Job ID = 10937664 sra ファイルのダウンロード中... Completed: 124771K bytes transferred in 4 seconds (213713K 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 3727129 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463310/SRR6367849.sra Written 3727129 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463310/SRR6367849.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: 00:00:39 3727129 reads; of these: 3727129 (100.00%) were unpaired; of these: 629428 (16.89%) aligned 0 times 2781477 (74.63%) aligned exactly 1 time 316224 (8.48%) aligned >1 times 83.11% overall alignment rate Time searching: 00:00:39 Overall time: 00:00:39 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] 834326 / 3097701 = 0.2693 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, 10 Aug 2018 02:47:32: # Command line: callpeak -t SRX3463310.bam -f BAM -g 12100000 -n SRX3463310.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3463310.20 # format = BAM # ChIP-seq file = ['SRX3463310.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, 10 Aug 2018 02:47:32: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:47:32: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:47:32: # Command line: callpeak -t SRX3463310.bam -f BAM -g 12100000 -n SRX3463310.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3463310.10 # format = BAM # ChIP-seq file = ['SRX3463310.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, 10 Aug 2018 02:47:32: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:47:32: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:47:32: # Command line: callpeak -t SRX3463310.bam -f BAM -g 12100000 -n SRX3463310.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3463310.05 # format = BAM # ChIP-seq file = ['SRX3463310.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, 10 Aug 2018 02:47:32: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:47:32: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:47:42: 1000000 INFO @ Fri, 10 Aug 2018 02:47:42: 1000000 INFO @ Fri, 10 Aug 2018 02:47:42: 1000000 INFO @ Fri, 10 Aug 2018 02:47:51: 2000000 INFO @ Fri, 10 Aug 2018 02:47:51: 2000000 INFO @ Fri, 10 Aug 2018 02:47:51: 2000000 INFO @ Fri, 10 Aug 2018 02:47:54: #1 tag size is determined as 45 bps INFO @ Fri, 10 Aug 2018 02:47:54: #1 tag size is determined as 45 bps INFO @ Fri, 10 Aug 2018 02:47:54: #1 tag size = 45 INFO @ Fri, 10 Aug 2018 02:47:54: #1 tag size = 45 INFO @ Fri, 10 Aug 2018 02:47:54: #1 total tags in treatment: 2263375 INFO @ Fri, 10 Aug 2018 02:47:54: #1 total tags in treatment: 2263375 INFO @ Fri, 10 Aug 2018 02:47:54: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:47:54: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:47:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:47:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:47:54: #1 tag size is determined as 45 bps INFO @ Fri, 10 Aug 2018 02:47:54: #1 tag size = 45 INFO @ Fri, 10 Aug 2018 02:47:54: #1 total tags in treatment: 2263375 INFO @ Fri, 10 Aug 2018 02:47:54: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:47:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 02:47:54: #1 tags after filtering in treatment: 2263375 INFO @ Fri, 10 Aug 2018 02:47:54: #1 tags after filtering in treatment: 2263375 INFO @ Fri, 10 Aug 2018 02:47:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:47:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:47:54: #1 finished! INFO @ Fri, 10 Aug 2018 02:47:54: #1 finished! INFO @ Fri, 10 Aug 2018 02:47:54: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:47:54: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:47:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:47:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:47:54: #1 tags after filtering in treatment: 2263375 INFO @ Fri, 10 Aug 2018 02:47:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:47:54: #1 finished! INFO @ Fri, 10 Aug 2018 02:47:54: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:47:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:47:54: #2 number of paired peaks: 92 WARNING @ Fri, 10 Aug 2018 02:47:54: Too few paired peaks (92) 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, 10 Aug 2018 02:47:54: Process for pairing-model is terminated! INFO @ Fri, 10 Aug 2018 02:47:54: #2 number of paired peaks: 92 WARNING @ Fri, 10 Aug 2018 02:47:54: Too few paired peaks (92) 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, 10 Aug 2018 02:47:54: Process for pairing-model is terminated! INFO @ Fri, 10 Aug 2018 02:47:54: #2 number of paired peaks: 92 WARNING @ Fri, 10 Aug 2018 02:47:54: Too few paired peaks (92) 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, 10 Aug 2018 02:47:54: Process for pairing-model is terminated! cat: SRX3463310.20_peaks.narrowPeakcat: SRX3463310.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません: そのようなファイルやディレクトリはありません cat: SRX3463310.10_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) pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3463310.05_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 `SRX3463310.05_*.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 `SRX3463310.20_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 `SRX3463310.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3463310.20_*.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 `SRX3463310.20_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 pass1 - making usageList (0 chroms): 2 millis CompletedMACS2peakCalling needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3463310.10_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 `SRX3463310.10_*.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 `SRX3463310.10_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。