Job ID = 4289607 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 37,056,240 reads read : 74,112,480 reads written : 37,056,240 reads 0-length : 37,056,240 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: 00:06:16 37056240 reads; of these: 37056240 (100.00%) were unpaired; of these: 1727137 (4.66%) aligned 0 times 26803692 (72.33%) aligned exactly 1 time 8525411 (23.01%) aligned >1 times 95.34% overall alignment rate Time searching: 00:06:16 Overall time: 00:06:16 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] 20449741 / 35329103 = 0.5788 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 15:16:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.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 15:16:14: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:16:14: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:16:21: 1000000 INFO @ Tue, 10 Dec 2019 15:16:28: 2000000 INFO @ Tue, 10 Dec 2019 15:16:36: 3000000 INFO @ Tue, 10 Dec 2019 15:16:43: 4000000 INFO @ Tue, 10 Dec 2019 15:16:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.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 15:16:44: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:16:44: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:16:50: 5000000 INFO @ Tue, 10 Dec 2019 15:16:53: 1000000 INFO @ Tue, 10 Dec 2019 15:16:57: 6000000 INFO @ Tue, 10 Dec 2019 15:17:03: 2000000 INFO @ Tue, 10 Dec 2019 15:17:05: 7000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 15:17:12: 8000000 INFO @ Tue, 10 Dec 2019 15:17:13: 3000000 INFO @ Tue, 10 Dec 2019 15:17:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.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 15:17:14: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:17:14: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:17:20: 9000000 INFO @ Tue, 10 Dec 2019 15:17:23: 1000000 INFO @ Tue, 10 Dec 2019 15:17:24: 4000000 INFO @ Tue, 10 Dec 2019 15:17:27: 10000000 INFO @ Tue, 10 Dec 2019 15:17:33: 2000000 INFO @ Tue, 10 Dec 2019 15:17:34: 5000000 INFO @ Tue, 10 Dec 2019 15:17:35: 11000000 INFO @ Tue, 10 Dec 2019 15:17:42: 12000000 INFO @ Tue, 10 Dec 2019 15:17:43: 3000000 INFO @ Tue, 10 Dec 2019 15:17:44: 6000000 INFO @ Tue, 10 Dec 2019 15:17:50: 13000000 INFO @ Tue, 10 Dec 2019 15:17:53: 4000000 INFO @ Tue, 10 Dec 2019 15:17:54: 7000000 INFO @ Tue, 10 Dec 2019 15:17:57: 14000000 INFO @ Tue, 10 Dec 2019 15:18:03: 5000000 INFO @ Tue, 10 Dec 2019 15:18:03: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:18:03: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:18:03: #1 total tags in treatment: 14879362 INFO @ Tue, 10 Dec 2019 15:18:03: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:18:03: #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 15:18:04: #1 tags after filtering in treatment: 14879362 INFO @ Tue, 10 Dec 2019 15:18:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:18:04: #1 finished! INFO @ Tue, 10 Dec 2019 15:18:04: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:18:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:18:04: 8000000 INFO @ Tue, 10 Dec 2019 15:18:05: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:18:05: 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 15:18:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.05_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/SRX7106978/SRX7106978.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:18:12: 6000000 INFO @ Tue, 10 Dec 2019 15:18:14: 9000000 INFO @ Tue, 10 Dec 2019 15:18:22: 7000000 INFO @ Tue, 10 Dec 2019 15:18:24: 10000000 INFO @ Tue, 10 Dec 2019 15:18:32: 8000000 INFO @ Tue, 10 Dec 2019 15:18:34: 11000000 INFO @ Tue, 10 Dec 2019 15:18:42: 9000000 INFO @ Tue, 10 Dec 2019 15:18:44: 12000000 INFO @ Tue, 10 Dec 2019 15:18:51: 10000000 INFO @ Tue, 10 Dec 2019 15:18:54: 13000000 INFO @ Tue, 10 Dec 2019 15:19:01: 11000000 INFO @ Tue, 10 Dec 2019 15:19:03: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 15:19:11: 12000000 INFO @ Tue, 10 Dec 2019 15:19:12: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:19:12: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:19:12: #1 total tags in treatment: 14879362 INFO @ Tue, 10 Dec 2019 15:19:12: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:19:12: #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 15:19:12: #1 tags after filtering in treatment: 14879362 INFO @ Tue, 10 Dec 2019 15:19:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:19:12: #1 finished! INFO @ Tue, 10 Dec 2019 15:19:12: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:19:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:19:13: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:19:13: 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 15:19:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 10 Dec 2019 15:19:20: 13000000 INFO @ Tue, 10 Dec 2019 15:19:30: 14000000 INFO @ Tue, 10 Dec 2019 15:19:38: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:19:38: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:19:38: #1 total tags in treatment: 14879362 INFO @ Tue, 10 Dec 2019 15:19:38: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:19:38: #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 15:19:38: #1 tags after filtering in treatment: 14879362 INFO @ Tue, 10 Dec 2019 15:19:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:19:38: #1 finished! INFO @ Tue, 10 Dec 2019 15:19:38: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:19:39: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 15:19:39: 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 15:19:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106978/SRX7106978.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling