Job ID = 2011007 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 38,922,885 reads read : 77,845,770 reads written : 38,922,885 reads 0-length : 38,922,885 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: 00:08:13 38922885 reads; of these: 38922885 (100.00%) were unpaired; of these: 778866 (2.00%) aligned 0 times 33176734 (85.24%) aligned exactly 1 time 4967285 (12.76%) aligned >1 times 98.00% overall alignment rate Time searching: 00:08:13 Overall time: 00:08:13 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 16 files... [bam_rmdupse_core] 20964468 / 38144019 = 0.5496 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 02:05:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.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, 06 Jul 2019 02:05:28: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:05:28: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:05:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.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, 06 Jul 2019 02:05:29: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:05:29: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:05:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.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, 06 Jul 2019 02:05:30: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:05:30: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:05:36: 1000000 INFO @ Sat, 06 Jul 2019 02:05:36: 1000000 INFO @ Sat, 06 Jul 2019 02:05:37: 1000000 INFO @ Sat, 06 Jul 2019 02:05:44: 2000000 INFO @ Sat, 06 Jul 2019 02:05:45: 2000000 INFO @ Sat, 06 Jul 2019 02:05:46: 2000000 INFO @ Sat, 06 Jul 2019 02:05:51: 3000000 INFO @ Sat, 06 Jul 2019 02:05:53: 3000000 INFO @ Sat, 06 Jul 2019 02:05:54: 3000000 INFO @ Sat, 06 Jul 2019 02:05:58: 4000000 INFO @ Sat, 06 Jul 2019 02:06:02: 4000000 INFO @ Sat, 06 Jul 2019 02:06:02: 4000000 INFO @ Sat, 06 Jul 2019 02:06:05: 5000000 INFO @ Sat, 06 Jul 2019 02:06:10: 5000000 INFO @ Sat, 06 Jul 2019 02:06:11: 5000000 INFO @ Sat, 06 Jul 2019 02:06:12: 6000000 INFO @ Sat, 06 Jul 2019 02:06:19: 7000000 INFO @ Sat, 06 Jul 2019 02:06:19: 6000000 INFO @ Sat, 06 Jul 2019 02:06:19: 6000000 INFO @ Sat, 06 Jul 2019 02:06:25: 8000000 INFO @ Sat, 06 Jul 2019 02:06:27: 7000000 INFO @ Sat, 06 Jul 2019 02:06:28: 7000000 INFO @ Sat, 06 Jul 2019 02:06:32: 9000000 INFO @ Sat, 06 Jul 2019 02:06:35: 8000000 INFO @ Sat, 06 Jul 2019 02:06:36: 8000000 INFO @ Sat, 06 Jul 2019 02:06:40: 10000000 INFO @ Sat, 06 Jul 2019 02:06:43: 9000000 INFO @ Sat, 06 Jul 2019 02:06:45: 9000000 INFO @ Sat, 06 Jul 2019 02:06:47: 11000000 INFO @ Sat, 06 Jul 2019 02:06:50: 10000000 INFO @ Sat, 06 Jul 2019 02:06:54: 12000000 INFO @ Sat, 06 Jul 2019 02:06:55: 10000000 INFO @ Sat, 06 Jul 2019 02:06:58: 11000000 INFO @ Sat, 06 Jul 2019 02:07:01: 13000000 INFO @ Sat, 06 Jul 2019 02:07:03: 11000000 INFO @ Sat, 06 Jul 2019 02:07:06: 12000000 INFO @ Sat, 06 Jul 2019 02:07:08: 14000000 INFO @ Sat, 06 Jul 2019 02:07:11: 12000000 INFO @ Sat, 06 Jul 2019 02:07:13: 13000000 INFO @ Sat, 06 Jul 2019 02:07:15: 15000000 INFO @ Sat, 06 Jul 2019 02:07:19: 13000000 INFO @ Sat, 06 Jul 2019 02:07:21: 14000000 INFO @ Sat, 06 Jul 2019 02:07:22: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:07:27: 14000000 INFO @ Sat, 06 Jul 2019 02:07:29: 15000000 INFO @ Sat, 06 Jul 2019 02:07:30: 17000000 INFO @ Sat, 06 Jul 2019 02:07:31: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:07:31: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:07:31: #1 total tags in treatment: 17179551 INFO @ Sat, 06 Jul 2019 02:07:31: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:07:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:07:32: #1 tags after filtering in treatment: 17179551 INFO @ Sat, 06 Jul 2019 02:07:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:07:32: #1 finished! INFO @ Sat, 06 Jul 2019 02:07:32: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:07:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:07:33: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:07:33: 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, 06 Jul 2019 02:07:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.10_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/SRX4409375/SRX4409375.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:07:36: 15000000 INFO @ Sat, 06 Jul 2019 02:07:37: 16000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 02:07:44: 16000000 INFO @ Sat, 06 Jul 2019 02:07:44: 17000000 INFO @ Sat, 06 Jul 2019 02:07:46: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:07:46: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:07:46: #1 total tags in treatment: 17179551 INFO @ Sat, 06 Jul 2019 02:07:46: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:07:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:07:46: #1 tags after filtering in treatment: 17179551 INFO @ Sat, 06 Jul 2019 02:07:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:07:46: #1 finished! INFO @ Sat, 06 Jul 2019 02:07:46: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:07:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:07:48: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:07:48: 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, 06 Jul 2019 02:07:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.20_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/SRX4409375/SRX4409375.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:07:53: 17000000 INFO @ Sat, 06 Jul 2019 02:07:54: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:07:54: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:07:54: #1 total tags in treatment: 17179551 INFO @ Sat, 06 Jul 2019 02:07:54: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:07:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:07:55: #1 tags after filtering in treatment: 17179551 INFO @ Sat, 06 Jul 2019 02:07:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:07:55: #1 finished! INFO @ Sat, 06 Jul 2019 02:07:55: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:07:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:07:56: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:07:56: 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, 06 Jul 2019 02:07:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.05_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/SRX4409375/SRX4409375.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409375/SRX4409375.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling