Job ID = 11162601 sra ファイルのダウンロード中... Completed: 780640K bytes transferred in 12 seconds (504418K 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 42826023 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585211/SRR6495911.sra Written 42826023 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585211/SRR6495911.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: 00:07:25 42826023 reads; of these: 42826023 (100.00%) were unpaired; of these: 10693757 (24.97%) aligned 0 times 29141208 (68.05%) aligned exactly 1 time 2991058 (6.98%) aligned >1 times 75.03% overall alignment rate Time searching: 00:07:25 Overall time: 00:07:25 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 16 files... [bam_rmdupse_core] 20255211 / 32132266 = 0.6304 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 10:36:25: # Command line: callpeak -t SRX3585211.bam -f BAM -g 12100000 -n SRX3585211.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585211.05 # format = BAM # ChIP-seq file = ['SRX3585211.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 10:36:25: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:36:25: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:36:25: # Command line: callpeak -t SRX3585211.bam -f BAM -g 12100000 -n SRX3585211.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585211.10 # format = BAM # ChIP-seq file = ['SRX3585211.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 10:36:25: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:36:25: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:36:25: # Command line: callpeak -t SRX3585211.bam -f BAM -g 12100000 -n SRX3585211.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585211.20 # format = BAM # ChIP-seq file = ['SRX3585211.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 10:36:25: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:36:25: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:36:33: 1000000 INFO @ Wed, 05 Sep 2018 10:36:34: 1000000 INFO @ Wed, 05 Sep 2018 10:36:34: 1000000 INFO @ Wed, 05 Sep 2018 10:36:42: 2000000 INFO @ Wed, 05 Sep 2018 10:36:43: 2000000 INFO @ Wed, 05 Sep 2018 10:36:43: 2000000 INFO @ Wed, 05 Sep 2018 10:36:50: 3000000 INFO @ Wed, 05 Sep 2018 10:36:53: 3000000 INFO @ Wed, 05 Sep 2018 10:36:53: 3000000 INFO @ Wed, 05 Sep 2018 10:36:59: 4000000 INFO @ Wed, 05 Sep 2018 10:37:02: 4000000 INFO @ Wed, 05 Sep 2018 10:37:02: 4000000 INFO @ Wed, 05 Sep 2018 10:37:07: 5000000 INFO @ Wed, 05 Sep 2018 10:37:11: 5000000 INFO @ Wed, 05 Sep 2018 10:37:11: 5000000 INFO @ Wed, 05 Sep 2018 10:37:16: 6000000 INFO @ Wed, 05 Sep 2018 10:37:21: 6000000 INFO @ Wed, 05 Sep 2018 10:37:21: 6000000 INFO @ Wed, 05 Sep 2018 10:37:25: 7000000 INFO @ Wed, 05 Sep 2018 10:37:30: 7000000 INFO @ Wed, 05 Sep 2018 10:37:30: 7000000 INFO @ Wed, 05 Sep 2018 10:37:33: 8000000 INFO @ Wed, 05 Sep 2018 10:37:39: 8000000 INFO @ Wed, 05 Sep 2018 10:37:39: 8000000 INFO @ Wed, 05 Sep 2018 10:37:42: 9000000 INFO @ Wed, 05 Sep 2018 10:37:48: 9000000 INFO @ Wed, 05 Sep 2018 10:37:49: 9000000 INFO @ Wed, 05 Sep 2018 10:37:51: 10000000 INFO @ Wed, 05 Sep 2018 10:37:58: 10000000 INFO @ Wed, 05 Sep 2018 10:37:58: 10000000 INFO @ Wed, 05 Sep 2018 10:37:59: 11000000 INFO @ Wed, 05 Sep 2018 10:38:07: 11000000 INFO @ Wed, 05 Sep 2018 10:38:07: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:38:07: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:38:07: #1 total tags in treatment: 11877055 INFO @ Wed, 05 Sep 2018 10:38:07: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:38:07: #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 10:38:07: #1 tags after filtering in treatment: 11877055 INFO @ Wed, 05 Sep 2018 10:38:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:38:07: #1 finished! INFO @ Wed, 05 Sep 2018 10:38:07: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:38:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:38:07: 11000000 INFO @ Wed, 05 Sep 2018 10:38:08: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:38:08: 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 10:38:08: Process for pairing-model is terminated! cat: SRX3585211.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585211.20_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 `SRX3585211.20_*.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 `SRX3585211.20_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, 05 Sep 2018 10:38:14: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:38:14: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:38:14: #1 total tags in treatment: 11877055 INFO @ Wed, 05 Sep 2018 10:38:14: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:38:14: #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 10:38:15: #1 tags after filtering in treatment: 11877055 INFO @ Wed, 05 Sep 2018 10:38:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:38:15: #1 finished! INFO @ Wed, 05 Sep 2018 10:38:15: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:38:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:38:15: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:38:15: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:38:15: #1 total tags in treatment: 11877055 INFO @ Wed, 05 Sep 2018 10:38:15: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:38:15: #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 10:38:15: #1 tags after filtering in treatment: 11877055 INFO @ Wed, 05 Sep 2018 10:38:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:38:15: #1 finished! INFO @ Wed, 05 Sep 2018 10:38:15: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:38:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:38:15: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:38:15: 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 10:38:15: Process for pairing-model is terminated! cat: SRX3585211.05_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585211.05_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 `SRX3585211.05_*.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 `SRX3585211.05_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 10:38:16: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:38:16: 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 10:38:16: Process for pairing-model is terminated! cat: SRX3585211.10_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 `SRX3585211.10_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 `SRX3585211.10_*.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 `SRX3585211.10_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。