Job ID = 4289579 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 16,085,329 reads read : 32,170,658 reads written : 16,085,329 reads 0-length : 16,085,329 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: 00:02:12 16085329 reads; of these: 16085329 (100.00%) were unpaired; of these: 5936965 (36.91%) aligned 0 times 4880150 (30.34%) aligned exactly 1 time 5268214 (32.75%) aligned >1 times 63.09% overall alignment rate Time searching: 00:02:12 Overall time: 00:02:12 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 8 files... [bam_rmdupse_core] 6248072 / 10148364 = 0.6157 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:59:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.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 14:59:41: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:59:41: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:59:49: 1000000 INFO @ Tue, 10 Dec 2019 14:59:57: 2000000 INFO @ Tue, 10 Dec 2019 15:00:04: 3000000 INFO @ Tue, 10 Dec 2019 15:00:11: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:00:11: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:00:11: #1 total tags in treatment: 3900292 INFO @ Tue, 10 Dec 2019 15:00:11: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:00:11: #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 15:00:11: #1 tags after filtering in treatment: 3900292 INFO @ Tue, 10 Dec 2019 15:00:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:00:11: #1 finished! INFO @ Tue, 10 Dec 2019 15:00:11: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:00:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:00:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.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 15:00:11: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:00:11: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:00:12: #2 number of paired peaks: 44 WARNING @ Tue, 10 Dec 2019 15:00:12: Too few paired peaks (44) 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 15:00:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.05_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/SRX7106967/SRX7106967.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:00:19: 1000000 INFO @ Tue, 10 Dec 2019 15:00:27: 2000000 INFO @ Tue, 10 Dec 2019 15:00:35: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 15:00:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.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 15:00:41: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:00:41: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:00:41: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:00:41: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:00:41: #1 total tags in treatment: 3900292 INFO @ Tue, 10 Dec 2019 15:00:41: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:00:41: #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 15:00:42: #1 tags after filtering in treatment: 3900292 INFO @ Tue, 10 Dec 2019 15:00:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:00:42: #1 finished! INFO @ Tue, 10 Dec 2019 15:00:42: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:00:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:00:42: #2 number of paired peaks: 44 WARNING @ Tue, 10 Dec 2019 15:00:42: Too few paired peaks (44) 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 15:00:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.10_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/SRX7106967/SRX7106967.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:00:49: 1000000 INFO @ Tue, 10 Dec 2019 15:00:57: 2000000 INFO @ Tue, 10 Dec 2019 15:01:04: 3000000 INFO @ Tue, 10 Dec 2019 15:01:11: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 15:01:11: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 15:01:11: #1 total tags in treatment: 3900292 INFO @ Tue, 10 Dec 2019 15:01:11: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:01:11: #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 15:01:11: #1 tags after filtering in treatment: 3900292 INFO @ Tue, 10 Dec 2019 15:01:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:01:11: #1 finished! INFO @ Tue, 10 Dec 2019 15:01:11: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:01:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:01:11: #2 number of paired peaks: 44 WARNING @ Tue, 10 Dec 2019 15:01:11: Too few paired peaks (44) 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 15:01:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.20_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/SRX7106967/SRX7106967.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7106967/SRX7106967.20_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。