Job ID = 2641034 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 23,238,402 reads read : 46,476,804 reads written : 23,238,402 reads 0-length : 23,238,402 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: 00:04:11 23238402 reads; of these: 23238402 (100.00%) were unpaired; of these: 1369370 (5.89%) aligned 0 times 19980731 (85.98%) aligned exactly 1 time 1888301 (8.13%) aligned >1 times 94.11% overall alignment rate Time searching: 00:04:11 Overall time: 00:04:11 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] 11355136 / 21869032 = 0.5192 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:54:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.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 @ Sat, 24 Aug 2019 20:54:12: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:54:12: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:54:19: 1000000 INFO @ Sat, 24 Aug 2019 20:54:25: 2000000 INFO @ Sat, 24 Aug 2019 20:54:32: 3000000 INFO @ Sat, 24 Aug 2019 20:54:38: 4000000 INFO @ Sat, 24 Aug 2019 20:54:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.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 @ Sat, 24 Aug 2019 20:54:41: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:54:41: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:54:45: 5000000 INFO @ Sat, 24 Aug 2019 20:54:49: 1000000 INFO @ Sat, 24 Aug 2019 20:54:52: 6000000 INFO @ Sat, 24 Aug 2019 20:54:57: 2000000 INFO @ Sat, 24 Aug 2019 20:54:58: 7000000 INFO @ Sat, 24 Aug 2019 20:55:04: 3000000 INFO @ Sat, 24 Aug 2019 20:55:05: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:55:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.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 @ Sat, 24 Aug 2019 20:55:11: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:55:11: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:55:11: 9000000 INFO @ Sat, 24 Aug 2019 20:55:12: 4000000 INFO @ Sat, 24 Aug 2019 20:55:18: 10000000 INFO @ Sat, 24 Aug 2019 20:55:19: 1000000 INFO @ Sat, 24 Aug 2019 20:55:19: 5000000 INFO @ Sat, 24 Aug 2019 20:55:22: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:55:22: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:55:22: #1 total tags in treatment: 10513896 INFO @ Sat, 24 Aug 2019 20:55:22: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:55:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 20:55:22: #1 tags after filtering in treatment: 10513896 INFO @ Sat, 24 Aug 2019 20:55:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:55:22: #1 finished! INFO @ Sat, 24 Aug 2019 20:55:22: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:55:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:55:23: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:55:23: 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 @ Sat, 24 Aug 2019 20:55:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.05_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/SRX5257231/SRX5257231.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:55:26: 2000000 INFO @ Sat, 24 Aug 2019 20:55:27: 6000000 INFO @ Sat, 24 Aug 2019 20:55:34: 3000000 INFO @ Sat, 24 Aug 2019 20:55:35: 7000000 INFO @ Sat, 24 Aug 2019 20:55:41: 4000000 INFO @ Sat, 24 Aug 2019 20:55:42: 8000000 INFO @ Sat, 24 Aug 2019 20:55:49: 5000000 INFO @ Sat, 24 Aug 2019 20:55:49: 9000000 INFO @ Sat, 24 Aug 2019 20:55:55: 10000000 INFO @ Sat, 24 Aug 2019 20:55:56: 6000000 INFO @ Sat, 24 Aug 2019 20:55:58: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:55:58: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:55:58: #1 total tags in treatment: 10513896 INFO @ Sat, 24 Aug 2019 20:55:58: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:55:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 20:55:58: #1 tags after filtering in treatment: 10513896 INFO @ Sat, 24 Aug 2019 20:55:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:55:58: #1 finished! INFO @ Sat, 24 Aug 2019 20:55:58: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:55:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:55:59: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:55:59: 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 @ Sat, 24 Aug 2019 20:55:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.10_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/SRX5257231/SRX5257231.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:56:03: 7000000 INFO @ Sat, 24 Aug 2019 20:56:11: 8000000 INFO @ Sat, 24 Aug 2019 20:56:18: 9000000 INFO @ Sat, 24 Aug 2019 20:56:26: 10000000 INFO @ Sat, 24 Aug 2019 20:56:30: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:56:30: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:56:30: #1 total tags in treatment: 10513896 INFO @ Sat, 24 Aug 2019 20:56:30: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:56:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 20:56:30: #1 tags after filtering in treatment: 10513896 INFO @ Sat, 24 Aug 2019 20:56:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:56:30: #1 finished! INFO @ Sat, 24 Aug 2019 20:56:30: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:56:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:56:31: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:56:31: 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 @ Sat, 24 Aug 2019 20:56:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.20_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/SRX5257231/SRX5257231.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257231/SRX5257231.20_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。