Job ID = 10608915 sra ファイルのダウンロード中... Completed: 472208K bytes transferred in 24 seconds (160937K bits/sec), in 1 file. 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 11716793 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2737486/SRR5448619.sra Written 11716793 spots total rm: cannot remove `[DSE]RX*': 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 `[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 11716793 reads; of these: 11716793 (100.00%) were unpaired; of these: 1500821 (12.81%) aligned 0 times 8270956 (70.59%) aligned exactly 1 time 1945016 (16.60%) aligned >1 times 87.19% 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] 3293222 / 10215972 = 0.3224 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 @ Thu, 03 May 2018 22:49:55: # Command line: callpeak -t SRX2737486.bam -f BAM -g 12100000 -n SRX2737486.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2737486.20 # format = BAM # ChIP-seq file = ['SRX2737486.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 @ Thu, 03 May 2018 22:49:55: #1 read tag files... INFO @ Thu, 03 May 2018 22:49:55: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:49:55: # Command line: callpeak -t SRX2737486.bam -f BAM -g 12100000 -n SRX2737486.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2737486.10 # format = BAM # ChIP-seq file = ['SRX2737486.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 @ Thu, 03 May 2018 22:49:55: #1 read tag files... INFO @ Thu, 03 May 2018 22:49:55: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:49:55: # Command line: callpeak -t SRX2737486.bam -f BAM -g 12100000 -n SRX2737486.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2737486.05 # format = BAM # ChIP-seq file = ['SRX2737486.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 @ Thu, 03 May 2018 22:49:55: #1 read tag files... INFO @ Thu, 03 May 2018 22:49:55: #1 read treatment tags... INFO @ Thu, 03 May 2018 22:50:03: 1000000 INFO @ Thu, 03 May 2018 22:50:04: 1000000 INFO @ Thu, 03 May 2018 22:50:04: 1000000 INFO @ Thu, 03 May 2018 22:50:11: 2000000 INFO @ Thu, 03 May 2018 22:50:13: 2000000 INFO @ Thu, 03 May 2018 22:50:13: 2000000 INFO @ Thu, 03 May 2018 22:50:20: 3000000 INFO @ Thu, 03 May 2018 22:50:22: 3000000 INFO @ Thu, 03 May 2018 22:50:22: 3000000 INFO @ Thu, 03 May 2018 22:50:28: 4000000 INFO @ Thu, 03 May 2018 22:50:32: 4000000 INFO @ Thu, 03 May 2018 22:50:32: 4000000 INFO @ Thu, 03 May 2018 22:50:36: 5000000 INFO @ Thu, 03 May 2018 22:50:40: 5000000 INFO @ Thu, 03 May 2018 22:50:40: 5000000 INFO @ Thu, 03 May 2018 22:50:44: 6000000 INFO @ Thu, 03 May 2018 22:50:49: 6000000 INFO @ Thu, 03 May 2018 22:50:49: 6000000 INFO @ Thu, 03 May 2018 22:50:51: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:50:51: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:50:51: #1 total tags in treatment: 6922750 INFO @ Thu, 03 May 2018 22:50:51: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:50:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 22:50:51: #1 tags after filtering in treatment: 6922750 INFO @ Thu, 03 May 2018 22:50:51: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:50:51: #1 finished! INFO @ Thu, 03 May 2018 22:50:51: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:50:51: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:50:51: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:50:51: 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 @ Thu, 03 May 2018 22:50:51: Process for pairing-model is terminated! cat: SRX2737486.20_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 `SRX2737486.20_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 `SRX2737486.20_*.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 `SRX2737486.20_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 @ Thu, 03 May 2018 22:50:57: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:50:57: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:50:57: #1 total tags in treatment: 6922750 INFO @ Thu, 03 May 2018 22:50:57: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:50:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 22:50:57: #1 tag size is determined as 101 bps INFO @ Thu, 03 May 2018 22:50:57: #1 tag size = 101 INFO @ Thu, 03 May 2018 22:50:57: #1 total tags in treatment: 6922750 INFO @ Thu, 03 May 2018 22:50:57: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 22:50:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 22:50:57: #1 tags after filtering in treatment: 6922750 INFO @ Thu, 03 May 2018 22:50:57: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:50:57: #1 finished! INFO @ Thu, 03 May 2018 22:50:57: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:50:57: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:50:57: #1 tags after filtering in treatment: 6922750 INFO @ Thu, 03 May 2018 22:50:57: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 22:50:57: #1 finished! INFO @ Thu, 03 May 2018 22:50:57: #2 Build Peak Model... INFO @ Thu, 03 May 2018 22:50:57: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 22:50:58: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:50:58: 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 @ Thu, 03 May 2018 22:50:58: Process for pairing-model is terminated! cat: SRX2737486.05_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 `SRX2737486.05_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 `SRX2737486.05_*.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 `SRX2737486.05_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 @ Thu, 03 May 2018 22:50:58: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 22:50:58: 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 @ Thu, 03 May 2018 22:50:58: Process for pairing-model is terminated! cat: SRX2737486.10_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 `SRX2737486.10_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 `SRX2737486.10_*.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 `SRX2737486.10_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。