Job ID = 4289209 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 20,224,405 reads read : 40,448,810 reads written : 20,224,405 reads 0-length : 20,224,405 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: 00:03:59 20224405 reads; of these: 20224405 (100.00%) were unpaired; of these: 896170 (4.43%) aligned 0 times 16200270 (80.10%) aligned exactly 1 time 3127965 (15.47%) aligned >1 times 95.57% overall alignment rate Time searching: 00:03:59 Overall time: 00:03:59 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] 10224455 / 19328235 = 0.5290 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:02:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.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 @ Tue, 10 Dec 2019 14:02:22: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:02:22: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:02:30: 1000000 INFO @ Tue, 10 Dec 2019 14:02:37: 2000000 INFO @ Tue, 10 Dec 2019 14:02:45: 3000000 INFO @ Tue, 10 Dec 2019 14:02:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.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 @ Tue, 10 Dec 2019 14:02:52: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:02:52: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:02:52: 4000000 INFO @ Tue, 10 Dec 2019 14:03:00: 5000000 INFO @ Tue, 10 Dec 2019 14:03:00: 1000000 INFO @ Tue, 10 Dec 2019 14:03:07: 6000000 INFO @ Tue, 10 Dec 2019 14:03:08: 2000000 INFO @ Tue, 10 Dec 2019 14:03:15: 7000000 INFO @ Tue, 10 Dec 2019 14:03:16: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:03:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.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 @ Tue, 10 Dec 2019 14:03:22: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:03:22: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:03:22: 8000000 INFO @ Tue, 10 Dec 2019 14:03:24: 4000000 INFO @ Tue, 10 Dec 2019 14:03:30: 1000000 INFO @ Tue, 10 Dec 2019 14:03:30: 9000000 INFO @ Tue, 10 Dec 2019 14:03:31: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:03:31: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:03:31: #1 total tags in treatment: 9103780 INFO @ Tue, 10 Dec 2019 14:03:31: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:03:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:03:31: #1 tags after filtering in treatment: 9103780 INFO @ Tue, 10 Dec 2019 14:03:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:03:31: #1 finished! INFO @ Tue, 10 Dec 2019 14:03:31: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:03:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:03:31: 5000000 INFO @ Tue, 10 Dec 2019 14:03:32: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:03:32: 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 @ Tue, 10 Dec 2019 14:03:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.05_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/SRX6635419/SRX6635419.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:03:37: 2000000 INFO @ Tue, 10 Dec 2019 14:03:39: 6000000 INFO @ Tue, 10 Dec 2019 14:03:45: 3000000 INFO @ Tue, 10 Dec 2019 14:03:47: 7000000 INFO @ Tue, 10 Dec 2019 14:03:52: 4000000 INFO @ Tue, 10 Dec 2019 14:03:55: 8000000 INFO @ Tue, 10 Dec 2019 14:03:59: 5000000 INFO @ Tue, 10 Dec 2019 14:04:02: 9000000 INFO @ Tue, 10 Dec 2019 14:04:03: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:04:03: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:04:03: #1 total tags in treatment: 9103780 INFO @ Tue, 10 Dec 2019 14:04:03: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:04:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:04:03: #1 tags after filtering in treatment: 9103780 INFO @ Tue, 10 Dec 2019 14:04:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:04:03: #1 finished! INFO @ Tue, 10 Dec 2019 14:04:03: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:04:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:04:04: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:04:04: 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 @ Tue, 10 Dec 2019 14:04:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.10_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/SRX6635419/SRX6635419.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:04:06: 6000000 INFO @ Tue, 10 Dec 2019 14:04:13: 7000000 INFO @ Tue, 10 Dec 2019 14:04:20: 8000000 INFO @ Tue, 10 Dec 2019 14:04:27: 9000000 INFO @ Tue, 10 Dec 2019 14:04:28: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:04:28: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:04:28: #1 total tags in treatment: 9103780 INFO @ Tue, 10 Dec 2019 14:04:28: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:04:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:04:28: #1 tags after filtering in treatment: 9103780 INFO @ Tue, 10 Dec 2019 14:04:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:04:28: #1 finished! INFO @ Tue, 10 Dec 2019 14:04:28: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:04:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:04:29: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:04:29: 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 @ Tue, 10 Dec 2019 14:04:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.20_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/SRX6635419/SRX6635419.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635419/SRX6635419.20_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。