Job ID = 11633752 sra ファイルのダウンロード中... Completed: 47192K bytes transferred in 3 seconds (109842K 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 1493188 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1420371/ERR1348847.sra Written 1493188 spots for /home/okishinya/chipatlas/results/sacCer3/ERX1420371/ERR1348847.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: 00:00:15 1493188 reads; of these: 1493188 (100.00%) were unpaired; of these: 292039 (19.56%) aligned 0 times 1058242 (70.87%) aligned exactly 1 time 142907 (9.57%) aligned >1 times 80.44% overall alignment rate Time searching: 00:00:15 Overall time: 00:00:15 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] 70655 / 1201149 = 0.0588 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 09:15:16: # Command line: callpeak -t ERX1420371.bam -f BAM -g 12100000 -n ERX1420371.05 -q 1e-05 # ARGUMENTS LIST: # name = ERX1420371.05 # format = BAM # ChIP-seq file = ['ERX1420371.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 09:15:16: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:15:16: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:15:16: # Command line: callpeak -t ERX1420371.bam -f BAM -g 12100000 -n ERX1420371.10 -q 1e-10 # ARGUMENTS LIST: # name = ERX1420371.10 # format = BAM # ChIP-seq file = ['ERX1420371.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 09:15:16: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:15:16: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:15:16: # Command line: callpeak -t ERX1420371.bam -f BAM -g 12100000 -n ERX1420371.20 -q 1e-20 # ARGUMENTS LIST: # name = ERX1420371.20 # format = BAM # ChIP-seq file = ['ERX1420371.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 09:15:16: #1 read tag files... INFO @ Fri, 15 Feb 2019 09:15:16: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 09:15:23: 1000000 INFO @ Fri, 15 Feb 2019 09:15:23: 1000000 INFO @ Fri, 15 Feb 2019 09:15:24: 1000000 INFO @ Fri, 15 Feb 2019 09:15:24: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:15:24: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:15:24: #1 total tags in treatment: 1130494 INFO @ Fri, 15 Feb 2019 09:15:24: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:15:24: #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 09:15:24: #1 tags after filtering in treatment: 1130494 INFO @ Fri, 15 Feb 2019 09:15:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:15:24: #1 finished! INFO @ Fri, 15 Feb 2019 09:15:24: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:15:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:15:24: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:15:24: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:15:24: #1 total tags in treatment: 1130494 INFO @ Fri, 15 Feb 2019 09:15:24: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:15:24: #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 09:15:24: #1 tags after filtering in treatment: 1130494 INFO @ Fri, 15 Feb 2019 09:15:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:15:24: #1 finished! INFO @ Fri, 15 Feb 2019 09:15:24: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:15:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:15:24: #2 number of paired peaks: 33 WARNING @ Fri, 15 Feb 2019 09:15:24: Too few paired peaks (33) 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 09:15:24: Process for pairing-model is terminated! cat: ERX1420371.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Fri, 15 Feb 2019 09:15:24: #2 number of paired peaks: 33 WARNING @ Fri, 15 Feb 2019 09:15:24: Too few paired peaks (33) 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 09:15:24: Process for pairing-model is terminated! cat: ERX1420371.20_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): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1420371.05_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 `ERX1420371.05_*.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 `ERX1420371.05_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 pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1420371.20_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 `ERX1420371.20_*.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 `ERX1420371.20_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 09:15:25: #1 tag size is determined as 51 bps INFO @ Fri, 15 Feb 2019 09:15:25: #1 tag size = 51 INFO @ Fri, 15 Feb 2019 09:15:25: #1 total tags in treatment: 1130494 INFO @ Fri, 15 Feb 2019 09:15:25: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 09:15:25: #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 09:15:25: #1 tags after filtering in treatment: 1130494 INFO @ Fri, 15 Feb 2019 09:15:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 09:15:25: #1 finished! INFO @ Fri, 15 Feb 2019 09:15:25: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 09:15:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 09:15:26: #2 number of paired peaks: 33 WARNING @ Fri, 15 Feb 2019 09:15:26: Too few paired peaks (33) 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 09:15:26: Process for pairing-model is terminated! cat: ERX1420371.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `ERX1420371.10_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 `ERX1420371.10_*.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 `ERX1420371.10_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。