Job ID = 11162576 sra ファイルのダウンロード中... Completed: 680017K bytes transferred in 12 seconds (447016K 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 21762377 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585190/SRR6495890.sra Written 21762377 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585190/SRR6495890.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: 00:04:11 21762377 reads; of these: 21762377 (100.00%) were unpaired; of these: 1769068 (8.13%) aligned 0 times 17501303 (80.42%) aligned exactly 1 time 2492006 (11.45%) aligned >1 times 91.87% overall alignment rate Time searching: 00:04:11 Overall time: 00:04:11 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 12 files... [bam_rmdupse_core] 9470629 / 19993309 = 0.4737 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 10:15:44: # Command line: callpeak -t SRX3585190.bam -f BAM -g 12100000 -n SRX3585190.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585190.20 # format = BAM # ChIP-seq file = ['SRX3585190.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 10:15:44: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:15:44: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:15:44: # Command line: callpeak -t SRX3585190.bam -f BAM -g 12100000 -n SRX3585190.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585190.10 # format = BAM # ChIP-seq file = ['SRX3585190.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 10:15:44: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:15:44: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:15:44: # Command line: callpeak -t SRX3585190.bam -f BAM -g 12100000 -n SRX3585190.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585190.05 # format = BAM # ChIP-seq file = ['SRX3585190.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 10:15:44: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:15:44: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:15:51: 1000000 INFO @ Wed, 05 Sep 2018 10:15:51: 1000000 INFO @ Wed, 05 Sep 2018 10:15:51: 1000000 INFO @ Wed, 05 Sep 2018 10:15:57: 2000000 INFO @ Wed, 05 Sep 2018 10:15:58: 2000000 INFO @ Wed, 05 Sep 2018 10:15:58: 2000000 INFO @ Wed, 05 Sep 2018 10:16:03: 3000000 INFO @ Wed, 05 Sep 2018 10:16:05: 3000000 INFO @ Wed, 05 Sep 2018 10:16:05: 3000000 INFO @ Wed, 05 Sep 2018 10:16:10: 4000000 INFO @ Wed, 05 Sep 2018 10:16:13: 4000000 INFO @ Wed, 05 Sep 2018 10:16:13: 4000000 INFO @ Wed, 05 Sep 2018 10:16:17: 5000000 INFO @ Wed, 05 Sep 2018 10:16:21: 5000000 INFO @ Wed, 05 Sep 2018 10:16:21: 5000000 INFO @ Wed, 05 Sep 2018 10:16:24: 6000000 INFO @ Wed, 05 Sep 2018 10:16:29: 6000000 INFO @ Wed, 05 Sep 2018 10:16:29: 6000000 INFO @ Wed, 05 Sep 2018 10:16:31: 7000000 INFO @ Wed, 05 Sep 2018 10:16:38: 7000000 INFO @ Wed, 05 Sep 2018 10:16:38: 7000000 INFO @ Wed, 05 Sep 2018 10:16:39: 8000000 INFO @ Wed, 05 Sep 2018 10:16:46: 8000000 INFO @ Wed, 05 Sep 2018 10:16:46: 8000000 INFO @ Wed, 05 Sep 2018 10:16:46: 9000000 INFO @ Wed, 05 Sep 2018 10:16:53: 10000000 INFO @ Wed, 05 Sep 2018 10:16:54: 9000000 INFO @ Wed, 05 Sep 2018 10:16:54: 9000000 INFO @ Wed, 05 Sep 2018 10:16:57: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:16:57: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:16:57: #1 total tags in treatment: 10522680 INFO @ Wed, 05 Sep 2018 10:16:57: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:16:57: #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 10:16:57: #1 tags after filtering in treatment: 10522680 INFO @ Wed, 05 Sep 2018 10:16:57: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:16:57: #1 finished! INFO @ Wed, 05 Sep 2018 10:16:57: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:16:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:16:57: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:16:57: 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 10:16:57: Process for pairing-model is terminated! cat: SRX3585190.20_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): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585190.20_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 `SRX3585190.20_*.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 `SRX3585190.20_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 10:17:02: 10000000 INFO @ Wed, 05 Sep 2018 10:17:02: 10000000 INFO @ Wed, 05 Sep 2018 10:17:06: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:17:06: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:17:06: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:17:06: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:17:06: #1 total tags in treatment: 10522680 INFO @ Wed, 05 Sep 2018 10:17:06: #1 total tags in treatment: 10522680 INFO @ Wed, 05 Sep 2018 10:17:06: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:17:06: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:17:06: #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 10:17:06: #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 10:17:07: #1 tags after filtering in treatment: 10522680 INFO @ Wed, 05 Sep 2018 10:17:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:17:07: #1 tags after filtering in treatment: 10522680 INFO @ Wed, 05 Sep 2018 10:17:07: #1 finished! INFO @ Wed, 05 Sep 2018 10:17:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:17:07: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:17:07: #1 finished! INFO @ Wed, 05 Sep 2018 10:17:07: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:17:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:17:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:17:07: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:17:07: 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 10:17:07: Process for pairing-model is terminated! INFO @ Wed, 05 Sep 2018 10:17:07: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:17:07: 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 10:17:07: Process for pairing-model is terminated! cat: SRX3585190.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3585190.10_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 pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585190.10_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 `SRX3585190.05_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 `SRX3585190.10_*.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 `SRX3585190.05_*.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 `SRX3585190.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3585190.05_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 CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。