Job ID = 9163618 sra ファイルのダウンロード中... Completed: 324368K bytes transferred in 6 seconds (391016K 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 12002157 spots for /home/okishinya/chipatlas/results/sacCer3/SRX966747/SRR1927163.sra Written 12002157 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: 00:01:01 12002157 reads; of these: 12002157 (100.00%) were unpaired; of these: 10173178 (84.76%) aligned 0 times 1720100 (14.33%) aligned exactly 1 time 108879 (0.91%) aligned >1 times 15.24% overall alignment rate Time searching: 00:01:01 Overall time: 00:01:01 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] 265903 / 1828979 = 0.1454 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 11:08:07: # Command line: callpeak -t SRX966747.bam -f BAM -g 12100000 -n SRX966747.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX966747.20 # format = BAM # ChIP-seq file = ['SRX966747.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 11:08:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:08:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:08:07: # Command line: callpeak -t SRX966747.bam -f BAM -g 12100000 -n SRX966747.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX966747.05 # format = BAM # ChIP-seq file = ['SRX966747.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 11:08:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:08:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:08:07: # Command line: callpeak -t SRX966747.bam -f BAM -g 12100000 -n SRX966747.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX966747.10 # format = BAM # ChIP-seq file = ['SRX966747.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 11:08:07: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:08:07: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:08:15: 1000000 INFO @ Wed, 28 Jun 2017 11:08:16: 1000000 INFO @ Wed, 28 Jun 2017 11:08:16: 1000000 INFO @ Wed, 28 Jun 2017 11:08:19: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:08:19: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:08:19: #1 total tags in treatment: 1563076 INFO @ Wed, 28 Jun 2017 11:08:19: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:08:19: #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 11:08:19: #1 tags after filtering in treatment: 1563076 INFO @ Wed, 28 Jun 2017 11:08:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:08:19: #1 finished! INFO @ Wed, 28 Jun 2017 11:08:19: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:08:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:08:19: #2 number of paired peaks: 14 WARNING @ Wed, 28 Jun 2017 11:08:19: Too few paired peaks (14) 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 11:08:19: Process for pairing-model is terminated! cat: SRX966747.20_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 `SRX966747.20_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 `SRX966747.20_*.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 `SRX966747.20_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 11:08:21: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:08:21: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:08:21: #1 total tags in treatment: 1563076 INFO @ Wed, 28 Jun 2017 11:08:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:08:21: #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 11:08:21: #1 tags after filtering in treatment: 1563076 INFO @ Wed, 28 Jun 2017 11:08:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:08:21: #1 finished! INFO @ Wed, 28 Jun 2017 11:08:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:08:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:08:21: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:08:21: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:08:21: #1 total tags in treatment: 1563076 INFO @ Wed, 28 Jun 2017 11:08:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:08:21: #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 11:08:21: #1 tags after filtering in treatment: 1563076 INFO @ Wed, 28 Jun 2017 11:08:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:08:21: #1 finished! INFO @ Wed, 28 Jun 2017 11:08:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:08:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:08:21: #2 number of paired peaks: 14 WARNING @ Wed, 28 Jun 2017 11:08:21: Too few paired peaks (14) 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 11:08:21: Process for pairing-model is terminated! cat: SRX966747.10_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 `SRX966747.10_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 `SRX966747.10_*.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 `SRX966747.10_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 11:08:21: #2 number of paired peaks: 14 WARNING @ Wed, 28 Jun 2017 11:08:21: Too few paired peaks (14) 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 11:08:21: Process for pairing-model is terminated! cat: SRX966747.05_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 `SRX966747.05_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 `SRX966747.05_*.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 `SRX966747.05_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。