Job ID = 2640850 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 20,598,434 reads read : 41,196,868 reads written : 20,598,434 reads 0-length : 20,598,434 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: 00:03:42 20598434 reads; of these: 20598434 (100.00%) were unpaired; of these: 2293535 (11.13%) aligned 0 times 17233332 (83.66%) aligned exactly 1 time 1071567 (5.20%) aligned >1 times 88.87% overall alignment rate Time searching: 00:03:42 Overall time: 00:03:42 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 8 files... [bam_rmdupse_core] 8903605 / 18304899 = 0.4864 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:41:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.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 19:41:21: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:41:21: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:41:29: 1000000 INFO @ Sat, 24 Aug 2019 19:41:37: 2000000 INFO @ Sat, 24 Aug 2019 19:41:44: 3000000 INFO @ Sat, 24 Aug 2019 19:41:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.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 19:41:51: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:41:51: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:41:52: 4000000 INFO @ Sat, 24 Aug 2019 19:41:59: 5000000 INFO @ Sat, 24 Aug 2019 19:41:59: 1000000 INFO @ Sat, 24 Aug 2019 19:42:07: 6000000 INFO @ Sat, 24 Aug 2019 19:42:07: 2000000 INFO @ Sat, 24 Aug 2019 19:42:14: 7000000 INFO @ Sat, 24 Aug 2019 19:42:15: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:42:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.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 19:42:21: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:42:21: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:42:22: 8000000 INFO @ Sat, 24 Aug 2019 19:42:22: 4000000 INFO @ Sat, 24 Aug 2019 19:42:30: 1000000 INFO @ Sat, 24 Aug 2019 19:42:30: 5000000 INFO @ Sat, 24 Aug 2019 19:42:33: 9000000 INFO @ Sat, 24 Aug 2019 19:42:37: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:42:37: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:42:37: #1 total tags in treatment: 9401294 INFO @ Sat, 24 Aug 2019 19:42:37: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:42:37: #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 19:42:38: #1 tags after filtering in treatment: 9401294 INFO @ Sat, 24 Aug 2019 19:42:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:42:38: #1 finished! INFO @ Sat, 24 Aug 2019 19:42:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:42:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:42:38: 6000000 INFO @ Sat, 24 Aug 2019 19:42:38: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:42:38: 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 @ Sat, 24 Aug 2019 19:42:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.05_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/SRX3944347/SRX3944347.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:42:39: 2000000 INFO @ Sat, 24 Aug 2019 19:42:46: 7000000 INFO @ Sat, 24 Aug 2019 19:42:48: 3000000 INFO @ Sat, 24 Aug 2019 19:42:54: 8000000 INFO @ Sat, 24 Aug 2019 19:42:56: 4000000 INFO @ Sat, 24 Aug 2019 19:43:04: 9000000 INFO @ Sat, 24 Aug 2019 19:43:04: 5000000 INFO @ Sat, 24 Aug 2019 19:43:07: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:43:07: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:43:07: #1 total tags in treatment: 9401294 INFO @ Sat, 24 Aug 2019 19:43:07: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:43:07: #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 19:43:07: #1 tags after filtering in treatment: 9401294 INFO @ Sat, 24 Aug 2019 19:43:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:43:07: #1 finished! INFO @ Sat, 24 Aug 2019 19:43:07: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:43:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:43:08: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:43:08: 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 19:43:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.10_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/SRX3944347/SRX3944347.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:43:14: 6000000 INFO @ Sat, 24 Aug 2019 19:43:22: 7000000 INFO @ Sat, 24 Aug 2019 19:43:31: 8000000 INFO @ Sat, 24 Aug 2019 19:43:40: 9000000 INFO @ Sat, 24 Aug 2019 19:43:44: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:43:44: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:43:44: #1 total tags in treatment: 9401294 INFO @ Sat, 24 Aug 2019 19:43:44: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:43:44: #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 19:43:44: #1 tags after filtering in treatment: 9401294 INFO @ Sat, 24 Aug 2019 19:43:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:43:44: #1 finished! INFO @ Sat, 24 Aug 2019 19:43:44: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:43:44: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 19:43:44: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:43:44: 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 19:43:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.20_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/SRX3944347/SRX3944347.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944347/SRX3944347.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。