Job ID = 10254448 sra ファイルのダウンロード中... Completed: 107225K bytes transferred in 5 seconds (146967K bits/sec), in 1 file. Completed: 115952K bytes transferred in 6 seconds (149491K 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 4202798 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353386/SRR6246246.sra Written 4202798 spots total Written 4532787 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353386/SRR6246247.sra Written 4532787 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 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: 00:01:28 8735585 reads; of these: 8735585 (100.00%) were unpaired; of these: 900219 (10.31%) aligned 0 times 6946199 (79.52%) aligned exactly 1 time 889167 (10.18%) aligned >1 times 89.69% overall alignment rate Time searching: 00:01:28 Overall time: 00:01:28 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] 2027045 / 7835366 = 0.2587 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 18:12:46: # Command line: callpeak -t SRX3353386.bam -f BAM -g 12100000 -n SRX3353386.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3353386.05 # format = BAM # ChIP-seq file = ['SRX3353386.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 18:12:46: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:12:46: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:12:46: # Command line: callpeak -t SRX3353386.bam -f BAM -g 12100000 -n SRX3353386.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3353386.20 # format = BAM # ChIP-seq file = ['SRX3353386.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 18:12:46: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:12:46: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:12:46: # Command line: callpeak -t SRX3353386.bam -f BAM -g 12100000 -n SRX3353386.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3353386.10 # format = BAM # ChIP-seq file = ['SRX3353386.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 18:12:46: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:12:46: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:12:52: 1000000 INFO @ Wed, 06 Dec 2017 18:12:52: 1000000 INFO @ Wed, 06 Dec 2017 18:12:52: 1000000 INFO @ Wed, 06 Dec 2017 18:12:58: 2000000 INFO @ Wed, 06 Dec 2017 18:12:58: 2000000 INFO @ Wed, 06 Dec 2017 18:12:58: 2000000 INFO @ Wed, 06 Dec 2017 18:13:04: 3000000 INFO @ Wed, 06 Dec 2017 18:13:05: 3000000 INFO @ Wed, 06 Dec 2017 18:13:05: 3000000 INFO @ Wed, 06 Dec 2017 18:13:10: 4000000 INFO @ Wed, 06 Dec 2017 18:13:11: 4000000 INFO @ Wed, 06 Dec 2017 18:13:11: 4000000 INFO @ Wed, 06 Dec 2017 18:13:16: 5000000 INFO @ Wed, 06 Dec 2017 18:13:17: 5000000 INFO @ Wed, 06 Dec 2017 18:13:17: 5000000 INFO @ Wed, 06 Dec 2017 18:13:20: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:13:20: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:13:20: #1 total tags in treatment: 5808321 INFO @ Wed, 06 Dec 2017 18:13:20: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:13:20: #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 18:13:20: #1 tags after filtering in treatment: 5808321 INFO @ Wed, 06 Dec 2017 18:13:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:13:20: #1 finished! INFO @ Wed, 06 Dec 2017 18:13:20: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:13:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:13:21: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:13:21: 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 18:13:21: Process for pairing-model is terminated! cat: SRX3353386.20_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 `SRX3353386.20_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 `SRX3353386.20_*.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 `SRX3353386.20_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, 06 Dec 2017 18:13:22: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:13:22: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:13:22: #1 total tags in treatment: 5808321 INFO @ Wed, 06 Dec 2017 18:13:22: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:13:22: #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 18:13:22: #1 tags after filtering in treatment: 5808321 INFO @ Wed, 06 Dec 2017 18:13:22: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:13:22: #1 finished! INFO @ Wed, 06 Dec 2017 18:13:22: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:13:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:13:22: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:13:22: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:13:22: #1 total tags in treatment: 5808321 INFO @ Wed, 06 Dec 2017 18:13:22: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:13:22: #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 18:13:22: #1 tags after filtering in treatment: 5808321 INFO @ Wed, 06 Dec 2017 18:13:22: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:13:22: #1 finished! INFO @ Wed, 06 Dec 2017 18:13:22: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:13:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:13:23: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:13:23: 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 18:13:23: Process for pairing-model is terminated! cat: SRX3353386.05_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 `SRX3353386.05_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 `SRX3353386.05_*.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 `SRX3353386.05_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 @ Wed, 06 Dec 2017 18:13:23: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:13:23: 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 18:13:23: Process for pairing-model is terminated! cat: SRX3353386.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3353386.10_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 `SRX3353386.10_*.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 `SRX3353386.10_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。