Job ID = 10453717 sra ファイルのダウンロード中... Completed: 602985K bytes transferred in 14 seconds (341313K bits/sec), in 1 file. sra ファイルのダウンロードが完了しました。 Read layout: SINGLE fastq に変換中... Written 13632962 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3560266/SRR6470387.sra Written 13632962 spots total rm: cannot remove `[DSE]RX*': No such file or directory rm: cannot remove `[DSE]RR*.fastq': 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: 00:09:18 13632962 reads; of these: 13632962 (100.00%) were unpaired; of these: 814952 (5.98%) aligned 0 times 11422552 (83.79%) aligned exactly 1 time 1395458 (10.24%) aligned >1 times 94.02% overall alignment rate Time searching: 00:09:18 Overall time: 00:09:18 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] 4437414 / 12818010 = 0.3462 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 @ Thu, 08 Feb 2018 18:27:01: # Command line: callpeak -t SRX3560266.bam -f BAM -g 12100000 -n SRX3560266.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3560266.10 # format = BAM # ChIP-seq file = ['SRX3560266.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 @ Thu, 08 Feb 2018 18:27:01: # Command line: callpeak -t SRX3560266.bam -f BAM -g 12100000 -n SRX3560266.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3560266.20 # format = BAM # ChIP-seq file = ['SRX3560266.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 @ Thu, 08 Feb 2018 18:27:01: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:27:01: # Command line: callpeak -t SRX3560266.bam -f BAM -g 12100000 -n SRX3560266.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3560266.05 # format = BAM # ChIP-seq file = ['SRX3560266.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 @ Thu, 08 Feb 2018 18:27:01: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:27:01: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:27:01: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:27:01: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:27:01: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:27:13: 1000000 INFO @ Thu, 08 Feb 2018 18:27:14: 1000000 INFO @ Thu, 08 Feb 2018 18:27:14: 1000000 INFO @ Thu, 08 Feb 2018 18:27:25: 2000000 INFO @ Thu, 08 Feb 2018 18:27:26: 2000000 INFO @ Thu, 08 Feb 2018 18:27:27: 2000000 INFO @ Thu, 08 Feb 2018 18:27:37: 3000000 INFO @ Thu, 08 Feb 2018 18:27:38: 3000000 INFO @ Thu, 08 Feb 2018 18:27:39: 3000000 INFO @ Thu, 08 Feb 2018 18:27:50: 4000000 INFO @ Thu, 08 Feb 2018 18:27:50: 4000000 INFO @ Thu, 08 Feb 2018 18:27:52: 4000000 INFO @ Thu, 08 Feb 2018 18:28:03: 5000000 INFO @ Thu, 08 Feb 2018 18:28:03: 5000000 INFO @ Thu, 08 Feb 2018 18:28:04: 5000000 INFO @ Thu, 08 Feb 2018 18:28:15: 6000000 INFO @ Thu, 08 Feb 2018 18:28:16: 6000000 INFO @ Thu, 08 Feb 2018 18:28:17: 6000000 INFO @ Thu, 08 Feb 2018 18:28:26: 7000000 INFO @ Thu, 08 Feb 2018 18:28:29: 7000000 INFO @ Thu, 08 Feb 2018 18:28:29: 7000000 INFO @ Thu, 08 Feb 2018 18:28:38: 8000000 INFO @ Thu, 08 Feb 2018 18:28:42: 8000000 INFO @ Thu, 08 Feb 2018 18:28:42: 8000000 INFO @ Thu, 08 Feb 2018 18:28:43: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:28:43: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:28:43: #1 total tags in treatment: 8380596 INFO @ Thu, 08 Feb 2018 18:28:43: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:28:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:28:43: #1 tags after filtering in treatment: 8380596 INFO @ Thu, 08 Feb 2018 18:28:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:28:43: #1 finished! INFO @ Thu, 08 Feb 2018 18:28:43: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:28:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:28:43: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:28:43: 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 @ Thu, 08 Feb 2018 18:28:43: Process for pairing-model is terminated! cat: SRX3560266.10_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 `SRX3560266.10_model.r': No such file or directory rm: cannot remove `SRX3560266.10_*.xls': No such file or directory rm: cannot remove `SRX3560266.10_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:28:47: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:28:47: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:28:47: #1 total tags in treatment: 8380596 INFO @ Thu, 08 Feb 2018 18:28:47: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:28:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:28:47: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:28:47: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:28:47: #1 total tags in treatment: 8380596 INFO @ Thu, 08 Feb 2018 18:28:47: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:28:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:28:47: #1 tags after filtering in treatment: 8380596 INFO @ Thu, 08 Feb 2018 18:28:47: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:28:47: #1 finished! INFO @ Thu, 08 Feb 2018 18:28:47: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:28:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:28:47: #1 tags after filtering in treatment: 8380596 INFO @ Thu, 08 Feb 2018 18:28:47: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:28:47: #1 finished! INFO @ Thu, 08 Feb 2018 18:28:47: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:28:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:28:48: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:28:48: 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 @ Thu, 08 Feb 2018 18:28:48: Process for pairing-model is terminated! cat: SRX3560266.20_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 `SRX3560266.20_model.r': No such file or directory rm: cannot remove `SRX3560266.20_*.xls': No such file or directory rm: cannot remove `SRX3560266.20_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:28:48: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:28:48: 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 @ Thu, 08 Feb 2018 18:28:48: Process for pairing-model is terminated! cat: SRX3560266.05_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 `SRX3560266.05_model.r': No such file or directory rm: cannot remove `SRX3560266.05_*.xls': No such file or directory rm: cannot remove `SRX3560266.05_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。