Job ID = 10721724 sra ファイルのダウンロード中... Completed: 702436K bytes transferred in 18 seconds (306759K 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 22384096 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2766310/SRR5482938.sra Written 22384096 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2766310/SRR5482938.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: 00:04:40 22384096 reads; of these: 22384096 (100.00%) were unpaired; of these: 909624 (4.06%) aligned 0 times 15705810 (70.17%) aligned exactly 1 time 5768662 (25.77%) aligned >1 times 95.94% overall alignment rate Time searching: 00:04:40 Overall time: 00:04:40 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] 15650841 / 21474472 = 0.7288 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 03:55:10: # Command line: callpeak -t SRX2766310.bam -f BAM -g 12100000 -n SRX2766310.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2766310.05 # format = BAM # ChIP-seq file = ['SRX2766310.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 03:55:10: #1 read tag files... INFO @ Mon, 04 Jun 2018 03:55:10: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 03:55:10: # Command line: callpeak -t SRX2766310.bam -f BAM -g 12100000 -n SRX2766310.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2766310.10 # format = BAM # ChIP-seq file = ['SRX2766310.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 03:55:10: #1 read tag files... INFO @ Mon, 04 Jun 2018 03:55:10: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 03:55:10: # Command line: callpeak -t SRX2766310.bam -f BAM -g 12100000 -n SRX2766310.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2766310.20 # format = BAM # ChIP-seq file = ['SRX2766310.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 03:55:10: #1 read tag files... INFO @ Mon, 04 Jun 2018 03:55:10: #1 read treatment tags... INFO @ Mon, 04 Jun 2018 03:55:16: 1000000 INFO @ Mon, 04 Jun 2018 03:55:16: 1000000 INFO @ Mon, 04 Jun 2018 03:55:16: 1000000 INFO @ Mon, 04 Jun 2018 03:55:22: 2000000 INFO @ Mon, 04 Jun 2018 03:55:23: 2000000 INFO @ Mon, 04 Jun 2018 03:55:23: 2000000 INFO @ Mon, 04 Jun 2018 03:55:28: 3000000 INFO @ Mon, 04 Jun 2018 03:55:29: 3000000 INFO @ Mon, 04 Jun 2018 03:55:29: 3000000 INFO @ Mon, 04 Jun 2018 03:55:34: 4000000 INFO @ Mon, 04 Jun 2018 03:55:36: 4000000 INFO @ Mon, 04 Jun 2018 03:55:36: 4000000 INFO @ Mon, 04 Jun 2018 03:55:40: 5000000 INFO @ Mon, 04 Jun 2018 03:55:42: 5000000 INFO @ Mon, 04 Jun 2018 03:55:42: 5000000 INFO @ Mon, 04 Jun 2018 03:55:45: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 03:55:45: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 03:55:45: #1 total tags in treatment: 5823631 INFO @ Mon, 04 Jun 2018 03:55:45: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 03:55:45: #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 03:55:45: #1 tags after filtering in treatment: 5823631 INFO @ Mon, 04 Jun 2018 03:55:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 03:55:45: #1 finished! INFO @ Mon, 04 Jun 2018 03:55:45: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 03:55:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 03:55:46: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 03:55:46: 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 03:55:46: Process for pairing-model is terminated! cat: SRX2766310.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2766310.05_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 `SRX2766310.05_*.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 `SRX2766310.05_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 INFO @ Mon, 04 Jun 2018 03:55:48: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 03:55:48: #1 tag size is determined as 50 bps INFO @ Mon, 04 Jun 2018 03:55:48: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 03:55:48: #1 tag size = 50 INFO @ Mon, 04 Jun 2018 03:55:48: #1 total tags in treatment: 5823631 INFO @ Mon, 04 Jun 2018 03:55:48: #1 total tags in treatment: 5823631 INFO @ Mon, 04 Jun 2018 03:55:48: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 03:55:48: #1 user defined the maximum tags... INFO @ Mon, 04 Jun 2018 03:55:48: #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 03:55:48: #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 03:55:48: #1 tags after filtering in treatment: 5823631 INFO @ Mon, 04 Jun 2018 03:55:48: #1 tags after filtering in treatment: 5823631 INFO @ Mon, 04 Jun 2018 03:55:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 03:55:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 04 Jun 2018 03:55:48: #1 finished! INFO @ Mon, 04 Jun 2018 03:55:48: #1 finished! INFO @ Mon, 04 Jun 2018 03:55:48: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 03:55:48: #2 Build Peak Model... INFO @ Mon, 04 Jun 2018 03:55:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 03:55:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 04 Jun 2018 03:55:48: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 03:55:48: 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 @ Mon, 04 Jun 2018 03:55:48: Process for pairing-model is terminated! INFO @ Mon, 04 Jun 2018 03:55:48: #2 number of paired peaks: 0 WARNING @ Mon, 04 Jun 2018 03:55:48: 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 @ Mon, 04 Jun 2018 03:55:48: Process for pairing-model is terminated! cat: SRX2766310.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2766310.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 0 millis rm: cannot remove `SRX2766310.20_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 `SRX2766310.20_*.xls': そのようなファイルやディレクトリはありません rm: needLargeMem: trying to allocate 0 bytes (limit: 17179869184)cannot remove `SRX2766310.20_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 rm: cannot remove `SRX2766310.10_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 `SRX2766310.10_*.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 `SRX2766310.10_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。