Job ID = 10937720 sra ファイルのダウンロード中... Completed: 617579K bytes transferred in 1011 seconds (5001K 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 17852268 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3557771/SRR6467840.sra Written 17852268 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3557771/SRR6467840.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: 00:03:35 17852268 reads; of these: 17852268 (100.00%) were unpaired; of these: 6525553 (36.55%) aligned 0 times 9927879 (55.61%) aligned exactly 1 time 1398836 (7.84%) aligned >1 times 63.45% overall alignment rate Time searching: 00:03:35 Overall time: 00:03:35 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 8 files... [bam_rmdupse_core] 3633979 / 11326715 = 0.3208 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, 10 Aug 2018 03:17:26: # Command line: callpeak -t SRX3557771.bam -f BAM -g 12100000 -n SRX3557771.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3557771.20 # format = BAM # ChIP-seq file = ['SRX3557771.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, 10 Aug 2018 03:17:26: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:17:26: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:17:26: # Command line: callpeak -t SRX3557771.bam -f BAM -g 12100000 -n SRX3557771.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3557771.05 # format = BAM # ChIP-seq file = ['SRX3557771.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, 10 Aug 2018 03:17:26: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:17:26: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:17:26: # Command line: callpeak -t SRX3557771.bam -f BAM -g 12100000 -n SRX3557771.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3557771.10 # format = BAM # ChIP-seq file = ['SRX3557771.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, 10 Aug 2018 03:17:26: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:17:26: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:17:36: 1000000 INFO @ Fri, 10 Aug 2018 03:17:36: 1000000 INFO @ Fri, 10 Aug 2018 03:17:37: 1000000 INFO @ Fri, 10 Aug 2018 03:17:45: 2000000 INFO @ Fri, 10 Aug 2018 03:17:45: 2000000 INFO @ Fri, 10 Aug 2018 03:17:47: 2000000 INFO @ Fri, 10 Aug 2018 03:17:55: 3000000 INFO @ Fri, 10 Aug 2018 03:17:55: 3000000 INFO @ Fri, 10 Aug 2018 03:17:58: 3000000 INFO @ Fri, 10 Aug 2018 03:18:04: 4000000 INFO @ Fri, 10 Aug 2018 03:18:04: 4000000 INFO @ Fri, 10 Aug 2018 03:18:09: 4000000 INFO @ Fri, 10 Aug 2018 03:18:13: 5000000 INFO @ Fri, 10 Aug 2018 03:18:13: 5000000 INFO @ Fri, 10 Aug 2018 03:18:19: 5000000 INFO @ Fri, 10 Aug 2018 03:18:22: 6000000 INFO @ Fri, 10 Aug 2018 03:18:22: 6000000 INFO @ Fri, 10 Aug 2018 03:18:30: 6000000 INFO @ Fri, 10 Aug 2018 03:18:31: 7000000 INFO @ Fri, 10 Aug 2018 03:18:31: 7000000 INFO @ Fri, 10 Aug 2018 03:18:37: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:18:37: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:18:37: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:18:37: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:18:37: #1 total tags in treatment: 7692736 INFO @ Fri, 10 Aug 2018 03:18:37: #1 total tags in treatment: 7692736 INFO @ Fri, 10 Aug 2018 03:18:37: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:18:37: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:18:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:18:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:18:37: #1 tags after filtering in treatment: 7692736 INFO @ Fri, 10 Aug 2018 03:18:37: #1 tags after filtering in treatment: 7692736 INFO @ Fri, 10 Aug 2018 03:18:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:18:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:18:37: #1 finished! INFO @ Fri, 10 Aug 2018 03:18:37: #1 finished! INFO @ Fri, 10 Aug 2018 03:18:37: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:18:37: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:18:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:18:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:18:38: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:18:38: 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, 10 Aug 2018 03:18:38: Process for pairing-model is terminated! cat: SRX3557771.05_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, 10 Aug 2018 03:18:38: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:18:38: 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, 10 Aug 2018 03:18:38: Process for pairing-model is terminated! cat: SRX3557771.20_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): 207 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3557771.05_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 `SRX3557771.05_*.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 `SRX3557771.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3557771.20_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 `SRX3557771.20_*.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 `SRX3557771.20_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, 10 Aug 2018 03:18:41: 7000000 INFO @ Fri, 10 Aug 2018 03:18:47: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:18:47: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:18:47: #1 total tags in treatment: 7692736 INFO @ Fri, 10 Aug 2018 03:18:47: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:18:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Aug 2018 03:18:48: #1 tags after filtering in treatment: 7692736 INFO @ Fri, 10 Aug 2018 03:18:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:18:48: #1 finished! INFO @ Fri, 10 Aug 2018 03:18:48: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:18:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:18:48: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:18:48: 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, 10 Aug 2018 03:18:48: Process for pairing-model is terminated! cat: SRX3557771.10_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) rm: cannot remove `SRX3557771.10_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 `SRX3557771.10_*.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 `SRX3557771.10_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。