Job ID = 4289044 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 21,140,354 reads read : 21,140,354 reads written : 21,140,354 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: 00:04:03 21140354 reads; of these: 21140354 (100.00%) were unpaired; of these: 2292242 (10.84%) aligned 0 times 17168881 (81.21%) aligned exactly 1 time 1679231 (7.94%) aligned >1 times 89.16% overall alignment rate Time searching: 00:04:03 Overall time: 00:04:03 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] 9166326 / 18848112 = 0.4863 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 13:38:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.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 13:38:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:38:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:38:08: 1000000 INFO @ Tue, 10 Dec 2019 13:38:16: 2000000 INFO @ Tue, 10 Dec 2019 13:38:24: 3000000 INFO @ Tue, 10 Dec 2019 13:38:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.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 13:38:30: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:38:30: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:38:33: 4000000 INFO @ Tue, 10 Dec 2019 13:38:38: 1000000 INFO @ Tue, 10 Dec 2019 13:38:41: 5000000 INFO @ Tue, 10 Dec 2019 13:38:45: 2000000 INFO @ Tue, 10 Dec 2019 13:38:49: 6000000 INFO @ Tue, 10 Dec 2019 13:38:53: 3000000 INFO @ Tue, 10 Dec 2019 13:38:58: 7000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 13:39:00: 4000000 INFO @ Tue, 10 Dec 2019 13:39:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.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 13:39:00: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:39:00: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:39:06: 8000000 INFO @ Tue, 10 Dec 2019 13:39:08: 5000000 INFO @ Tue, 10 Dec 2019 13:39:09: 1000000 INFO @ Tue, 10 Dec 2019 13:39:14: 9000000 INFO @ Tue, 10 Dec 2019 13:39:15: 6000000 INFO @ Tue, 10 Dec 2019 13:39:17: 2000000 INFO @ Tue, 10 Dec 2019 13:39:20: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:39:20: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:39:20: #1 total tags in treatment: 9681786 INFO @ Tue, 10 Dec 2019 13:39:20: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:39:20: #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 13:39:20: #1 tags after filtering in treatment: 9681786 INFO @ Tue, 10 Dec 2019 13:39:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:39:20: #1 finished! INFO @ Tue, 10 Dec 2019 13:39:20: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:39:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:39:21: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:39:21: 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 13:39:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.05_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/SRX3479951/SRX3479951.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:39:23: 7000000 INFO @ Tue, 10 Dec 2019 13:39:26: 3000000 INFO @ Tue, 10 Dec 2019 13:39:30: 8000000 INFO @ Tue, 10 Dec 2019 13:39:34: 4000000 INFO @ Tue, 10 Dec 2019 13:39:38: 9000000 INFO @ Tue, 10 Dec 2019 13:39:42: 5000000 INFO @ Tue, 10 Dec 2019 13:39:43: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:39:43: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:39:43: #1 total tags in treatment: 9681786 INFO @ Tue, 10 Dec 2019 13:39:43: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:39:43: #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 13:39:43: #1 tags after filtering in treatment: 9681786 INFO @ Tue, 10 Dec 2019 13:39:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:39:43: #1 finished! INFO @ Tue, 10 Dec 2019 13:39:43: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:39:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:39:44: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:39:44: 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 13:39:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.10_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/SRX3479951/SRX3479951.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:39:50: 6000000 INFO @ Tue, 10 Dec 2019 13:39:58: 7000000 INFO @ Tue, 10 Dec 2019 13:40:06: 8000000 INFO @ Tue, 10 Dec 2019 13:40:14: 9000000 INFO @ Tue, 10 Dec 2019 13:40:20: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:40:20: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:40:20: #1 total tags in treatment: 9681786 INFO @ Tue, 10 Dec 2019 13:40:20: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:40:20: #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 13:40:20: #1 tags after filtering in treatment: 9681786 INFO @ Tue, 10 Dec 2019 13:40:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:40:20: #1 finished! INFO @ Tue, 10 Dec 2019 13:40:20: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:40:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:40:21: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:40:21: 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 13:40:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.20_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/SRX3479951/SRX3479951.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3479951/SRX3479951.20_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。