Job ID = 11634661 sra ファイルのダウンロード中... Completed: 624255K bytes transferred in 8 seconds (573840K 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 32074691 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4092941/SRR7175369.sra Written 32074691 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4092941/SRR7175369.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: 00:04:37 32074691 reads; of these: 32074691 (100.00%) were unpaired; of these: 3548182 (11.06%) aligned 0 times 14861933 (46.34%) aligned exactly 1 time 13664576 (42.60%) aligned >1 times 88.94% overall alignment rate Time searching: 00:04:37 Overall time: 00:04:37 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 12 files... [bam_rmdupse_core] 21381706 / 28526509 = 0.7495 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 10:31:02: # Command line: callpeak -t SRX4092941.bam -f BAM -g 12100000 -n SRX4092941.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4092941.20 # format = BAM # ChIP-seq file = ['SRX4092941.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 10:31:02: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:31:02: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:31:02: # Command line: callpeak -t SRX4092941.bam -f BAM -g 12100000 -n SRX4092941.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4092941.10 # format = BAM # ChIP-seq file = ['SRX4092941.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 10:31:02: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:31:02: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:31:02: # Command line: callpeak -t SRX4092941.bam -f BAM -g 12100000 -n SRX4092941.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4092941.05 # format = BAM # ChIP-seq file = ['SRX4092941.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 10:31:02: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:31:02: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:31:09: 1000000 INFO @ Fri, 15 Feb 2019 10:31:09: 1000000 INFO @ Fri, 15 Feb 2019 10:31:09: 1000000 INFO @ Fri, 15 Feb 2019 10:31:16: 2000000 INFO @ Fri, 15 Feb 2019 10:31:16: 2000000 INFO @ Fri, 15 Feb 2019 10:31:16: 2000000 INFO @ Fri, 15 Feb 2019 10:31:22: 3000000 INFO @ Fri, 15 Feb 2019 10:31:23: 3000000 INFO @ Fri, 15 Feb 2019 10:31:23: 3000000 INFO @ Fri, 15 Feb 2019 10:31:29: 4000000 INFO @ Fri, 15 Feb 2019 10:31:30: 4000000 INFO @ Fri, 15 Feb 2019 10:31:30: 4000000 INFO @ Fri, 15 Feb 2019 10:31:36: 5000000 INFO @ Fri, 15 Feb 2019 10:31:37: 5000000 INFO @ Fri, 15 Feb 2019 10:31:37: 5000000 INFO @ Fri, 15 Feb 2019 10:31:42: 6000000 INFO @ Fri, 15 Feb 2019 10:31:44: 6000000 INFO @ Fri, 15 Feb 2019 10:31:44: 6000000 INFO @ Fri, 15 Feb 2019 10:31:49: 7000000 INFO @ Fri, 15 Feb 2019 10:31:50: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:31:50: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:31:50: #1 total tags in treatment: 7144803 INFO @ Fri, 15 Feb 2019 10:31:50: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:31:50: #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 10:31:50: #1 tags after filtering in treatment: 7144803 INFO @ Fri, 15 Feb 2019 10:31:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:31:50: #1 finished! INFO @ Fri, 15 Feb 2019 10:31:50: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:31:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:31:50: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:31:50: 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 10:31:50: Process for pairing-model is terminated! cat: SRX4092941.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4092941.20_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 `SRX4092941.20_*.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 `SRX4092941.20_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 10:31:51: 7000000 INFO @ Fri, 15 Feb 2019 10:31:51: 7000000 INFO @ Fri, 15 Feb 2019 10:31:52: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:31:52: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:31:52: #1 total tags in treatment: 7144803 INFO @ Fri, 15 Feb 2019 10:31:52: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:31:52: #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 10:31:52: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:31:52: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:31:52: #1 total tags in treatment: 7144803 INFO @ Fri, 15 Feb 2019 10:31:52: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:31:52: #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 10:31:52: #1 tags after filtering in treatment: 7144803 INFO @ Fri, 15 Feb 2019 10:31:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:31:52: #1 finished! INFO @ Fri, 15 Feb 2019 10:31:52: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:31:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:31:52: #1 tags after filtering in treatment: 7144803 INFO @ Fri, 15 Feb 2019 10:31:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:31:52: #1 finished! INFO @ Fri, 15 Feb 2019 10:31:52: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:31:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:31:52: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:31:52: 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 10:31:52: Process for pairing-model is terminated! INFO @ Fri, 15 Feb 2019 10:31:52: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:31:52: 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 10:31:52: Process for pairing-model is terminated! cat: SRX4092941.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4092941.10_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) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4092941.05_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 `SRX4092941.05_*.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 `SRX4092941.05_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 rm: cannot remove `SRX4092941.10_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 `SRX4092941.10_*.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 `SRX4092941.10_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。