Job ID = 11296970 sra ファイルのダウンロード中... Completed: 409964K bytes transferred in 7 seconds (448446K 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 14594133 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4212618/SRR7310250.sra Written 14594133 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4212618/SRR7310250.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: 00:03:02 14594133 reads; of these: 14594133 (100.00%) were unpaired; of these: 7072634 (48.46%) aligned 0 times 6785815 (46.50%) aligned exactly 1 time 735684 (5.04%) aligned >1 times 51.54% overall alignment rate Time searching: 00:03:02 Overall time: 00:03:02 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] 2405218 / 7521499 = 0.3198 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 18:08:48: # Command line: callpeak -t SRX4212618.bam -f BAM -g 12100000 -n SRX4212618.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4212618.10 # format = BAM # ChIP-seq file = ['SRX4212618.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 18:08:48: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:08:48: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:08:48: # Command line: callpeak -t SRX4212618.bam -f BAM -g 12100000 -n SRX4212618.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4212618.05 # format = BAM # ChIP-seq file = ['SRX4212618.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 18:08:48: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:08:48: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:08:48: # Command line: callpeak -t SRX4212618.bam -f BAM -g 12100000 -n SRX4212618.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4212618.20 # format = BAM # ChIP-seq file = ['SRX4212618.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 18:08:48: #1 read tag files... INFO @ Mon, 05 Nov 2018 18:08:48: #1 read treatment tags... INFO @ Mon, 05 Nov 2018 18:08:55: 1000000 INFO @ Mon, 05 Nov 2018 18:08:55: 1000000 INFO @ Mon, 05 Nov 2018 18:08:55: 1000000 INFO @ Mon, 05 Nov 2018 18:09:03: 2000000 INFO @ Mon, 05 Nov 2018 18:09:04: 2000000 INFO @ Mon, 05 Nov 2018 18:09:04: 2000000 INFO @ Mon, 05 Nov 2018 18:09:12: 3000000 INFO @ Mon, 05 Nov 2018 18:09:12: 3000000 INFO @ Mon, 05 Nov 2018 18:09:12: 3000000 INFO @ Mon, 05 Nov 2018 18:09:20: 4000000 INFO @ Mon, 05 Nov 2018 18:09:21: 4000000 INFO @ Mon, 05 Nov 2018 18:09:21: 4000000 INFO @ Mon, 05 Nov 2018 18:09:29: 5000000 INFO @ Mon, 05 Nov 2018 18:09:30: 5000000 INFO @ Mon, 05 Nov 2018 18:09:30: 5000000 INFO @ Mon, 05 Nov 2018 18:09:30: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:09:30: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:09:30: #1 total tags in treatment: 5116281 INFO @ Mon, 05 Nov 2018 18:09:30: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:09:30: #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 18:09:30: #1 tags after filtering in treatment: 5116281 INFO @ Mon, 05 Nov 2018 18:09:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:09:30: #1 finished! INFO @ Mon, 05 Nov 2018 18:09:30: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:09:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:09:30: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:09:30: 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 18:09:30: Process for pairing-model is terminated! cat: SRX4212618.05_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 `SRX4212618.05_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 `SRX4212618.05_*.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 `SRX4212618.05_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, 05 Nov 2018 18:09:31: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:09:31: #1 tag size is determined as 50 bps INFO @ Mon, 05 Nov 2018 18:09:31: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:09:31: #1 tag size = 50 INFO @ Mon, 05 Nov 2018 18:09:31: #1 total tags in treatment: 5116281 INFO @ Mon, 05 Nov 2018 18:09:31: #1 total tags in treatment: 5116281 INFO @ Mon, 05 Nov 2018 18:09:31: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:09:31: #1 user defined the maximum tags... INFO @ Mon, 05 Nov 2018 18:09:31: #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 18:09:31: #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 18:09:31: #1 tags after filtering in treatment: 5116281 INFO @ Mon, 05 Nov 2018 18:09:31: #1 tags after filtering in treatment: 5116281 INFO @ Mon, 05 Nov 2018 18:09:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:09:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 05 Nov 2018 18:09:31: #1 finished! INFO @ Mon, 05 Nov 2018 18:09:31: #1 finished! INFO @ Mon, 05 Nov 2018 18:09:31: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:09:31: #2 Build Peak Model... INFO @ Mon, 05 Nov 2018 18:09:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:09:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 05 Nov 2018 18:09:31: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:09:31: 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 18:09:31: Process for pairing-model is terminated! cat: SRX4212618.20_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 `SRX4212618.20_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 `SRX4212618.20_*.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 `SRX4212618.20_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 18:09:31: #2 number of paired peaks: 0 WARNING @ Mon, 05 Nov 2018 18:09:31: 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 18:09:31: Process for pairing-model is terminated! cat: SRX4212618.10_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 `SRX4212618.10_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 `SRX4212618.10_*.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 `SRX4212618.10_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。