Job ID = 2640877 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 19,763,735 reads read : 39,527,470 reads written : 19,763,735 reads 0-length : 19,763,735 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: 00:03:15 19763735 reads; of these: 19763735 (100.00%) were unpaired; of these: 3196827 (16.18%) aligned 0 times 15174705 (76.78%) aligned exactly 1 time 1392203 (7.04%) aligned >1 times 83.82% overall alignment rate Time searching: 00:03:15 Overall time: 00:03:15 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] 6556698 / 16566908 = 0.3958 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:48:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.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 19:48:15: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:48:15: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:48:23: 1000000 INFO @ Sat, 24 Aug 2019 19:48:29: 2000000 INFO @ Sat, 24 Aug 2019 19:48:36: 3000000 INFO @ Sat, 24 Aug 2019 19:48:43: 4000000 INFO @ Sat, 24 Aug 2019 19:48:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.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 19:48:45: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:48:45: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:48:50: 5000000 INFO @ Sat, 24 Aug 2019 19:48:53: 1000000 INFO @ Sat, 24 Aug 2019 19:48:57: 6000000 INFO @ Sat, 24 Aug 2019 19:49:00: 2000000 INFO @ Sat, 24 Aug 2019 19:49:04: 7000000 INFO @ Sat, 24 Aug 2019 19:49:07: 3000000 INFO @ Sat, 24 Aug 2019 19:49:11: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:49:14: 4000000 INFO @ Sat, 24 Aug 2019 19:49:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.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 19:49:15: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:15: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:49:18: 9000000 INFO @ Sat, 24 Aug 2019 19:49:21: 5000000 INFO @ Sat, 24 Aug 2019 19:49:24: 10000000 INFO @ Sat, 24 Aug 2019 19:49:25: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:49:25: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:49:25: #1 total tags in treatment: 10010210 INFO @ Sat, 24 Aug 2019 19:49:25: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:49:25: #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 19:49:25: #1 tags after filtering in treatment: 10010210 INFO @ Sat, 24 Aug 2019 19:49:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:49:25: #1 finished! INFO @ Sat, 24 Aug 2019 19:49:25: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:49:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:49:25: 1000000 INFO @ Sat, 24 Aug 2019 19:49:25: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:49:25: 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 19:49:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.05_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/SRX3944368/SRX3944368.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:49:28: 6000000 INFO @ Sat, 24 Aug 2019 19:49:33: 2000000 INFO @ Sat, 24 Aug 2019 19:49:35: 7000000 INFO @ Sat, 24 Aug 2019 19:49:41: 3000000 INFO @ Sat, 24 Aug 2019 19:49:41: 8000000 INFO @ Sat, 24 Aug 2019 19:49:48: 9000000 INFO @ Sat, 24 Aug 2019 19:49:49: 4000000 INFO @ Sat, 24 Aug 2019 19:49:55: 10000000 INFO @ Sat, 24 Aug 2019 19:49:55: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:49:55: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:49:55: #1 total tags in treatment: 10010210 INFO @ Sat, 24 Aug 2019 19:49:55: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:49:55: #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 19:49:55: #1 tags after filtering in treatment: 10010210 INFO @ Sat, 24 Aug 2019 19:49:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:49:55: #1 finished! INFO @ Sat, 24 Aug 2019 19:49:55: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:49:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:49:56: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:49:56: 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 19:49:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.10_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/SRX3944368/SRX3944368.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:49:57: 5000000 INFO @ Sat, 24 Aug 2019 19:50:05: 6000000 INFO @ Sat, 24 Aug 2019 19:50:13: 7000000 INFO @ Sat, 24 Aug 2019 19:50:21: 8000000 INFO @ Sat, 24 Aug 2019 19:50:29: 9000000 INFO @ Sat, 24 Aug 2019 19:50:37: 10000000 INFO @ Sat, 24 Aug 2019 19:50:37: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:50:37: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:50:37: #1 total tags in treatment: 10010210 INFO @ Sat, 24 Aug 2019 19:50:37: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:50:37: #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 19:50:37: #1 tags after filtering in treatment: 10010210 INFO @ Sat, 24 Aug 2019 19:50:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:50:37: #1 finished! INFO @ Sat, 24 Aug 2019 19:50:37: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:50:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:50:38: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:50:38: 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 19:50:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.20_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/SRX3944368/SRX3944368.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944368/SRX3944368.20_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。