Job ID = 9161657 sra ファイルのダウンロード中... Completed: 136470K bytes transferred in 4 seconds (235686K 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 1206468 spots for /home/okishinya/chipatlas/results/sacCer3/SRX046114/SRR116967.sra Written 1206468 spots total Written 1697769 spots for /home/okishinya/chipatlas/results/sacCer3/SRX046114/SRR116966.sra Written 1697769 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: 00:00:46 2904237 reads; of these: 2904237 (100.00%) were unpaired; of these: 291616 (10.04%) aligned 0 times 2422381 (83.41%) aligned exactly 1 time 190240 (6.55%) aligned >1 times 89.96% overall alignment rate Time searching: 00:00:46 Overall time: 00:00:46 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] 1058204 / 2612621 = 0.4050 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 04:16:56: # Command line: callpeak -t SRX046114.bam -f BAM -g 12100000 -n SRX046114.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX046114.20 # format = BAM # ChIP-seq file = ['SRX046114.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 04:16:56: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:16:56: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:16:56: # Command line: callpeak -t SRX046114.bam -f BAM -g 12100000 -n SRX046114.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX046114.05 # format = BAM # ChIP-seq file = ['SRX046114.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 04:16:56: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:16:56: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:16:56: # Command line: callpeak -t SRX046114.bam -f BAM -g 12100000 -n SRX046114.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX046114.10 # format = BAM # ChIP-seq file = ['SRX046114.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 04:16:56: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:16:56: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:17:05: 1000000 INFO @ Wed, 28 Jun 2017 04:17:05: 1000000 INFO @ Wed, 28 Jun 2017 04:17:05: 1000000 INFO @ Wed, 28 Jun 2017 04:17:09: #1 tag size is determined as 70 bps INFO @ Wed, 28 Jun 2017 04:17:09: #1 tag size = 70 INFO @ Wed, 28 Jun 2017 04:17:09: #1 total tags in treatment: 1554417 INFO @ Wed, 28 Jun 2017 04:17:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:17:09: #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 04:17:09: #1 tags after filtering in treatment: 1554417 INFO @ Wed, 28 Jun 2017 04:17:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:17:09: #1 finished! INFO @ Wed, 28 Jun 2017 04:17:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:17:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:17:09: #2 number of paired peaks: 15 WARNING @ Wed, 28 Jun 2017 04:17:09: Too few paired peaks (15) 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 04:17:09: Process for pairing-model is terminated! cat: SRX046114.10_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 `SRX046114.10_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 `SRX046114.10_*.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 `SRX046114.10_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 04:17:09: #1 tag size is determined as 70 bps INFO @ Wed, 28 Jun 2017 04:17:09: #1 tag size = 70 INFO @ Wed, 28 Jun 2017 04:17:09: #1 total tags in treatment: 1554417 INFO @ Wed, 28 Jun 2017 04:17:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:17:09: #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 04:17:09: #1 tag size is determined as 70 bps INFO @ Wed, 28 Jun 2017 04:17:09: #1 tag size = 70 INFO @ Wed, 28 Jun 2017 04:17:09: #1 total tags in treatment: 1554417 INFO @ Wed, 28 Jun 2017 04:17:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:17:09: #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 04:17:09: #1 tags after filtering in treatment: 1554417 INFO @ Wed, 28 Jun 2017 04:17:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:17:09: #1 finished! INFO @ Wed, 28 Jun 2017 04:17:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:17:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:17:09: #1 tags after filtering in treatment: 1554417 INFO @ Wed, 28 Jun 2017 04:17:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:17:09: #1 finished! INFO @ Wed, 28 Jun 2017 04:17:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:17:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:17:10: #2 number of paired peaks: 15 WARNING @ Wed, 28 Jun 2017 04:17:10: Too few paired peaks (15) 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 04:17:10: Process for pairing-model is terminated! cat: SRX046114.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 04:17:10: #2 number of paired peaks: 15 WARNING @ Wed, 28 Jun 2017 04:17:10: Too few paired peaks (15) 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 04:17:10: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX046114.20_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 `SRX046114.20_*.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 `SRX046114.20_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 cat: SRX046114.05_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 `SRX046114.05_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 `SRX046114.05_*.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 `SRX046114.05_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。