Job ID = 4289076 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,249,406 reads read : 44,498,812 reads written : 22,249,406 reads 0-length : 22,249,406 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: 00:06:29 22249406 reads; of these: 22249406 (100.00%) were unpaired; of these: 2915150 (13.10%) aligned 0 times 12470633 (56.05%) aligned exactly 1 time 6863623 (30.85%) aligned >1 times 86.90% overall alignment rate Time searching: 00:06:29 Overall time: 00:06:29 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] 11318289 / 19334256 = 0.5854 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 13:47:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.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 13:47:02: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:47:02: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:47:12: 1000000 INFO @ Tue, 10 Dec 2019 13:47:21: 2000000 INFO @ Tue, 10 Dec 2019 13:47:30: 3000000 INFO @ Tue, 10 Dec 2019 13:47:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.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 13:47:32: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:47:32: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:47:38: 4000000 INFO @ Tue, 10 Dec 2019 13:47:40: 1000000 INFO @ Tue, 10 Dec 2019 13:47:47: 5000000 INFO @ Tue, 10 Dec 2019 13:47:48: 2000000 INFO @ Tue, 10 Dec 2019 13:47:55: 6000000 INFO @ Tue, 10 Dec 2019 13:47:56: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 13:48:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.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 13:48:02: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:48:02: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:48:03: 7000000 INFO @ Tue, 10 Dec 2019 13:48:04: 4000000 INFO @ Tue, 10 Dec 2019 13:48:11: 8000000 INFO @ Tue, 10 Dec 2019 13:48:11: #1 tag size is determined as 76 bps INFO @ Tue, 10 Dec 2019 13:48:11: #1 tag size = 76 INFO @ Tue, 10 Dec 2019 13:48:11: #1 total tags in treatment: 8015967 INFO @ Tue, 10 Dec 2019 13:48:11: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:48:11: #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 13:48:11: #1 tags after filtering in treatment: 8015967 INFO @ Tue, 10 Dec 2019 13:48:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:48:11: #1 finished! INFO @ Tue, 10 Dec 2019 13:48:11: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:48:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:48:12: 5000000 INFO @ Tue, 10 Dec 2019 13:48:12: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:48:12: 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 13:48:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.05_peaks.narrowPeak: No such file or directory INFO @ Tue, 10 Dec 2019 13:48:12: 1000000 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:48:21: 6000000 INFO @ Tue, 10 Dec 2019 13:48:22: 2000000 INFO @ Tue, 10 Dec 2019 13:48:31: 3000000 INFO @ Tue, 10 Dec 2019 13:48:31: 7000000 INFO @ Tue, 10 Dec 2019 13:48:40: 4000000 INFO @ Tue, 10 Dec 2019 13:48:40: 8000000 INFO @ Tue, 10 Dec 2019 13:48:41: #1 tag size is determined as 76 bps INFO @ Tue, 10 Dec 2019 13:48:41: #1 tag size = 76 INFO @ Tue, 10 Dec 2019 13:48:41: #1 total tags in treatment: 8015967 INFO @ Tue, 10 Dec 2019 13:48:41: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:48:41: #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 13:48:41: #1 tags after filtering in treatment: 8015967 INFO @ Tue, 10 Dec 2019 13:48:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:48:41: #1 finished! INFO @ Tue, 10 Dec 2019 13:48:41: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:48:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:48:41: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:48:41: 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 13:48:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.10_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/SRX5086838/SRX5086838.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:48:48: 5000000 INFO @ Tue, 10 Dec 2019 13:48:57: 6000000 INFO @ Tue, 10 Dec 2019 13:49:04: 7000000 INFO @ Tue, 10 Dec 2019 13:49:12: 8000000 INFO @ Tue, 10 Dec 2019 13:49:12: #1 tag size is determined as 76 bps INFO @ Tue, 10 Dec 2019 13:49:12: #1 tag size = 76 INFO @ Tue, 10 Dec 2019 13:49:12: #1 total tags in treatment: 8015967 INFO @ Tue, 10 Dec 2019 13:49:12: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:49:12: #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 13:49:12: #1 tags after filtering in treatment: 8015967 INFO @ Tue, 10 Dec 2019 13:49:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:49:12: #1 finished! INFO @ Tue, 10 Dec 2019 13:49:12: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:49:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:49:13: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:49:13: 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 13:49:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.20_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/SRX5086838/SRX5086838.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5086838/SRX5086838.20_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。