Job ID = 10453720 sra ファイルのダウンロード中... Completed: 735926K bytes transferred in 11 seconds (542385K 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 16629495 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3560269/SRR6470384.sra Written 16629495 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: 00:10:47 16629495 reads; of these: 16629495 (100.00%) were unpaired; of these: 798171 (4.80%) aligned 0 times 14141225 (85.04%) aligned exactly 1 time 1690099 (10.16%) aligned >1 times 95.20% overall alignment rate Time searching: 00:10:47 Overall time: 00:10:47 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] 6294407 / 15831324 = 0.3976 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 18:30:57: # Command line: callpeak -t SRX3560269.bam -f BAM -g 12100000 -n SRX3560269.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3560269.20 # format = BAM # ChIP-seq file = ['SRX3560269.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 18:30:57: # Command line: callpeak -t SRX3560269.bam -f BAM -g 12100000 -n SRX3560269.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3560269.05 # format = BAM # ChIP-seq file = ['SRX3560269.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 18:30:57: # Command line: callpeak -t SRX3560269.bam -f BAM -g 12100000 -n SRX3560269.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3560269.10 # format = BAM # ChIP-seq file = ['SRX3560269.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 18:30:57: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:30:57: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:30:57: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:30:57: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:30:57: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:30:57: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:31:08: 1000000 INFO @ Thu, 08 Feb 2018 18:31:08: 1000000 INFO @ Thu, 08 Feb 2018 18:31:08: 1000000 INFO @ Thu, 08 Feb 2018 18:31:18: 2000000 INFO @ Thu, 08 Feb 2018 18:31:19: 2000000 INFO @ Thu, 08 Feb 2018 18:31:19: 2000000 INFO @ Thu, 08 Feb 2018 18:31:28: 3000000 INFO @ Thu, 08 Feb 2018 18:31:29: 3000000 INFO @ Thu, 08 Feb 2018 18:31:29: 3000000 INFO @ Thu, 08 Feb 2018 18:31:39: 4000000 INFO @ Thu, 08 Feb 2018 18:31:40: 4000000 INFO @ Thu, 08 Feb 2018 18:31:40: 4000000 INFO @ Thu, 08 Feb 2018 18:31:50: 5000000 INFO @ Thu, 08 Feb 2018 18:31:51: 5000000 INFO @ Thu, 08 Feb 2018 18:31:51: 5000000 INFO @ Thu, 08 Feb 2018 18:32:00: 6000000 INFO @ Thu, 08 Feb 2018 18:32:02: 6000000 INFO @ Thu, 08 Feb 2018 18:32:02: 6000000 INFO @ Thu, 08 Feb 2018 18:32:11: 7000000 INFO @ Thu, 08 Feb 2018 18:32:13: 7000000 INFO @ Thu, 08 Feb 2018 18:32:14: 7000000 INFO @ Thu, 08 Feb 2018 18:32:21: 8000000 INFO @ Thu, 08 Feb 2018 18:32:23: 8000000 INFO @ Thu, 08 Feb 2018 18:32:26: 8000000 INFO @ Thu, 08 Feb 2018 18:32:34: 9000000 INFO @ Thu, 08 Feb 2018 18:32:34: 9000000 INFO @ Thu, 08 Feb 2018 18:32:36: 9000000 INFO @ Thu, 08 Feb 2018 18:32:40: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:32:40: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:32:40: #1 total tags in treatment: 9536917 INFO @ Thu, 08 Feb 2018 18:32:40: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:32:40: #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 18:32:40: #1 tags after filtering in treatment: 9536917 INFO @ Thu, 08 Feb 2018 18:32:40: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:32:40: #1 finished! INFO @ Thu, 08 Feb 2018 18:32:40: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:32:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:32:41: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:32:41: 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 @ Thu, 08 Feb 2018 18:32:41: Process for pairing-model is terminated! cat: SRX3560269.05_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 `SRX3560269.05_model.r': No such file or directory rm: cannot remove `SRX3560269.05_*.xls': No such file or directory rm: cannot remove `SRX3560269.05_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:32:41: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:32:41: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:32:41: #1 total tags in treatment: 9536917 INFO @ Thu, 08 Feb 2018 18:32:41: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:32:41: #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 18:32:41: #1 tags after filtering in treatment: 9536917 INFO @ Thu, 08 Feb 2018 18:32:41: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:32:41: #1 finished! INFO @ Thu, 08 Feb 2018 18:32:41: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:32:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:32:41: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:32:41: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:32:41: #1 total tags in treatment: 9536917 INFO @ Thu, 08 Feb 2018 18:32:41: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:32:41: #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 18:32:42: #1 tags after filtering in treatment: 9536917 INFO @ Thu, 08 Feb 2018 18:32:42: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:32:42: #1 finished! INFO @ Thu, 08 Feb 2018 18:32:42: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:32:42: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:32:42: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:32:42: 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 18:32:42: Process for pairing-model is terminated! cat: SRX3560269.10_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 `SRX3560269.10_model.r': No such file or directory rm: cannot remove `SRX3560269.10_*.xls': No such file or directory rm: cannot remove `SRX3560269.10_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:32:42: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:32:42: 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 18:32:42: Process for pairing-model is terminated! cat: SRX3560269.20_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 `SRX3560269.20_model.r': No such file or directory rm: cannot remove `SRX3560269.20_*.xls': No such file or directory rm: cannot remove `SRX3560269.20_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。