Job ID = 10721727 sra ファイルのダウンロード中... Completed: 914032K bytes transferred in 84 seconds (88272K 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 26312645 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2766311/SRR5482939.sra Written 26312645 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2766311/SRR5482939.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: 00:05:04 26312645 reads; of these: 26312645 (100.00%) were unpaired; of these: 1311965 (4.99%) aligned 0 times 22420373 (85.21%) aligned exactly 1 time 2580307 (9.81%) aligned >1 times 95.01% overall alignment rate Time searching: 00:05:04 Overall time: 00:05:04 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] 13952655 / 25000680 = 0.5581 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, 04 Jun 2018 04:01:33: # Command line: callpeak -t SRX2766311.bam -f BAM -g 12100000 -n SRX2766311.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2766311.10 # format = BAM # ChIP-seq file = ['SRX2766311.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, 04 Jun 2018 04:01:33: #1 read tag files... INFO @ Mon, 04 Jun 2018 04:01:33: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 04:01:33: # Command line: callpeak -t SRX2766311.bam -f BAM -g 12100000 -n SRX2766311.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2766311.05 # format = BAM # ChIP-seq file = ['SRX2766311.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, 04 Jun 2018 04:01:33: #1 read tag files... INFO @ Mon, 04 Jun 2018 04:01:33: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 04:01:33: # Command line: callpeak -t SRX2766311.bam -f BAM -g 12100000 -n SRX2766311.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2766311.20 # format = BAM # ChIP-seq file = ['SRX2766311.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, 04 Jun 2018 04:01:33: #1 read tag files... INFO @ Mon, 04 Jun 2018 04:01:33: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 04:01:40: 1000000 INFO @ Mon, 04 Jun 2018 04:01:41: 1000000 INFO @ Mon, 04 Jun 2018 04:01:41: 1000000 INFO @ Mon, 04 Jun 2018 04:01:48: 2000000 INFO @ Mon, 04 Jun 2018 04:01:50: 2000000 INFO @ Mon, 04 Jun 2018 04:01:50: 2000000 INFO @ Mon, 04 Jun 2018 04:01:55: 3000000 INFO @ Mon, 04 Jun 2018 04:01:59: 3000000 INFO @ Mon, 04 Jun 2018 04:01:59: 3000000 INFO @ Mon, 04 Jun 2018 04:02:02: 4000000 INFO @ Mon, 04 Jun 2018 04:02:07: 4000000 INFO @ Mon, 04 Jun 2018 04:02:07: 4000000 INFO @ Mon, 04 Jun 2018 04:02:09: 5000000 INFO @ Mon, 04 Jun 2018 04:02:16: 5000000 INFO @ Mon, 04 Jun 2018 04:02:16: 5000000 INFO @ Mon, 04 Jun 2018 04:02:16: 6000000 INFO @ Mon, 04 Jun 2018 04:02:24: 7000000 INFO @ Mon, 04 Jun 2018 04:02:24: 6000000 INFO @ Mon, 04 Jun 2018 04:02:24: 6000000 INFO @ Mon, 04 Jun 2018 04:02:31: 8000000 INFO @ Mon, 04 Jun 2018 04:02:33: 7000000 INFO @ Mon, 04 Jun 2018 04:02:33: 7000000 INFO @ Mon, 04 Jun 2018 04:02:38: 9000000 INFO @ Mon, 04 Jun 2018 04:02:41: 8000000 INFO @ Mon, 04 Jun 2018 04:02:41: 8000000 INFO @ Mon, 04 Jun 2018 04:02:45: 10000000 INFO @ Mon, 04 Jun 2018 04:02:50: 9000000 INFO @ Mon, 04 Jun 2018 04:02:50: 9000000 INFO @ Mon, 04 Jun 2018 04:02:52: 11000000 INFO @ Mon, 04 Jun 2018 04:02:53: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 04:02:53: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 04:02:53: #1 total tags in treatment: 11048025 INFO @ Mon, 04 Jun 2018 04:02:53: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 04:02:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Jun 2018 04:02:53: #1 tags after filtering in treatment: 11048025 INFO @ Mon, 04 Jun 2018 04:02:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 04:02:53: #1 finished! INFO @ Mon, 04 Jun 2018 04:02:53: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 04:02:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 04:02:54: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 04:02:54: 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, 04 Jun 2018 04:02:54: Process for pairing-model is terminated! cat: SRX2766311.20_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 `SRX2766311.20_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 `SRX2766311.20_*.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 `SRX2766311.20_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, 04 Jun 2018 04:02:58: 10000000 INFO @ Mon, 04 Jun 2018 04:02:58: 10000000 INFO @ Mon, 04 Jun 2018 04:03:07: 11000000 INFO @ Mon, 04 Jun 2018 04:03:07: 11000000 INFO @ Mon, 04 Jun 2018 04:03:07: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 04:03:07: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 04:03:07: #1 total tags in treatment: 11048025 INFO @ Mon, 04 Jun 2018 04:03:07: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 04:03:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Jun 2018 04:03:07: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 04:03:07: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 04:03:07: #1 total tags in treatment: 11048025 INFO @ Mon, 04 Jun 2018 04:03:07: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 04:03:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 04 Jun 2018 04:03:07: #1 tags after filtering in treatment: 11048025 INFO @ Mon, 04 Jun 2018 04:03:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 04:03:07: #1 finished! INFO @ Mon, 04 Jun 2018 04:03:07: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 04:03:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 04:03:07: #1 tags after filtering in treatment: 11048025 INFO @ Mon, 04 Jun 2018 04:03:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 04:03:07: #1 finished! INFO @ Mon, 04 Jun 2018 04:03:07: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 04:03:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 04:03:08: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 04:03:08: 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, 04 Jun 2018 04:03:08: Process for pairing-model is terminated! INFO @ Mon, 04 Jun 2018 04:03:08: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 04:03:08: 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, 04 Jun 2018 04:03:08: Process for pairing-model is terminated! cat: SRX2766311.05_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: SRX2766311.10_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 `SRX2766311.05_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 `SRX2766311.05_*.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 `SRX2766311.05_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2766311.10_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 `SRX2766311.10_*.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 `SRX2766311.10_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。