Job ID = 10254458 sra ファイルのダウンロード中... Completed: 209278K bytes transferred in 10 seconds (166502K bits/sec), in 1 file. Completed: 168719K bytes transferred in 7 seconds (190283K 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 6658859 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353395/SRR6246265.sra Written 6658859 spots total Written 8316066 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353395/SRR6246264.sra Written 8316066 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: 00:02:15 14974925 reads; of these: 14974925 (100.00%) were unpaired; of these: 4369110 (29.18%) aligned 0 times 9431143 (62.98%) aligned exactly 1 time 1174672 (7.84%) aligned >1 times 70.82% overall alignment rate Time searching: 00:02:15 Overall time: 00:02:15 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] 3577535 / 10605815 = 0.3373 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 18:26:06: # Command line: callpeak -t SRX3353395.bam -f BAM -g 12100000 -n SRX3353395.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3353395.05 # format = BAM # ChIP-seq file = ['SRX3353395.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 18:26:06: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:26:06: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:26:06: # Command line: callpeak -t SRX3353395.bam -f BAM -g 12100000 -n SRX3353395.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3353395.10 # format = BAM # ChIP-seq file = ['SRX3353395.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 18:26:06: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:26:06: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:26:06: # Command line: callpeak -t SRX3353395.bam -f BAM -g 12100000 -n SRX3353395.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3353395.20 # format = BAM # ChIP-seq file = ['SRX3353395.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 18:26:06: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:26:06: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:26:13: 1000000 INFO @ Wed, 06 Dec 2017 18:26:13: 1000000 INFO @ Wed, 06 Dec 2017 18:26:13: 1000000 INFO @ Wed, 06 Dec 2017 18:26:19: 2000000 INFO @ Wed, 06 Dec 2017 18:26:20: 2000000 INFO @ Wed, 06 Dec 2017 18:26:20: 2000000 INFO @ Wed, 06 Dec 2017 18:26:26: 3000000 INFO @ Wed, 06 Dec 2017 18:26:27: 3000000 INFO @ Wed, 06 Dec 2017 18:26:27: 3000000 INFO @ Wed, 06 Dec 2017 18:26:33: 4000000 INFO @ Wed, 06 Dec 2017 18:26:34: 4000000 INFO @ Wed, 06 Dec 2017 18:26:34: 4000000 INFO @ Wed, 06 Dec 2017 18:26:40: 5000000 INFO @ Wed, 06 Dec 2017 18:26:41: 5000000 INFO @ Wed, 06 Dec 2017 18:26:41: 5000000 INFO @ Wed, 06 Dec 2017 18:26:47: 6000000 INFO @ Wed, 06 Dec 2017 18:26:48: 6000000 INFO @ Wed, 06 Dec 2017 18:26:49: 6000000 INFO @ Wed, 06 Dec 2017 18:26:53: 7000000 INFO @ Wed, 06 Dec 2017 18:26:54: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:26:54: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:26:54: #1 total tags in treatment: 7028280 INFO @ Wed, 06 Dec 2017 18:26:54: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:26:54: #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 18:26:54: #1 tags after filtering in treatment: 7028280 INFO @ Wed, 06 Dec 2017 18:26:54: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:26:54: #1 finished! INFO @ Wed, 06 Dec 2017 18:26:54: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:26:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:26:54: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:26:54: 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 18:26:54: Process for pairing-model is terminated! cat: SRX3353395.10_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 `SRX3353395.10_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 `SRX3353395.10_*.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 `SRX3353395.10_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 18:26:55: 7000000 INFO @ Wed, 06 Dec 2017 18:26:55: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:26:55: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:26:55: #1 total tags in treatment: 7028280 INFO @ Wed, 06 Dec 2017 18:26:55: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:26:55: #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 18:26:56: 7000000 INFO @ Wed, 06 Dec 2017 18:26:56: #1 tags after filtering in treatment: 7028280 INFO @ Wed, 06 Dec 2017 18:26:56: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:26:56: #1 finished! INFO @ Wed, 06 Dec 2017 18:26:56: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:26:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:26:56: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:26:56: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:26:56: #1 total tags in treatment: 7028280 INFO @ Wed, 06 Dec 2017 18:26:56: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:26:56: #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 18:26:56: #1 tags after filtering in treatment: 7028280 INFO @ Wed, 06 Dec 2017 18:26:56: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:26:56: #1 finished! INFO @ Wed, 06 Dec 2017 18:26:56: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:26:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:26:56: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:26:56: 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 18:26:56: Process for pairing-model is terminated! cat: SRX3353395.05_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 `SRX3353395.05_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 `SRX3353395.05_*.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 `SRX3353395.05_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 18:26:56: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:26:56: 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 18:26:56: Process for pairing-model is terminated! cat: SRX3353395.20_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 `SRX3353395.20_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 `SRX3353395.20_*.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 `SRX3353395.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。