Job ID = 10608991 sra ファイルのダウンロード中... Completed: 1332385K bytes transferred in 59 seconds (181950K 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 41968363 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2745385/SRR5457316.sra Written 41968363 spots total rm: cannot remove `[DSE]RX*': そのようなファイルやディレクトリはありません rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:10:04 41968363 reads; of these: 41968363 (100.00%) were unpaired; of these: 6342975 (15.11%) aligned 0 times 22059355 (52.56%) aligned exactly 1 time 13566033 (32.32%) aligned >1 times 84.89% overall alignment rate Time searching: 00:10:04 Overall time: 00:10:04 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 16 files... [bam_rmdupse_core] 30098205 / 35625388 = 0.8449 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, 03 May 2018 23:13:49: # Command line: callpeak -t SRX2745385.bam -f BAM -g 12100000 -n SRX2745385.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2745385.20 # format = BAM # ChIP-seq file = ['SRX2745385.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, 03 May 2018 23:13:49: #1 read tag files... INFO @ Thu, 03 May 2018 23:13:49: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:13:49: # Command line: callpeak -t SRX2745385.bam -f BAM -g 12100000 -n SRX2745385.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2745385.10 # format = BAM # ChIP-seq file = ['SRX2745385.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, 03 May 2018 23:13:49: #1 read tag files... INFO @ Thu, 03 May 2018 23:13:49: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:13:49: # Command line: callpeak -t SRX2745385.bam -f BAM -g 12100000 -n SRX2745385.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2745385.05 # format = BAM # ChIP-seq file = ['SRX2745385.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, 03 May 2018 23:13:49: #1 read tag files... INFO @ Thu, 03 May 2018 23:13:49: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:13:55: 1000000 INFO @ Thu, 03 May 2018 23:13:55: 1000000 INFO @ Thu, 03 May 2018 23:13:55: 1000000 INFO @ Thu, 03 May 2018 23:14:01: 2000000 INFO @ Thu, 03 May 2018 23:14:01: 2000000 INFO @ Thu, 03 May 2018 23:14:01: 2000000 INFO @ Thu, 03 May 2018 23:14:07: 3000000 INFO @ Thu, 03 May 2018 23:14:08: 3000000 INFO @ Thu, 03 May 2018 23:14:08: 3000000 INFO @ Thu, 03 May 2018 23:14:13: 4000000 INFO @ Thu, 03 May 2018 23:14:14: 4000000 INFO @ Thu, 03 May 2018 23:14:14: 4000000 INFO @ Thu, 03 May 2018 23:14:19: 5000000 INFO @ Thu, 03 May 2018 23:14:20: 5000000 INFO @ Thu, 03 May 2018 23:14:20: 5000000 INFO @ Thu, 03 May 2018 23:14:23: #1 tag size is determined as 50 bps INFO @ Thu, 03 May 2018 23:14:23: #1 tag size = 50 INFO @ Thu, 03 May 2018 23:14:23: #1 total tags in treatment: 5527183 INFO @ Thu, 03 May 2018 23:14:23: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:14:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:14:23: #1 tags after filtering in treatment: 5527183 INFO @ Thu, 03 May 2018 23:14:23: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:14:23: #1 finished! INFO @ Thu, 03 May 2018 23:14:23: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:14:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:14:23: #1 tag size is determined as 50 bps INFO @ Thu, 03 May 2018 23:14:23: #1 tag size = 50 INFO @ Thu, 03 May 2018 23:14:23: #1 total tags in treatment: 5527183 INFO @ Thu, 03 May 2018 23:14:23: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:14:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:14:24: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:14:24: 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, 03 May 2018 23:14:24: Process for pairing-model is terminated! cat: SRX2745385.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis INFO @ Thu, 03 May 2018 23:14:24: #1 tags after filtering in treatment: 5527183 INFO @ Thu, 03 May 2018 23:14:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:14:24: #1 finished! INFO @ Thu, 03 May 2018 23:14:24: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:14:24: #2 looking for paired plus/minus strand peaks... needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2745385.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745385.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745385.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Thu, 03 May 2018 23:14:24: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:14:24: 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, 03 May 2018 23:14:24: Process for pairing-model is terminated! cat: SRX2745385.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2745385.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745385.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745385.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Thu, 03 May 2018 23:14:24: #1 tag size is determined as 50 bps INFO @ Thu, 03 May 2018 23:14:24: #1 tag size = 50 INFO @ Thu, 03 May 2018 23:14:24: #1 total tags in treatment: 5527183 INFO @ Thu, 03 May 2018 23:14:24: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:14:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:14:24: #1 tags after filtering in treatment: 5527183 INFO @ Thu, 03 May 2018 23:14:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:14:24: #1 finished! INFO @ Thu, 03 May 2018 23:14:24: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:14:24: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:14:25: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:14:25: 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, 03 May 2018 23:14:25: Process for pairing-model is terminated! cat: SRX2745385.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2745385.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745385.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745385.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。