Job ID = 10254364 sra ファイルのダウンロード中... Completed: 200555K bytes transferred in 5 seconds (300265K 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 6707769 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2587987/SRR5284415.sra Written 6707769 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: 00:01:30 6707769 reads; of these: 6707769 (100.00%) were unpaired; of these: 3030734 (45.18%) aligned 0 times 3285802 (48.99%) aligned exactly 1 time 391233 (5.83%) aligned >1 times 54.82% overall alignment rate Time searching: 00:01:30 Overall time: 00:01:30 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] 1769853 / 3677035 = 0.4813 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, 06 Dec 2017 17:40:27: # Command line: callpeak -t SRX2587987.bam -f BAM -g 12100000 -n SRX2587987.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2587987.10 # format = BAM # ChIP-seq file = ['SRX2587987.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, 06 Dec 2017 17:40:27: #1 read tag files... INFO @ Wed, 06 Dec 2017 17:40:27: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 17:40:27: # Command line: callpeak -t SRX2587987.bam -f BAM -g 12100000 -n SRX2587987.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2587987.05 # format = BAM # ChIP-seq file = ['SRX2587987.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, 06 Dec 2017 17:40:27: #1 read tag files... INFO @ Wed, 06 Dec 2017 17:40:27: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 17:40:27: # Command line: callpeak -t SRX2587987.bam -f BAM -g 12100000 -n SRX2587987.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2587987.20 # format = BAM # ChIP-seq file = ['SRX2587987.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, 06 Dec 2017 17:40:27: #1 read tag files... INFO @ Wed, 06 Dec 2017 17:40:27: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 17:40:34: 1000000 INFO @ Wed, 06 Dec 2017 17:40:34: 1000000 INFO @ Wed, 06 Dec 2017 17:40:34: 1000000 INFO @ Wed, 06 Dec 2017 17:40:40: #1 tag size is determined as 50 bps INFO @ Wed, 06 Dec 2017 17:40:40: #1 tag size = 50 INFO @ Wed, 06 Dec 2017 17:40:40: #1 total tags in treatment: 1907182 INFO @ Wed, 06 Dec 2017 17:40:40: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 17:40:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 17:40:40: #1 tags after filtering in treatment: 1907182 INFO @ Wed, 06 Dec 2017 17:40:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 17:40:40: #1 finished! INFO @ Wed, 06 Dec 2017 17:40:40: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 17:40:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 17:40:40: #1 tag size is determined as 50 bps INFO @ Wed, 06 Dec 2017 17:40:40: #1 tag size = 50 INFO @ Wed, 06 Dec 2017 17:40:40: #1 total tags in treatment: 1907182 INFO @ Wed, 06 Dec 2017 17:40:40: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 17:40:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 17:40:40: #1 tag size is determined as 50 bps INFO @ Wed, 06 Dec 2017 17:40:40: #1 tag size = 50 INFO @ Wed, 06 Dec 2017 17:40:40: #1 total tags in treatment: 1907182 INFO @ Wed, 06 Dec 2017 17:40:40: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 17:40:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 17:40:40: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 17:40:40: 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, 06 Dec 2017 17:40:40: Process for pairing-model is terminated! INFO @ Wed, 06 Dec 2017 17:40:40: #1 tags after filtering in treatment: 1907182 INFO @ Wed, 06 Dec 2017 17:40:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 17:40:40: #1 finished! INFO @ Wed, 06 Dec 2017 17:40:40: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 17:40:40: #2 looking for paired plus/minus strand peaks... cat: SRX2587987.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 06 Dec 2017 17:40:40: #1 tags after filtering in treatment: 1907182 pass1 - making usageList (0 chroms): 1 millis INFO @ Wed, 06 Dec 2017 17:40:40: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 17:40:40: #1 finished! INFO @ Wed, 06 Dec 2017 17:40:40: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 17:40:40: #2 looking for paired plus/minus strand peaks... needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2587987.10_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 `SRX2587987.10_*.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 `SRX2587987.10_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, 06 Dec 2017 17:40:40: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 17:40:40: 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, 06 Dec 2017 17:40:40: Process for pairing-model is terminated! cat: SRX2587987.20_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, 06 Dec 2017 17:40:40: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 17:40:40: 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, 06 Dec 2017 17:40:40: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2587987.20_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 `SRX2587987.20_*.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 `SRX2587987.20_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: SRX2587987.05_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 `SRX2587987.05_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 `SRX2587987.05_*.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 `SRX2587987.05_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。