Job ID = 9163058 sra ファイルのダウンロード中... Completed: 270770K bytes transferred in 5 seconds (400482K 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 8280552 spots for /home/okishinya/chipatlas/results/sacCer3/SRX476132/SRR1176904.sra Written 8280552 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: 00:01:24 8280552 reads; of these: 8280552 (100.00%) were unpaired; of these: 1021928 (12.34%) aligned 0 times 5305036 (64.07%) aligned exactly 1 time 1953588 (23.59%) aligned >1 times 87.66% overall alignment rate Time searching: 00:01:24 Overall time: 00:01:24 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] 2449437 / 7258624 = 0.3375 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 09:49:44: # Command line: callpeak -t SRX476132.bam -f BAM -g 12100000 -n SRX476132.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX476132.10 # format = BAM # ChIP-seq file = ['SRX476132.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 09:49:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 09:49:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 09:49:44: # Command line: callpeak -t SRX476132.bam -f BAM -g 12100000 -n SRX476132.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX476132.05 # format = BAM # ChIP-seq file = ['SRX476132.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 09:49:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 09:49:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 09:49:44: # Command line: callpeak -t SRX476132.bam -f BAM -g 12100000 -n SRX476132.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX476132.20 # format = BAM # ChIP-seq file = ['SRX476132.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 09:49:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 09:49:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 09:49:51: 1000000 INFO @ Wed, 28 Jun 2017 09:49:51: 1000000 INFO @ Wed, 28 Jun 2017 09:49:51: 1000000 INFO @ Wed, 28 Jun 2017 09:49:57: 2000000 INFO @ Wed, 28 Jun 2017 09:49:58: 2000000 INFO @ Wed, 28 Jun 2017 09:49:58: 2000000 INFO @ Wed, 28 Jun 2017 09:50:03: 3000000 INFO @ Wed, 28 Jun 2017 09:50:05: 3000000 INFO @ Wed, 28 Jun 2017 09:50:05: 3000000 INFO @ Wed, 28 Jun 2017 09:50:09: 4000000 INFO @ Wed, 28 Jun 2017 09:50:12: 4000000 INFO @ Wed, 28 Jun 2017 09:50:12: 4000000 INFO @ Wed, 28 Jun 2017 09:50:14: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 09:50:14: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 09:50:14: #1 total tags in treatment: 4809187 INFO @ Wed, 28 Jun 2017 09:50:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 09:50:14: #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 09:50:14: #1 tags after filtering in treatment: 4809187 INFO @ Wed, 28 Jun 2017 09:50:14: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 09:50:14: #1 finished! INFO @ Wed, 28 Jun 2017 09:50:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 09:50:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 09:50:14: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 09:50:14: Too few paired peaks (28) 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 09:50:14: Process for pairing-model is terminated! cat: SRX476132.20_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 `SRX476132.20_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 `SRX476132.20_*.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 `SRX476132.20_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 09:50:17: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 09:50:17: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 09:50:17: #1 total tags in treatment: 4809187 INFO @ Wed, 28 Jun 2017 09:50:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 09:50:17: #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 09:50:17: #1 tags after filtering in treatment: 4809187 INFO @ Wed, 28 Jun 2017 09:50:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 09:50:17: #1 finished! INFO @ Wed, 28 Jun 2017 09:50:17: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 09:50:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 09:50:17: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 09:50:17: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 09:50:17: #1 total tags in treatment: 4809187 INFO @ Wed, 28 Jun 2017 09:50:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 09:50:17: #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 09:50:17: #1 tags after filtering in treatment: 4809187 INFO @ Wed, 28 Jun 2017 09:50:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 09:50:17: #1 finished! INFO @ Wed, 28 Jun 2017 09:50:17: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 09:50:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 09:50:17: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 09:50:17: Too few paired peaks (28) 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 09:50:17: Process for pairing-model is terminated! cat: SRX476132.10_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 `SRX476132.10_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 `SRX476132.10_*.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 `SRX476132.10_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 09:50:17: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 09:50:17: Too few paired peaks (28) 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 09:50:17: Process for pairing-model is terminated! cat: SRX476132.05_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 `SRX476132.05_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 `SRX476132.05_*.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 `SRX476132.05_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。