Job ID = 11162589 sra ファイルのダウンロード中... Completed: 663672K bytes transferred in 12 seconds (420925K 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... Read 21362569 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585200/SRR6495900.sra Written 21362569 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585200/SRR6495900.sra 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: 00:03:19 21362569 reads; of these: 21362569 (100.00%) were unpaired; of these: 7507163 (35.14%) aligned 0 times 12364928 (57.88%) aligned exactly 1 time 1490478 (6.98%) aligned >1 times 64.86% overall alignment rate Time searching: 00:03:19 Overall time: 00:03:19 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] 7274438 / 13855406 = 0.5250 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, 05 Sep 2018 10:19:32: # Command line: callpeak -t SRX3585200.bam -f BAM -g 12100000 -n SRX3585200.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585200.05 # format = BAM # ChIP-seq file = ['SRX3585200.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, 05 Sep 2018 10:19:32: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:19:32: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:19:32: # Command line: callpeak -t SRX3585200.bam -f BAM -g 12100000 -n SRX3585200.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585200.20 # format = BAM # ChIP-seq file = ['SRX3585200.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, 05 Sep 2018 10:19:32: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:19:32: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:19:32: # Command line: callpeak -t SRX3585200.bam -f BAM -g 12100000 -n SRX3585200.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585200.10 # format = BAM # ChIP-seq file = ['SRX3585200.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, 05 Sep 2018 10:19:32: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:19:32: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:19:39: 1000000 INFO @ Wed, 05 Sep 2018 10:19:41: 1000000 INFO @ Wed, 05 Sep 2018 10:19:41: 1000000 INFO @ Wed, 05 Sep 2018 10:19:47: 2000000 INFO @ Wed, 05 Sep 2018 10:19:49: 2000000 INFO @ Wed, 05 Sep 2018 10:19:49: 2000000 INFO @ Wed, 05 Sep 2018 10:19:54: 3000000 INFO @ Wed, 05 Sep 2018 10:19:56: 3000000 INFO @ Wed, 05 Sep 2018 10:19:56: 3000000 INFO @ Wed, 05 Sep 2018 10:20:01: 4000000 INFO @ Wed, 05 Sep 2018 10:20:04: 4000000 INFO @ Wed, 05 Sep 2018 10:20:04: 4000000 INFO @ Wed, 05 Sep 2018 10:20:08: 5000000 INFO @ Wed, 05 Sep 2018 10:20:12: 5000000 INFO @ Wed, 05 Sep 2018 10:20:12: 5000000 INFO @ Wed, 05 Sep 2018 10:20:15: 6000000 INFO @ Wed, 05 Sep 2018 10:20:19: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:20:19: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:20:19: #1 total tags in treatment: 6580968 INFO @ Wed, 05 Sep 2018 10:20:19: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:20:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:20:19: #1 tags after filtering in treatment: 6580968 INFO @ Wed, 05 Sep 2018 10:20:19: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:20:19: #1 finished! INFO @ Wed, 05 Sep 2018 10:20:19: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:20:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:20:20: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:20:20: 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, 05 Sep 2018 10:20:20: Process for pairing-model is terminated! cat: SRX3585200.05_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585200.05_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 `SRX3585200.05_*.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 `SRX3585200.05_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, 05 Sep 2018 10:20:20: 6000000 INFO @ Wed, 05 Sep 2018 10:20:20: 6000000 INFO @ Wed, 05 Sep 2018 10:20:24: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:20:24: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:20:24: #1 total tags in treatment: 6580968 INFO @ Wed, 05 Sep 2018 10:20:24: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:20:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:20:24: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:20:24: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:20:24: #1 total tags in treatment: 6580968 INFO @ Wed, 05 Sep 2018 10:20:24: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:20:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:20:24: #1 tags after filtering in treatment: 6580968 INFO @ Wed, 05 Sep 2018 10:20:24: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:20:24: #1 finished! INFO @ Wed, 05 Sep 2018 10:20:24: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:20:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:20:24: #1 tags after filtering in treatment: 6580968 INFO @ Wed, 05 Sep 2018 10:20:24: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:20:24: #1 finished! INFO @ Wed, 05 Sep 2018 10:20:24: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:20:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:20:25: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:20:25: 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, 05 Sep 2018 10:20:25: Process for pairing-model is terminated! cat: SRX3585200.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585200.10_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 `SRX3585200.10_*.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 `SRX3585200.10_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, 05 Sep 2018 10:20:25: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:20:25: 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, 05 Sep 2018 10:20:25: Process for pairing-model is terminated! cat: SRX3585200.20_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 `SRX3585200.20_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 `SRX3585200.20_*.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 `SRX3585200.20_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。