Job ID = 2641102 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 62,905,257 reads read : 62,905,257 reads written : 62,905,257 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: 00:11:12 62905257 reads; of these: 62905257 (100.00%) were unpaired; of these: 2200316 (3.50%) aligned 0 times 48233356 (76.68%) aligned exactly 1 time 12471585 (19.83%) aligned >1 times 96.50% overall alignment rate Time searching: 00:11:12 Overall time: 00:11:12 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 28 files... [bam_rmdupse_core] 41311398 / 60704941 = 0.6805 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 22:04:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.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 22:04:21: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:04:21: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:04:30: 1000000 INFO @ Sat, 24 Aug 2019 22:04:39: 2000000 INFO @ Sat, 24 Aug 2019 22:04:48: 3000000 INFO @ Sat, 24 Aug 2019 22:04:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.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 22:04:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:04:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:04:57: 4000000 INFO @ Sat, 24 Aug 2019 22:04:58: 1000000 INFO @ Sat, 24 Aug 2019 22:05:06: 5000000 INFO @ Sat, 24 Aug 2019 22:05:06: 2000000 INFO @ Sat, 24 Aug 2019 22:05:15: 6000000 INFO @ Sat, 24 Aug 2019 22:05:15: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 22:05:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.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 22:05:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:05:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:05:23: 4000000 INFO @ Sat, 24 Aug 2019 22:05:24: 7000000 INFO @ Sat, 24 Aug 2019 22:05:30: 1000000 INFO @ Sat, 24 Aug 2019 22:05:31: 5000000 INFO @ Sat, 24 Aug 2019 22:05:33: 8000000 INFO @ Sat, 24 Aug 2019 22:05:39: 6000000 INFO @ Sat, 24 Aug 2019 22:05:40: 2000000 INFO @ Sat, 24 Aug 2019 22:05:42: 9000000 INFO @ Sat, 24 Aug 2019 22:05:48: 7000000 INFO @ Sat, 24 Aug 2019 22:05:50: 3000000 INFO @ Sat, 24 Aug 2019 22:05:51: 10000000 INFO @ Sat, 24 Aug 2019 22:05:56: 8000000 INFO @ Sat, 24 Aug 2019 22:06:00: 4000000 INFO @ Sat, 24 Aug 2019 22:06:00: 11000000 INFO @ Sat, 24 Aug 2019 22:06:04: 9000000 INFO @ Sat, 24 Aug 2019 22:06:09: 12000000 INFO @ Sat, 24 Aug 2019 22:06:10: 5000000 INFO @ Sat, 24 Aug 2019 22:06:12: 10000000 INFO @ Sat, 24 Aug 2019 22:06:18: 13000000 INFO @ Sat, 24 Aug 2019 22:06:19: 6000000 INFO @ Sat, 24 Aug 2019 22:06:20: 11000000 INFO @ Sat, 24 Aug 2019 22:06:27: 14000000 INFO @ Sat, 24 Aug 2019 22:06:28: 12000000 INFO @ Sat, 24 Aug 2019 22:06:29: 7000000 INFO @ Sat, 24 Aug 2019 22:06:36: 15000000 INFO @ Sat, 24 Aug 2019 22:06:36: 13000000 INFO @ Sat, 24 Aug 2019 22:06:39: 8000000 INFO @ Sat, 24 Aug 2019 22:06:44: 14000000 INFO @ Sat, 24 Aug 2019 22:06:45: 16000000 INFO @ Sat, 24 Aug 2019 22:06:51: 9000000 INFO @ Sat, 24 Aug 2019 22:06:53: 15000000 INFO @ Sat, 24 Aug 2019 22:06:54: 17000000 INFO @ Sat, 24 Aug 2019 22:07:01: 16000000 INFO @ Sat, 24 Aug 2019 22:07:02: 10000000 INFO @ Sat, 24 Aug 2019 22:07:04: 18000000 INFO @ Sat, 24 Aug 2019 22:07:09: 17000000 INFO @ Sat, 24 Aug 2019 22:07:13: 19000000 INFO @ Sat, 24 Aug 2019 22:07:13: 11000000 INFO @ Sat, 24 Aug 2019 22:07:17: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:07:17: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:07:17: #1 total tags in treatment: 19393543 INFO @ Sat, 24 Aug 2019 22:07:17: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:07:17: #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 22:07:17: #1 tags after filtering in treatment: 19393543 INFO @ Sat, 24 Aug 2019 22:07:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:07:17: #1 finished! INFO @ Sat, 24 Aug 2019 22:07:17: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:07:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:07:17: 18000000 INFO @ Sat, 24 Aug 2019 22:07:18: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:07:18: 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 22:07:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.05_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/SRX5431203/SRX5431203.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:07:25: 12000000 INFO @ Sat, 24 Aug 2019 22:07:25: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 22:07:28: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:07:28: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:07:28: #1 total tags in treatment: 19393543 INFO @ Sat, 24 Aug 2019 22:07:28: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:07:28: #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 22:07:29: #1 tags after filtering in treatment: 19393543 INFO @ Sat, 24 Aug 2019 22:07:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:07:29: #1 finished! INFO @ Sat, 24 Aug 2019 22:07:29: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:07:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:07:30: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:07:30: 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 22:07:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.10_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/SRX5431203/SRX5431203.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:07:35: 13000000 BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 22:07:46: 14000000 INFO @ Sat, 24 Aug 2019 22:07:56: 15000000 INFO @ Sat, 24 Aug 2019 22:08:07: 16000000 INFO @ Sat, 24 Aug 2019 22:08:18: 17000000 INFO @ Sat, 24 Aug 2019 22:08:28: 18000000 INFO @ Sat, 24 Aug 2019 22:08:39: 19000000 INFO @ Sat, 24 Aug 2019 22:08:44: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:08:44: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:08:44: #1 total tags in treatment: 19393543 INFO @ Sat, 24 Aug 2019 22:08:44: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:08:44: #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 22:08:44: #1 tags after filtering in treatment: 19393543 INFO @ Sat, 24 Aug 2019 22:08:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:08:44: #1 finished! INFO @ Sat, 24 Aug 2019 22:08:44: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:08:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:08:45: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:08:45: 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 22:08:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.20_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/SRX5431203/SRX5431203.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431203/SRX5431203.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling