Job ID = 2641062 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 44,257,651 reads read : 88,515,302 reads written : 44,257,651 reads 0-length : 44,257,651 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: 00:08:45 44257651 reads; of these: 44257651 (100.00%) were unpaired; of these: 1160137 (2.62%) aligned 0 times 39342419 (88.89%) aligned exactly 1 time 3755095 (8.48%) aligned >1 times 97.38% overall alignment rate Time searching: 00:08:45 Overall time: 00:08:45 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] 30769660 / 43097514 = 0.7140 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:33:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.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 21:33:56: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:33:56: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:34:05: 1000000 INFO @ Sat, 24 Aug 2019 21:34:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.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 21:34:28: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:34:28: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:34:34: 2000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:34:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.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 21:34:58: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:34:58: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:35:08: 1000000 INFO @ Sat, 24 Aug 2019 21:35:14: 3000000 INFO @ Sat, 24 Aug 2019 21:35:39: 1000000 INFO @ Sat, 24 Aug 2019 21:35:49: 2000000 INFO @ Sat, 24 Aug 2019 21:35:54: 4000000 INFO @ Sat, 24 Aug 2019 21:35:59: 2000000 INFO @ Sat, 24 Aug 2019 21:36:01: 3000000 INFO @ Sat, 24 Aug 2019 21:36:03: 5000000 INFO @ Sat, 24 Aug 2019 21:36:07: 3000000 INFO @ Sat, 24 Aug 2019 21:36:09: 4000000 INFO @ Sat, 24 Aug 2019 21:36:10: 6000000 INFO @ Sat, 24 Aug 2019 21:36:18: 4000000 INFO @ Sat, 24 Aug 2019 21:36:25: 5000000 INFO @ Sat, 24 Aug 2019 21:36:27: 7000000 INFO @ Sat, 24 Aug 2019 21:36:44: 5000000 INFO @ Sat, 24 Aug 2019 21:36:53: 6000000 INFO @ Sat, 24 Aug 2019 21:36:55: 8000000 INFO @ Sat, 24 Aug 2019 21:37:05: 6000000 INFO @ Sat, 24 Aug 2019 21:37:14: 7000000 INFO @ Sat, 24 Aug 2019 21:37:15: 9000000 INFO @ Sat, 24 Aug 2019 21:37:28: 7000000 INFO @ Sat, 24 Aug 2019 21:37:35: 8000000 INFO @ Sat, 24 Aug 2019 21:37:35: 10000000 INFO @ Sat, 24 Aug 2019 21:37:49: 8000000 INFO @ Sat, 24 Aug 2019 21:37:55: 9000000 INFO @ Sat, 24 Aug 2019 21:37:57: 11000000 INFO @ Sat, 24 Aug 2019 21:38:04: 9000000 INFO @ Sat, 24 Aug 2019 21:38:10: 10000000 INFO @ Sat, 24 Aug 2019 21:38:13: 12000000 INFO @ Sat, 24 Aug 2019 21:38:15: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:38:15: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:38:15: #1 total tags in treatment: 12327854 INFO @ Sat, 24 Aug 2019 21:38:15: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:38:15: #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 21:38:16: #1 tags after filtering in treatment: 12327854 INFO @ Sat, 24 Aug 2019 21:38:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:38:16: #1 finished! INFO @ Sat, 24 Aug 2019 21:38:16: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:38:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:38:16: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:38:16: 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 @ Sat, 24 Aug 2019 21:38:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.05_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/SRX5257256/SRX5257256.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:38:19: 10000000 INFO @ Sat, 24 Aug 2019 21:38:21: 11000000 INFO @ Sat, 24 Aug 2019 21:38:27: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 21:38:30: 12000000 INFO @ Sat, 24 Aug 2019 21:38:33: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:38:33: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:38:33: #1 total tags in treatment: 12327854 INFO @ Sat, 24 Aug 2019 21:38:33: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:38:33: #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 21:38:34: #1 tags after filtering in treatment: 12327854 INFO @ Sat, 24 Aug 2019 21:38:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:38:34: #1 finished! INFO @ Sat, 24 Aug 2019 21:38:34: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:38:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:38:35: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:38:35: 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 21:38:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.10_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/SRX5257256/SRX5257256.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:38:36: 12000000 INFO @ Sat, 24 Aug 2019 21:38:38: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:38:38: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:38:38: #1 total tags in treatment: 12327854 INFO @ Sat, 24 Aug 2019 21:38:38: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:38:38: #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 21:38:38: #1 tags after filtering in treatment: 12327854 INFO @ Sat, 24 Aug 2019 21:38:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:38:38: #1 finished! INFO @ Sat, 24 Aug 2019 21:38:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:38:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:38:39: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:38:39: 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 @ Sat, 24 Aug 2019 21:38:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.20_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/SRX5257256/SRX5257256.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257256/SRX5257256.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。