Job ID = 10453723 sra ファイルのダウンロード中... Completed: 486812K bytes transferred in 36 seconds (109619K 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 11036661 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3560271/SRR6470382.sra Written 11036661 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: 00:09:13 11036661 reads; of these: 11036661 (100.00%) were unpaired; of these: 803153 (7.28%) aligned 0 times 8878854 (80.45%) aligned exactly 1 time 1354654 (12.27%) aligned >1 times 92.72% overall alignment rate Time searching: 00:09:13 Overall time: 00:09:13 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] 3625517 / 10233508 = 0.3543 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 18:30:03: # Command line: callpeak -t SRX3560271.bam -f BAM -g 12100000 -n SRX3560271.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3560271.20 # format = BAM # ChIP-seq file = ['SRX3560271.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 18:30:03: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:30:03: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:30:03: # Command line: callpeak -t SRX3560271.bam -f BAM -g 12100000 -n SRX3560271.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3560271.05 # format = BAM # ChIP-seq file = ['SRX3560271.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 18:30:03: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:30:03: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:30:03: # Command line: callpeak -t SRX3560271.bam -f BAM -g 12100000 -n SRX3560271.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3560271.10 # format = BAM # ChIP-seq file = ['SRX3560271.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 18:30:03: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:30:03: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:30:15: 1000000 INFO @ Thu, 08 Feb 2018 18:30:15: 1000000 INFO @ Thu, 08 Feb 2018 18:30:15: 1000000 INFO @ Thu, 08 Feb 2018 18:30:25: 2000000 INFO @ Thu, 08 Feb 2018 18:30:26: 2000000 INFO @ Thu, 08 Feb 2018 18:30:27: 2000000 INFO @ Thu, 08 Feb 2018 18:30:36: 3000000 INFO @ Thu, 08 Feb 2018 18:30:37: 3000000 INFO @ Thu, 08 Feb 2018 18:30:39: 3000000 INFO @ Thu, 08 Feb 2018 18:30:49: 4000000 INFO @ Thu, 08 Feb 2018 18:30:50: 4000000 INFO @ Thu, 08 Feb 2018 18:30:50: 4000000 INFO @ Thu, 08 Feb 2018 18:31:01: 5000000 INFO @ Thu, 08 Feb 2018 18:31:03: 5000000 INFO @ Thu, 08 Feb 2018 18:31:04: 5000000 INFO @ Thu, 08 Feb 2018 18:31:13: 6000000 INFO @ Thu, 08 Feb 2018 18:31:16: 6000000 INFO @ Thu, 08 Feb 2018 18:31:17: 6000000 INFO @ Thu, 08 Feb 2018 18:31:19: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:31:19: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:31:19: #1 total tags in treatment: 6607991 INFO @ Thu, 08 Feb 2018 18:31:19: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:31:19: #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 18:31:20: #1 tags after filtering in treatment: 6607991 INFO @ Thu, 08 Feb 2018 18:31:20: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:31:20: #1 finished! INFO @ Thu, 08 Feb 2018 18:31:20: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:31:20: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:31:20: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:31:20: 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 18:31:20: Process for pairing-model is terminated! cat: SRX3560271.10_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 `SRX3560271.10_model.r': No such file or directory rm: cannot remove `SRX3560271.10_*.xls': No such file or directory rm: cannot remove `SRX3560271.10_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:31:23: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:31:23: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:31:23: #1 total tags in treatment: 6607991 INFO @ Thu, 08 Feb 2018 18:31:23: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:31:23: #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 18:31:23: #1 tags after filtering in treatment: 6607991 INFO @ Thu, 08 Feb 2018 18:31:23: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:31:23: #1 finished! INFO @ Thu, 08 Feb 2018 18:31:23: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:31:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:31:24: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:31:24: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:31:24: #1 total tags in treatment: 6607991 INFO @ Thu, 08 Feb 2018 18:31:24: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:31:24: #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 18:31:24: #1 tags after filtering in treatment: 6607991 INFO @ Thu, 08 Feb 2018 18:31:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:31:24: #1 finished! INFO @ Thu, 08 Feb 2018 18:31:24: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:31:24: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:31:24: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:31:24: 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 18:31:24: Process for pairing-model is terminated! cat: SRX3560271.20_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 `SRX3560271.20_model.r': No such file or directory rm: cannot remove `SRX3560271.20_*.xls': No such file or directory rm: cannot remove `SRX3560271.20_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:31:24: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:31:24: 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 18:31:24: Process for pairing-model is terminated! cat: SRX3560271.05_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 `SRX3560271.05_model.r': No such file or directory rm: cannot remove `SRX3560271.05_*.xls': No such file or directory rm: cannot remove `SRX3560271.05_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。