Job ID = 11192988 sra ファイルのダウンロード中... Completed: 28523K bytes transferred in 3 seconds (70914K 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 1373046 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233673/SRR7360876.sra Written 1373046 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233673/SRR7360876.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: 00:00:17 1373046 reads; of these: 1373046 (100.00%) were unpaired; of these: 66913 (4.87%) aligned 0 times 1136459 (82.77%) aligned exactly 1 time 169674 (12.36%) aligned >1 times 95.13% overall alignment rate Time searching: 00:00:17 Overall time: 00:00:17 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] 116209 / 1306133 = 0.0890 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 @ Sat, 15 Sep 2018 10:43:46: # Command line: callpeak -t SRX4233673.bam -f BAM -g 12100000 -n SRX4233673.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4233673.10 # format = BAM # ChIP-seq file = ['SRX4233673.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 @ Sat, 15 Sep 2018 10:43:46: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:43:46: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:43:46: # Command line: callpeak -t SRX4233673.bam -f BAM -g 12100000 -n SRX4233673.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4233673.05 # format = BAM # ChIP-seq file = ['SRX4233673.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 @ Sat, 15 Sep 2018 10:43:46: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:43:46: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:43:46: # Command line: callpeak -t SRX4233673.bam -f BAM -g 12100000 -n SRX4233673.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4233673.20 # format = BAM # ChIP-seq file = ['SRX4233673.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 @ Sat, 15 Sep 2018 10:43:46: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:43:46: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:43:53: 1000000 INFO @ Sat, 15 Sep 2018 10:43:53: 1000000 INFO @ Sat, 15 Sep 2018 10:43:53: 1000000 INFO @ Sat, 15 Sep 2018 10:43:54: #1 tag size is determined as 48 bps INFO @ Sat, 15 Sep 2018 10:43:54: #1 tag size = 48 INFO @ Sat, 15 Sep 2018 10:43:54: #1 total tags in treatment: 1189924 INFO @ Sat, 15 Sep 2018 10:43:54: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:43:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:43:54: #1 tags after filtering in treatment: 1189924 INFO @ Sat, 15 Sep 2018 10:43:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:43:54: #1 finished! INFO @ Sat, 15 Sep 2018 10:43:54: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:43:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:43:54: #2 number of paired peaks: 98 WARNING @ Sat, 15 Sep 2018 10:43:54: Too few paired peaks (98) 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 @ Sat, 15 Sep 2018 10:43:54: Process for pairing-model is terminated! cat: SRX4233673.10_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 `SRX4233673.10_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 `SRX4233673.10_*.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 `SRX4233673.10_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 @ Sat, 15 Sep 2018 10:43:55: #1 tag size is determined as 48 bps INFO @ Sat, 15 Sep 2018 10:43:55: #1 tag size is determined as 48 bps INFO @ Sat, 15 Sep 2018 10:43:55: #1 tag size = 48 INFO @ Sat, 15 Sep 2018 10:43:55: #1 tag size = 48 INFO @ Sat, 15 Sep 2018 10:43:55: #1 total tags in treatment: 1189924 INFO @ Sat, 15 Sep 2018 10:43:55: #1 total tags in treatment: 1189924 INFO @ Sat, 15 Sep 2018 10:43:55: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:43:55: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:43:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:43:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:43:55: #1 tags after filtering in treatment: 1189924 INFO @ Sat, 15 Sep 2018 10:43:55: #1 tags after filtering in treatment: 1189924 INFO @ Sat, 15 Sep 2018 10:43:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:43:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:43:55: #1 finished! INFO @ Sat, 15 Sep 2018 10:43:55: #1 finished! INFO @ Sat, 15 Sep 2018 10:43:55: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:43:55: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:43:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:43:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:43:55: #2 number of paired peaks: 98 WARNING @ Sat, 15 Sep 2018 10:43:55: Too few paired peaks (98) 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 @ Sat, 15 Sep 2018 10:43:55: Process for pairing-model is terminated! INFO @ Sat, 15 Sep 2018 10:43:55: #2 number of paired peaks: 98 WARNING @ Sat, 15 Sep 2018 10:43:55: Too few paired peaks (98) 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 @ Sat, 15 Sep 2018 10:43:55: Process for pairing-model is terminated! cat: SRX4233673.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4233673.05_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 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4233673.20_model.r'rm: cannot remove `SRX4233673.05_model.r': そのようなファイルやディレクトリはありません : 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 `SRX4233673.20_*.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 `SRX4233673.05_*.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 `SRX4233673.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4233673.05_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 CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。