Job ID = 11296198 sra ファイルのダウンロード中... Completed: 493659K bytes transferred in 19 seconds (204089K 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 14638417 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969166/SRR5770153.sra Written 14638417 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2969166/SRR5770153.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: 00:01:47 14638417 reads; of these: 14638417 (100.00%) were unpaired; of these: 8083318 (55.22%) aligned 0 times 4127470 (28.20%) aligned exactly 1 time 2427629 (16.58%) aligned >1 times 44.78% overall alignment rate Time searching: 00:01:47 Overall time: 00:01:47 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_rmdupse_core] 4580155 / 6555099 = 0.6987 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 @ Mon, 05 Nov 2018 17:39:47: # Command line: callpeak -t SRX2969166.bam -f BAM -g 12100000 -n SRX2969166.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2969166.20 # format = BAM # ChIP-seq file = ['SRX2969166.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 @ Mon, 05 Nov 2018 17:39:47: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:39:47: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:39:47: # Command line: callpeak -t SRX2969166.bam -f BAM -g 12100000 -n SRX2969166.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2969166.05 # format = BAM # ChIP-seq file = ['SRX2969166.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 @ Mon, 05 Nov 2018 17:39:47: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:39:47: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:39:47: # Command line: callpeak -t SRX2969166.bam -f BAM -g 12100000 -n SRX2969166.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2969166.10 # format = BAM # ChIP-seq file = ['SRX2969166.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 @ Mon, 05 Nov 2018 17:39:47: #1 read tag files... INFO @ Mon, 05 Nov 2018 17:39:47: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 17:39:53: 1000000 INFO @ Mon, 05 Nov 2018 17:39:54: 1000000 INFO @ Mon, 05 Nov 2018 17:39:54: 1000000 INFO @ Mon, 05 Nov 2018 17:40:00: #1 tag size is determined as 51 bps INFO @ Mon, 05 Nov 2018 17:40:00: #1 tag size = 51 INFO @ Mon, 05 Nov 2018 17:40:00: #1 total tags in treatment: 1974944 INFO @ Mon, 05 Nov 2018 17:40:00: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:40:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:40:00: #1 tags after filtering in treatment: 1974944 INFO @ Mon, 05 Nov 2018 17:40:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:40:00: #1 finished! INFO @ Mon, 05 Nov 2018 17:40:00: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:40:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:40:00: #2 number of paired peaks: 69 WARNING @ Mon, 05 Nov 2018 17:40:00: Too few paired peaks (69) 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 @ Mon, 05 Nov 2018 17:40:00: Process for pairing-model is terminated! INFO @ Mon, 05 Nov 2018 17:40:00: #1 tag size is determined as 51 bps INFO @ Mon, 05 Nov 2018 17:40:00: #1 tag size = 51 INFO @ Mon, 05 Nov 2018 17:40:00: #1 total tags in treatment: 1974944 INFO @ Mon, 05 Nov 2018 17:40:00: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:40:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) cat: SRX2969166.20_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 `SRX2969166.20_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 `SRX2969166.20_*.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 `SRX2969166.20_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 @ Mon, 05 Nov 2018 17:40:00: #1 tags after filtering in treatment: 1974944 INFO @ Mon, 05 Nov 2018 17:40:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:40:00: #1 finished! INFO @ Mon, 05 Nov 2018 17:40:00: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:40:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:40:00: #1 tag size is determined as 51 bps INFO @ Mon, 05 Nov 2018 17:40:00: #1 tag size = 51 INFO @ Mon, 05 Nov 2018 17:40:00: #1 total tags in treatment: 1974944 INFO @ Mon, 05 Nov 2018 17:40:00: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 17:40:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 05 Nov 2018 17:40:00: #1 tags after filtering in treatment: 1974944 INFO @ Mon, 05 Nov 2018 17:40:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 17:40:00: #1 finished! INFO @ Mon, 05 Nov 2018 17:40:00: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 17:40:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 17:40:00: #2 number of paired peaks: 69 WARNING @ Mon, 05 Nov 2018 17:40:00: Too few paired peaks (69) 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 @ Mon, 05 Nov 2018 17:40:00: Process for pairing-model is terminated! cat: SRX2969166.10_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2969166.10_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 `SRX2969166.10_*.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 `SRX2969166.10_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 @ Mon, 05 Nov 2018 17:40:01: #2 number of paired peaks: 69 WARNING @ Mon, 05 Nov 2018 17:40:01: Too few paired peaks (69) 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 @ Mon, 05 Nov 2018 17:40:01: Process for pairing-model is terminated! cat: SRX2969166.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2969166.05_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 `SRX2969166.05_*.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 `SRX2969166.05_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。