Job ID = 10937712 sra ファイルのダウンロード中... Completed: 545582K bytes transferred in 23 seconds (191616K 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 15841993 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3557770/SRR6467839.sra Written 15841993 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3557770/SRR6467839.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: 00:03:25 15841993 reads; of these: 15841993 (100.00%) were unpaired; of these: 4922388 (31.07%) aligned 0 times 9521533 (60.10%) aligned exactly 1 time 1398072 (8.83%) aligned >1 times 68.93% overall alignment rate Time searching: 00:03:25 Overall time: 00:03:25 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] 4134520 / 10919605 = 0.3786 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 03:00:09: # Command line: callpeak -t SRX3557770.bam -f BAM -g 12100000 -n SRX3557770.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3557770.20 # format = BAM # ChIP-seq file = ['SRX3557770.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 03:00:09: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:00:09: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:00:09: # Command line: callpeak -t SRX3557770.bam -f BAM -g 12100000 -n SRX3557770.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3557770.10 # format = BAM # ChIP-seq file = ['SRX3557770.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 03:00:09: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:00:09: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:00:09: # Command line: callpeak -t SRX3557770.bam -f BAM -g 12100000 -n SRX3557770.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3557770.05 # format = BAM # ChIP-seq file = ['SRX3557770.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 03:00:09: #1 read tag files... INFO @ Fri, 10 Aug 2018 03:00:09: #1 read treatment tags... INFO @ Fri, 10 Aug 2018 03:00:18: 1000000 INFO @ Fri, 10 Aug 2018 03:00:18: 1000000 INFO @ Fri, 10 Aug 2018 03:00:18: 1000000 INFO @ Fri, 10 Aug 2018 03:00:27: 2000000 INFO @ Fri, 10 Aug 2018 03:00:28: 2000000 INFO @ Fri, 10 Aug 2018 03:00:28: 2000000 INFO @ Fri, 10 Aug 2018 03:00:36: 3000000 INFO @ Fri, 10 Aug 2018 03:00:38: 3000000 INFO @ Fri, 10 Aug 2018 03:00:38: 3000000 INFO @ Fri, 10 Aug 2018 03:00:45: 4000000 INFO @ Fri, 10 Aug 2018 03:00:47: 4000000 INFO @ Fri, 10 Aug 2018 03:00:49: 4000000 INFO @ Fri, 10 Aug 2018 03:00:54: 5000000 INFO @ Fri, 10 Aug 2018 03:00:56: 5000000 INFO @ Fri, 10 Aug 2018 03:00:59: 5000000 INFO @ Fri, 10 Aug 2018 03:01:03: 6000000 INFO @ Fri, 10 Aug 2018 03:01:06: 6000000 INFO @ Fri, 10 Aug 2018 03:01:09: 6000000 INFO @ Fri, 10 Aug 2018 03:01:10: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:01:10: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:01:10: #1 total tags in treatment: 6785085 INFO @ Fri, 10 Aug 2018 03:01:10: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:01:10: #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 03:01:10: #1 tags after filtering in treatment: 6785085 INFO @ Fri, 10 Aug 2018 03:01:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:01:10: #1 finished! INFO @ Fri, 10 Aug 2018 03:01:10: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:01:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:01:10: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:01:10: 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 03:01:10: Process for pairing-model is terminated! cat: SRX3557770.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3557770.20_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 `SRX3557770.20_*.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 `SRX3557770.20_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 03:01:13: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:01:13: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:01:13: #1 total tags in treatment: 6785085 INFO @ Fri, 10 Aug 2018 03:01:13: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:01:13: #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 03:01:13: #1 tags after filtering in treatment: 6785085 INFO @ Fri, 10 Aug 2018 03:01:13: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:01:13: #1 finished! INFO @ Fri, 10 Aug 2018 03:01:13: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:01:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:01:13: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:01:13: 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 03:01:13: Process for pairing-model is terminated! cat: SRX3557770.05_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 `SRX3557770.05_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 `SRX3557770.05_*.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 `SRX3557770.05_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 @ Fri, 10 Aug 2018 03:01:17: #1 tag size is determined as 65 bps INFO @ Fri, 10 Aug 2018 03:01:17: #1 tag size = 65 INFO @ Fri, 10 Aug 2018 03:01:17: #1 total tags in treatment: 6785085 INFO @ Fri, 10 Aug 2018 03:01:17: #1 user defined the maximum tags... INFO @ Fri, 10 Aug 2018 03:01:17: #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 03:01:17: #1 tags after filtering in treatment: 6785085 INFO @ Fri, 10 Aug 2018 03:01:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Aug 2018 03:01:17: #1 finished! INFO @ Fri, 10 Aug 2018 03:01:17: #2 Build Peak Model... INFO @ Fri, 10 Aug 2018 03:01:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Aug 2018 03:01:18: #2 number of paired peaks: 0 WARNING @ Fri, 10 Aug 2018 03:01:18: 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 03:01:18: Process for pairing-model is terminated! cat: SRX3557770.10_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 `SRX3557770.10_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 `SRX3557770.10_*.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 `SRX3557770.10_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。