05:04 29958146 reads; of these: 29958146 (100.00%) were unpaired; of these: 2327606 (7.77%) aligned 0 times 25242817 (84.26%) aligned exactly 1 time 2387723 (7.97%) aligned >1 times 92.23% overall alignment rate Time searching: 00:05:04 Overall time: 00:05:04 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] 15835247 / 27630540 = 0.5731 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:57:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.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 14:57:16: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:57:16: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:57:23: 1000000 INFO @ Tue, 10 Dec 2019 14:57:30: 2000000 INFO @ Tue, 10 Dec 2019 14:57:41: 3000000 INFO @ Tue, 10 Dec 2019 14:57:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.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 14:57:44: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:57:44: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:57:47: 4000000 INFO @ Tue, 10 Dec 2019 14:57:51: 1000000 INFO @ Tue, 10 Dec 2019 14:57:53: 5000000 INFO @ Tue, 10 Dec 2019 14:57:57: 2000000 INFO @ Tue, 10 Dec 2019 14:58:00: 6000000 INFO @ Tue, 10 Dec 2019 14:58:04: 3000000 INFO @ Tue, 10 Dec 2019 14:58:06: 7000000 INFO @ Tue, 10 Dec 2019 14:58:10: 4000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:58:12: 8000000 INFO @ Tue, 10 Dec 2019 14:58:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.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 14:58:14: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:58:14: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:58:16: 5000000 INFO @ Tue, 10 Dec 2019 14:58:19: 9000000 INFO @ Tue, 10 Dec 2019 14:58:20: 1000000 INFO @ Tue, 10 Dec 2019 14:58:23: 6000000 INFO @ Tue, 10 Dec 2019 14:58:26: 10000000 INFO @ Tue, 10 Dec 2019 14:58:26: 2000000 INFO @ Tue, 10 Dec 2019 14:58:30: 7000000 INFO @ Tue, 10 Dec 2019 14:58:32: 11000000 INFO @ Tue, 10 Dec 2019 14:58:33: 3000000 INFO @ Tue, 10 Dec 2019 14:58:36: 8000000 INFO @ Tue, 10 Dec 2019 14:58:37: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:58:37: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:58:37: #1 total tags in treatment: 11795293 INFO @ Tue, 10 Dec 2019 14:58:37: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:58:37: #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 14:58:37: #1 tags after filtering in treatment: 11795293 INFO @ Tue, 10 Dec 2019 14:58:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:58:37: #1 finished! INFO @ Tue, 10 Dec 2019 14:58:37: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:58:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:58:38: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:58:38: 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 14:58:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.05_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/SRX6678275/SRX6678275.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:58:39: 4000000 INFO @ Tue, 10 Dec 2019 14:58:42: 9000000 INFO @ Tue, 10 Dec 2019 14:58:45: 5000000 INFO @ Tue, 10 Dec 2019 14:58:48: 10000000 INFO @ Tue, 10 Dec 2019 14:58:51: 6000000 INFO @ Tue, 10 Dec 2019 14:58:54: 11000000 INFO @ Tue, 10 Dec 2019 14:58:57: 7000000 INFO @ Tue, 10 Dec 2019 14:58:59: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:58:59: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:58:59: #1 total tags in treatment: 11795293 INFO @ Tue, 10 Dec 2019 14:58:59: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:58:59: #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 14:58:59: #1 tags after filtering in treatment: 11795293 INFO @ Tue, 10 Dec 2019 14:58:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:58:59: #1 finished! INFO @ Tue, 10 Dec 2019 14:58:59: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:58:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:59:00: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:59:00: 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 14:59:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:59:03: 8000000 INFO @ Tue, 10 Dec 2019 14:59:09: 9000000 INFO @ Tue, 10 Dec 2019 14:59:15: 10000000 INFO @ Tue, 10 Dec 2019 14:59:21: 11000000 INFO @ Tue, 10 Dec 2019 14:59:25: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:59:25: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:59:25: #1 total tags in treatment: 11795293 INFO @ Tue, 10 Dec 2019 14:59:25: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:59:25: #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 14:59:25: #1 tags after filtering in treatment: 11795293 INFO @ Tue, 10 Dec 2019 14:59:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:59:25: #1 finished! INFO @ Tue, 10 Dec 2019 14:59:25: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:59:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:59:26: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:59:26: 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 14:59:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.20_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/SRX6678275/SRX6678275.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678275/SRX6678275.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。