Job ID = 11296955 sra ファイルのダウンロード中... Completed: 199613K bytes transferred in 6 seconds (256728K 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 10152134 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3856377/SRR6908195.sra Written 10152134 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3856377/SRR6908195.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: 00:01:45 10152134 reads; of these: 10152134 (100.00%) were unpaired; of these: 342613 (3.37%) aligned 0 times 8271386 (81.47%) aligned exactly 1 time 1538135 (15.15%) aligned >1 times 96.63% overall alignment rate Time searching: 00:01:45 Overall time: 00:01:45 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] 2666364 / 9809521 = 0.2718 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 18:04:36: # Command line: callpeak -t SRX3856377.bam -f BAM -g 12100000 -n SRX3856377.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3856377.05 # format = BAM # ChIP-seq file = ['SRX3856377.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 18:04:36: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:04:36: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:04:36: # Command line: callpeak -t SRX3856377.bam -f BAM -g 12100000 -n SRX3856377.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3856377.10 # format = BAM # ChIP-seq file = ['SRX3856377.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 18:04:36: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:04:36: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:04:36: # Command line: callpeak -t SRX3856377.bam -f BAM -g 12100000 -n SRX3856377.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3856377.20 # format = BAM # ChIP-seq file = ['SRX3856377.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 18:04:36: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:04:36: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:04:42: 1000000 INFO @ Mon, 05 Nov 2018 18:04:42: 1000000 INFO @ Mon, 05 Nov 2018 18:04:42: 1000000 INFO @ Mon, 05 Nov 2018 18:04:49: 2000000 INFO @ Mon, 05 Nov 2018 18:04:49: 2000000 INFO @ Mon, 05 Nov 2018 18:04:49: 2000000 INFO @ Mon, 05 Nov 2018 18:04:55: 3000000 INFO @ Mon, 05 Nov 2018 18:04:55: 3000000 INFO @ Mon, 05 Nov 2018 18:04:55: 3000000 INFO @ Mon, 05 Nov 2018 18:05:01: 4000000 INFO @ Mon, 05 Nov 2018 18:05:02: 4000000 INFO @ Mon, 05 Nov 2018 18:05:02: 4000000 INFO @ Mon, 05 Nov 2018 18:05:09: 5000000 INFO @ Mon, 05 Nov 2018 18:05:09: 5000000 INFO @ Mon, 05 Nov 2018 18:05:09: 5000000 INFO @ Mon, 05 Nov 2018 18:05:17: 6000000 INFO @ Mon, 05 Nov 2018 18:05:17: 6000000 INFO @ Mon, 05 Nov 2018 18:05:17: 6000000 INFO @ Mon, 05 Nov 2018 18:05:24: 7000000 INFO @ Mon, 05 Nov 2018 18:05:25: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:05:25: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:05:25: #1 total tags in treatment: 7143157 INFO @ Mon, 05 Nov 2018 18:05:25: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:05:25: #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 18:05:25: #1 tags after filtering in treatment: 7143157 INFO @ Mon, 05 Nov 2018 18:05:25: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:05:25: #1 finished! INFO @ Mon, 05 Nov 2018 18:05:25: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:05:25: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:05:25: 7000000 INFO @ Mon, 05 Nov 2018 18:05:25: 7000000 INFO @ Mon, 05 Nov 2018 18:05:25: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:05:25: 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 @ Mon, 05 Nov 2018 18:05:25: Process for pairing-model is terminated! cat: SRX3856377.20_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 `SRX3856377.20_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 `SRX3856377.20_*.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 `SRX3856377.20_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 18:05:26: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:05:26: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:05:26: #1 total tags in treatment: 7143157 INFO @ Mon, 05 Nov 2018 18:05:26: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:05:26: #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 18:05:26: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:05:26: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:05:26: #1 total tags in treatment: 7143157 INFO @ Mon, 05 Nov 2018 18:05:26: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:05:26: #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 18:05:26: #1 tags after filtering in treatment: 7143157 INFO @ Mon, 05 Nov 2018 18:05:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:05:26: #1 finished! INFO @ Mon, 05 Nov 2018 18:05:26: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:05:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:05:26: #1 tags after filtering in treatment: 7143157 INFO @ Mon, 05 Nov 2018 18:05:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:05:26: #1 finished! INFO @ Mon, 05 Nov 2018 18:05:26: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:05:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:05:26: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:05:26: 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 @ Mon, 05 Nov 2018 18:05:26: Process for pairing-model is terminated! cat: SRX3856377.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Mon, 05 Nov 2018 18:05:26: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:05:26: 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 @ Mon, 05 Nov 2018 18:05:26: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3856377.10_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 `SRX3856377.10_*.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 `SRX3856377.10_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 cat: SRX3856377.05_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3856377.05_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 `SRX3856377.05_*.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 `SRX3856377.05_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。