Job ID = 9159985 sra ファイルのダウンロード中... Completed: 690503K bytes transferred in 8 seconds (647080K bits/sec), in 1 file, 2 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 18023724 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1743143/SRR3476554.sra Written 18023724 spots total 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: 00:03:31 18023724 reads; of these: 18023724 (100.00%) were unpaired; of these: 683318 (3.79%) aligned 0 times 15053498 (83.52%) aligned exactly 1 time 2286908 (12.69%) aligned >1 times 96.21% overall alignment rate Time searching: 00:03:31 Overall time: 00:03:31 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] 6787010 / 17340406 = 0.3914 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 01:36:16: # Command line: callpeak -t SRX1743143.bam -f BAM -g 12100000 -n SRX1743143.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1743143.20 # format = BAM # ChIP-seq file = ['SRX1743143.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 01:36:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:36:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:36:16: # Command line: callpeak -t SRX1743143.bam -f BAM -g 12100000 -n SRX1743143.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1743143.05 # format = BAM # ChIP-seq file = ['SRX1743143.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 01:36:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:36:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:36:16: # Command line: callpeak -t SRX1743143.bam -f BAM -g 12100000 -n SRX1743143.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1743143.10 # format = BAM # ChIP-seq file = ['SRX1743143.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 01:36:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:36:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:36:22: 1000000 INFO @ Wed, 28 Jun 2017 01:36:22: 1000000 INFO @ Wed, 28 Jun 2017 01:36:23: 1000000 INFO @ Wed, 28 Jun 2017 01:36:28: 2000000 INFO @ Wed, 28 Jun 2017 01:36:29: 2000000 INFO @ Wed, 28 Jun 2017 01:36:30: 2000000 INFO @ Wed, 28 Jun 2017 01:36:35: 3000000 INFO @ Wed, 28 Jun 2017 01:36:36: 3000000 INFO @ Wed, 28 Jun 2017 01:36:37: 3000000 INFO @ Wed, 28 Jun 2017 01:36:41: 4000000 INFO @ Wed, 28 Jun 2017 01:36:42: 4000000 INFO @ Wed, 28 Jun 2017 01:36:44: 4000000 INFO @ Wed, 28 Jun 2017 01:36:47: 5000000 INFO @ Wed, 28 Jun 2017 01:36:49: 5000000 INFO @ Wed, 28 Jun 2017 01:36:51: 5000000 INFO @ Wed, 28 Jun 2017 01:36:54: 6000000 INFO @ Wed, 28 Jun 2017 01:36:56: 6000000 INFO @ Wed, 28 Jun 2017 01:36:58: 6000000 INFO @ Wed, 28 Jun 2017 01:37:00: 7000000 INFO @ Wed, 28 Jun 2017 01:37:02: 7000000 INFO @ Wed, 28 Jun 2017 01:37:05: 7000000 INFO @ Wed, 28 Jun 2017 01:37:07: 8000000 INFO @ Wed, 28 Jun 2017 01:37:09: 8000000 INFO @ Wed, 28 Jun 2017 01:37:12: 8000000 INFO @ Wed, 28 Jun 2017 01:37:13: 9000000 INFO @ Wed, 28 Jun 2017 01:37:16: 9000000 INFO @ Wed, 28 Jun 2017 01:37:19: 10000000 INFO @ Wed, 28 Jun 2017 01:37:19: 9000000 INFO @ Wed, 28 Jun 2017 01:37:22: 10000000 INFO @ Wed, 28 Jun 2017 01:37:23: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 01:37:23: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 01:37:23: #1 total tags in treatment: 10553396 INFO @ Wed, 28 Jun 2017 01:37:23: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:37:23: #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 01:37:23: #1 tags after filtering in treatment: 10553396 INFO @ Wed, 28 Jun 2017 01:37:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 01:37:23: #1 finished! INFO @ Wed, 28 Jun 2017 01:37:23: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:37:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:37:24: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:37:24: 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 01:37:24: Process for pairing-model is terminated! cat: SRX1743143.05_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 `SRX1743143.05_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 `SRX1743143.05_*.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 `SRX1743143.05_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 @ Wed, 28 Jun 2017 01:37:26: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 01:37:26: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 01:37:26: #1 total tags in treatment: 10553396 INFO @ Wed, 28 Jun 2017 01:37:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:37:26: #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 01:37:27: #1 tags after filtering in treatment: 10553396 INFO @ Wed, 28 Jun 2017 01:37:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 01:37:27: #1 finished! INFO @ Wed, 28 Jun 2017 01:37:27: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:37:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:37:27: 10000000 INFO @ Wed, 28 Jun 2017 01:37:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:37:27: 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 01:37:27: Process for pairing-model is terminated! cat: SRX1743143.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1743143.20_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 `SRX1743143.20_*.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 `SRX1743143.20_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 01:37:32: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 01:37:32: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 01:37:32: #1 total tags in treatment: 10553396 INFO @ Wed, 28 Jun 2017 01:37:32: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:37:32: #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 01:37:32: #1 tags after filtering in treatment: 10553396 INFO @ Wed, 28 Jun 2017 01:37:32: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 01:37:32: #1 finished! INFO @ Wed, 28 Jun 2017 01:37:32: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:37:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:37:33: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:37:33: 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 01:37:33: Process for pairing-model is terminated! cat: SRX1743143.10_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 `SRX1743143.10_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 `SRX1743143.10_*.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 `SRX1743143.10_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。