Job ID = 9163638 sra ファイルのダウンロード中... Completed: 527165K bytes transferred in 7 seconds (552128K bits/sec), in 2 files, 3 directories. 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... Written 8460290 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974685/SRR1948328.sra Written 8460290 spots total Written 8649669 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974685/SRR1948329.sra Written 8649669 spots total 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: 00:02:59 17109959 reads; of these: 17109959 (100.00%) were unpaired; of these: 663529 (3.88%) aligned 0 times 14022805 (81.96%) aligned exactly 1 time 2423625 (14.16%) aligned >1 times 96.12% overall alignment rate Time searching: 00:02:59 Overall time: 00:02:59 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_sort_core] merging from 8 files... [bam_rmdupse_core] 5846199 / 16446430 = 0.3555 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 @ Wed, 28 Jun 2017 11:16:54: # Command line: callpeak -t SRX974685.bam -f BAM -g 12100000 -n SRX974685.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX974685.20 # format = BAM # ChIP-seq file = ['SRX974685.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 @ Wed, 28 Jun 2017 11:16:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:54: # Command line: callpeak -t SRX974685.bam -f BAM -g 12100000 -n SRX974685.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX974685.10 # format = BAM # ChIP-seq file = ['SRX974685.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 @ Wed, 28 Jun 2017 11:16:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:54: # Command line: callpeak -t SRX974685.bam -f BAM -g 12100000 -n SRX974685.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX974685.05 # format = BAM # ChIP-seq file = ['SRX974685.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 @ Wed, 28 Jun 2017 11:16:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:17:00: 1000000 INFO @ Wed, 28 Jun 2017 11:17:00: 1000000 INFO @ Wed, 28 Jun 2017 11:17:00: 1000000 INFO @ Wed, 28 Jun 2017 11:17:07: 2000000 INFO @ Wed, 28 Jun 2017 11:17:07: 2000000 INFO @ Wed, 28 Jun 2017 11:17:07: 2000000 INFO @ Wed, 28 Jun 2017 11:17:13: 3000000 INFO @ Wed, 28 Jun 2017 11:17:13: 3000000 INFO @ Wed, 28 Jun 2017 11:17:13: 3000000 INFO @ Wed, 28 Jun 2017 11:17:19: 4000000 INFO @ Wed, 28 Jun 2017 11:17:19: 4000000 INFO @ Wed, 28 Jun 2017 11:17:20: 4000000 INFO @ Wed, 28 Jun 2017 11:17:26: 5000000 INFO @ Wed, 28 Jun 2017 11:17:26: 5000000 INFO @ Wed, 28 Jun 2017 11:17:26: 5000000 INFO @ Wed, 28 Jun 2017 11:17:32: 6000000 INFO @ Wed, 28 Jun 2017 11:17:32: 6000000 INFO @ Wed, 28 Jun 2017 11:17:32: 6000000 INFO @ Wed, 28 Jun 2017 11:17:38: 7000000 INFO @ Wed, 28 Jun 2017 11:17:39: 7000000 INFO @ Wed, 28 Jun 2017 11:17:39: 7000000 INFO @ Wed, 28 Jun 2017 11:17:44: 8000000 INFO @ Wed, 28 Jun 2017 11:17:45: 8000000 INFO @ Wed, 28 Jun 2017 11:17:45: 8000000 INFO @ Wed, 28 Jun 2017 11:17:51: 9000000 INFO @ Wed, 28 Jun 2017 11:17:52: 9000000 INFO @ Wed, 28 Jun 2017 11:17:52: 9000000 INFO @ Wed, 28 Jun 2017 11:17:57: 10000000 INFO @ Wed, 28 Jun 2017 11:17:58: 10000000 INFO @ Wed, 28 Jun 2017 11:17:59: 10000000 INFO @ Wed, 28 Jun 2017 11:18:01: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:01: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:01: #1 total tags in treatment: 10600231 INFO @ Wed, 28 Jun 2017 11:18:01: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:18:01: #1 tags after filtering in treatment: 10600231 INFO @ Wed, 28 Jun 2017 11:18:01: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:01: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:01: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:01: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:01: 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 @ Wed, 28 Jun 2017 11:18:01: Process for pairing-model is terminated! cat: SRX974685.20_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 `SRX974685.20_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 `SRX974685.20_*.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 `SRX974685.20_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 @ Wed, 28 Jun 2017 11:18:02: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:02: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:02: #1 total tags in treatment: 10600231 INFO @ Wed, 28 Jun 2017 11:18:02: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:18:02: #1 tags after filtering in treatment: 10600231 INFO @ Wed, 28 Jun 2017 11:18:02: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:02: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:02: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:03: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:18:03: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:18:03: #1 total tags in treatment: 10600231 INFO @ Wed, 28 Jun 2017 11:18:03: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:18:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 11:18:03: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:03: 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 @ Wed, 28 Jun 2017 11:18:03: Process for pairing-model is terminated! cat: SRX974685.10_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) rm: cannot remove `SRX974685.10_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 `SRX974685.10_*.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 `SRX974685.10_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 INFO @ Wed, 28 Jun 2017 11:18:03: #1 tags after filtering in treatment: 10600231 INFO @ Wed, 28 Jun 2017 11:18:03: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:18:03: #1 finished! INFO @ Wed, 28 Jun 2017 11:18:03: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:18:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:18:03: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:18:03: 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 @ Wed, 28 Jun 2017 11:18:03: Process for pairing-model is terminated! cat: SRX974685.05_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 `SRX974685.05_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 `SRX974685.05_*.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 `SRX974685.05_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。