Job ID = 2640880 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 20,133,127 reads read : 40,266,254 reads written : 20,133,127 reads 0-length : 20,133,127 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: 00:03:11 20133127 reads; of these: 20133127 (100.00%) were unpaired; of these: 2747172 (13.65%) aligned 0 times 14996260 (74.49%) aligned exactly 1 time 2389695 (11.87%) aligned >1 times 86.35% overall alignment rate Time searching: 00:03:11 Overall time: 00:03:11 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 8 files... [bam_rmdupse_core] 7206558 / 17385955 = 0.4145 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:49:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.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 19:49:54: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:54: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:50:04: 1000000 INFO @ Sat, 24 Aug 2019 19:50:14: 2000000 INFO @ Sat, 24 Aug 2019 19:50:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.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 19:50:23: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:50:23: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:50:23: 3000000 INFO @ Sat, 24 Aug 2019 19:50:31: 1000000 INFO @ Sat, 24 Aug 2019 19:50:34: 4000000 INFO @ Sat, 24 Aug 2019 19:50:38: 2000000 INFO @ Sat, 24 Aug 2019 19:50:45: 5000000 INFO @ Sat, 24 Aug 2019 19:50:45: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:50:53: 4000000 INFO @ Sat, 24 Aug 2019 19:50:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.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 19:50:53: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:50:53: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:50:56: 6000000 INFO @ Sat, 24 Aug 2019 19:51:01: 5000000 INFO @ Sat, 24 Aug 2019 19:51:02: 1000000 INFO @ Sat, 24 Aug 2019 19:51:06: 7000000 INFO @ Sat, 24 Aug 2019 19:51:09: 6000000 INFO @ Sat, 24 Aug 2019 19:51:09: 2000000 INFO @ Sat, 24 Aug 2019 19:51:16: 8000000 INFO @ Sat, 24 Aug 2019 19:51:17: 7000000 INFO @ Sat, 24 Aug 2019 19:51:17: 3000000 INFO @ Sat, 24 Aug 2019 19:51:25: 8000000 INFO @ Sat, 24 Aug 2019 19:51:25: 4000000 INFO @ Sat, 24 Aug 2019 19:51:26: 9000000 INFO @ Sat, 24 Aug 2019 19:51:32: 9000000 INFO @ Sat, 24 Aug 2019 19:51:34: 5000000 INFO @ Sat, 24 Aug 2019 19:51:36: 10000000 INFO @ Sat, 24 Aug 2019 19:51:38: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:51:38: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:51:38: #1 total tags in treatment: 10179397 INFO @ Sat, 24 Aug 2019 19:51:38: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:51:38: #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 19:51:38: #1 tags after filtering in treatment: 10179397 INFO @ Sat, 24 Aug 2019 19:51:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:51:38: #1 finished! INFO @ Sat, 24 Aug 2019 19:51:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:51:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:51:39: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:51:39: 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 19:51:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.05_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/SRX3944371/SRX3944371.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:51:40: 10000000 INFO @ Sat, 24 Aug 2019 19:51:41: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:51:41: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:51:41: #1 total tags in treatment: 10179397 INFO @ Sat, 24 Aug 2019 19:51:41: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:51:41: #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 19:51:41: #1 tags after filtering in treatment: 10179397 INFO @ Sat, 24 Aug 2019 19:51:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:51:41: #1 finished! INFO @ Sat, 24 Aug 2019 19:51:41: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:51:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:51:42: 6000000 INFO @ Sat, 24 Aug 2019 19:51:42: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:51:42: 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 19:51:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.10_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/SRX3944371/SRX3944371.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:51:49: 7000000 INFO @ Sat, 24 Aug 2019 19:51:57: 8000000 INFO @ Sat, 24 Aug 2019 19:52:04: 9000000 INFO @ Sat, 24 Aug 2019 19:52:11: 10000000 INFO @ Sat, 24 Aug 2019 19:52:12: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:52:12: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:52:12: #1 total tags in treatment: 10179397 INFO @ Sat, 24 Aug 2019 19:52:12: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:52:12: #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 19:52:12: #1 tags after filtering in treatment: 10179397 INFO @ Sat, 24 Aug 2019 19:52:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:52:12: #1 finished! INFO @ Sat, 24 Aug 2019 19:52:12: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:52:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:52:13: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:52:13: 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 @ Sat, 24 Aug 2019 19:52:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944371/SRX3944371.20_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。