Job ID = 10937627 sra ファイルのダウンロード中... Completed: 191330K bytes transferred in 9 seconds (172566K 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 5717982 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463284/SRR6367823.sra Written 5717982 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3463284/SRR6367823.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: 00:00:59 5717982 reads; of these: 5717982 (100.00%) were unpaired; of these: 686361 (12.00%) aligned 0 times 4660174 (81.50%) aligned exactly 1 time 371447 (6.50%) aligned >1 times 88.00% overall alignment rate Time searching: 00:00:59 Overall time: 00:00:59 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] 1457793 / 5031621 = 0.2897 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 02:44:14: # Command line: callpeak -t SRX3463284.bam -f BAM -g 12100000 -n SRX3463284.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3463284.20 # format = BAM # ChIP-seq file = ['SRX3463284.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 02:44:14: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:44:14: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:44:14: # Command line: callpeak -t SRX3463284.bam -f BAM -g 12100000 -n SRX3463284.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3463284.05 # format = BAM # ChIP-seq file = ['SRX3463284.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 02:44:14: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:44:14: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:44:14: # Command line: callpeak -t SRX3463284.bam -f BAM -g 12100000 -n SRX3463284.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3463284.10 # format = BAM # ChIP-seq file = ['SRX3463284.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 02:44:14: #1 read tag files... INFO @ Fri, 10 Aug 2018 02:44:14: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 02:44:22: 1000000 INFO @ Fri, 10 Aug 2018 02:44:22: 1000000 INFO @ Fri, 10 Aug 2018 02:44:22: 1000000 INFO @ Fri, 10 Aug 2018 02:44:29: 2000000 INFO @ Fri, 10 Aug 2018 02:44:29: 2000000 INFO @ Fri, 10 Aug 2018 02:44:29: 2000000 INFO @ Fri, 10 Aug 2018 02:44:36: 3000000 INFO @ Fri, 10 Aug 2018 02:44:36: 3000000 INFO @ Fri, 10 Aug 2018 02:44:36: 3000000 INFO @ Fri, 10 Aug 2018 02:44:41: #1 tag size is determined as 45 bps INFO @ Fri, 10 Aug 2018 02:44:41: #1 tag size is determined as 45 bps INFO @ Fri, 10 Aug 2018 02:44:41: #1 tag size = 45 INFO @ Fri, 10 Aug 2018 02:44:41: #1 total tags in treatment: 3573828 INFO @ Fri, 10 Aug 2018 02:44:41: #1 tag size = 45 INFO @ Fri, 10 Aug 2018 02:44:41: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:44:41: #1 total tags in treatment: 3573828 INFO @ Fri, 10 Aug 2018 02:44:41: #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 02:44:41: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:44:41: #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 02:44:41: #1 tags after filtering in treatment: 3573828 INFO @ Fri, 10 Aug 2018 02:44:41: #1 tags after filtering in treatment: 3573828 INFO @ Fri, 10 Aug 2018 02:44:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:44:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:44:41: #1 finished! INFO @ Fri, 10 Aug 2018 02:44:41: #1 finished! INFO @ Fri, 10 Aug 2018 02:44:41: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:44:41: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:44:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:44:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:44:41: #1 tag size is determined as 45 bps INFO @ Fri, 10 Aug 2018 02:44:41: #1 tag size = 45 INFO @ Fri, 10 Aug 2018 02:44:41: #1 total tags in treatment: 3573828 INFO @ Fri, 10 Aug 2018 02:44:41: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 02:44:41: #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 02:44:41: #1 tags after filtering in treatment: 3573828 INFO @ Fri, 10 Aug 2018 02:44:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 02:44:41: #1 finished! INFO @ Fri, 10 Aug 2018 02:44:41: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 02:44:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 02:44:41: #2 number of paired peaks: 38 WARNING @ Fri, 10 Aug 2018 02:44:41: Too few paired peaks (38) 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 02:44:41: Process for pairing-model is terminated! INFO @ Fri, 10 Aug 2018 02:44:41: #2 number of paired peaks: 38 WARNING @ Fri, 10 Aug 2018 02:44:41: Too few paired peaks (38) 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 02:44:41: Process for pairing-model is terminated! cat: SRX3463284.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3463284.20_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 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3463284.20_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 `SRX3463284.10_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 `SRX3463284.20_*.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 `SRX3463284.10_*.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 `SRX3463284.20_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 `SRX3463284.10_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 CompletedMACS2peakCalling INFO @ Fri, 10 Aug 2018 02:44:42: #2 number of paired peaks: 38 WARNING @ Fri, 10 Aug 2018 02:44:42: Too few paired peaks (38) 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 02:44:42: Process for pairing-model is terminated! cat: SRX3463284.05_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 `SRX3463284.05_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 `SRX3463284.05_*.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 `SRX3463284.05_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。