Job ID = 11634011 sra ファイルのダウンロード中... Completed: 281206K bytes transferred in 6 seconds (333474K 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... Read 10320097 spots for /home/okishinya/chipatlas/results/sacCer3/ERX2558658/ERR2540240.sra Written 10320097 spots for /home/okishinya/chipatlas/results/sacCer3/ERX2558658/ERR2540240.sra 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: 00:02:12 10320097 reads; of these: 10320097 (100.00%) were unpaired; of these: 277131 (2.69%) aligned 0 times 8013762 (77.65%) aligned exactly 1 time 2029204 (19.66%) aligned >1 times 97.31% overall alignment rate Time searching: 00:02:12 Overall time: 00:02:12 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] 3115493 / 10042966 = 0.3102 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 @ Fri, 15 Feb 2019 09:26:53: # Command line: callpeak -t ERX2558658.bam -f BAM -g 12100000 -n ERX2558658.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX2558658.10 # format = BAM # ChIP-seq file = ['ERX2558658.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 @ Fri, 15 Feb 2019 09:26:53: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:26:53: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:26:53: # Command line: callpeak -t ERX2558658.bam -f BAM -g 12100000 -n ERX2558658.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX2558658.20 # format = BAM # ChIP-seq file = ['ERX2558658.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 @ Fri, 15 Feb 2019 09:26:53: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:26:53: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:26:53: # Command line: callpeak -t ERX2558658.bam -f BAM -g 12100000 -n ERX2558658.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX2558658.05 # format = BAM # ChIP-seq file = ['ERX2558658.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 @ Fri, 15 Feb 2019 09:26:53: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:26:53: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:26:59: 1000000 INFO @ Fri, 15 Feb 2019 09:26:59: 1000000 INFO @ Fri, 15 Feb 2019 09:26:59: 1000000 INFO @ Fri, 15 Feb 2019 09:27:05: 2000000 INFO @ Fri, 15 Feb 2019 09:27:05: 2000000 INFO @ Fri, 15 Feb 2019 09:27:05: 2000000 INFO @ Fri, 15 Feb 2019 09:27:12: 3000000 INFO @ Fri, 15 Feb 2019 09:27:12: 3000000 INFO @ Fri, 15 Feb 2019 09:27:13: 3000000 INFO @ Fri, 15 Feb 2019 09:27:19: 4000000 INFO @ Fri, 15 Feb 2019 09:27:20: 4000000 INFO @ Fri, 15 Feb 2019 09:27:22: 4000000 INFO @ Fri, 15 Feb 2019 09:27:26: 5000000 INFO @ Fri, 15 Feb 2019 09:27:28: 5000000 INFO @ Fri, 15 Feb 2019 09:27:32: 5000000 INFO @ Fri, 15 Feb 2019 09:27:34: 6000000 INFO @ Fri, 15 Feb 2019 09:27:36: 6000000 INFO @ Fri, 15 Feb 2019 09:27:39: 6000000 INFO @ Fri, 15 Feb 2019 09:27:39: #1 tag size is determined as 66 bps INFO @ Fri, 15 Feb 2019 09:27:39: #1 tag size = 66 INFO @ Fri, 15 Feb 2019 09:27:39: #1 total tags in treatment: 6927473 INFO @ Fri, 15 Feb 2019 09:27:39: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:27:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:27:40: #1 tags after filtering in treatment: 6927473 INFO @ Fri, 15 Feb 2019 09:27:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:27:40: #1 finished! INFO @ Fri, 15 Feb 2019 09:27:40: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:27:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:27:40: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 09:27:40: 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 @ Fri, 15 Feb 2019 09:27:40: Process for pairing-model is terminated! cat: ERX2558658.20_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 `ERX2558658.20_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 `ERX2558658.20_*.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 `ERX2558658.20_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 @ Fri, 15 Feb 2019 09:27:43: #1 tag size is determined as 66 bps INFO @ Fri, 15 Feb 2019 09:27:43: #1 tag size = 66 INFO @ Fri, 15 Feb 2019 09:27:43: #1 total tags in treatment: 6927473 INFO @ Fri, 15 Feb 2019 09:27:43: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:27:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:27:43: #1 tags after filtering in treatment: 6927473 INFO @ Fri, 15 Feb 2019 09:27:43: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:27:43: #1 finished! INFO @ Fri, 15 Feb 2019 09:27:43: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:27:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:27:43: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 09:27:43: 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 @ Fri, 15 Feb 2019 09:27:43: Process for pairing-model is terminated! cat: ERX2558658.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX2558658.05_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 `ERX2558658.05_*.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 `ERX2558658.05_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 INFO @ Fri, 15 Feb 2019 09:27:45: #1 tag size is determined as 66 bps INFO @ Fri, 15 Feb 2019 09:27:45: #1 tag size = 66 INFO @ Fri, 15 Feb 2019 09:27:45: #1 total tags in treatment: 6927473 INFO @ Fri, 15 Feb 2019 09:27:45: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:27:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 09:27:45: #1 tags after filtering in treatment: 6927473 INFO @ Fri, 15 Feb 2019 09:27:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:27:45: #1 finished! INFO @ Fri, 15 Feb 2019 09:27:45: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:27:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:27:45: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 09:27:45: 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 @ Fri, 15 Feb 2019 09:27:45: Process for pairing-model is terminated! cat: ERX2558658.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX2558658.10_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 `ERX2558658.10_*.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 `ERX2558658.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。