Job ID = 11162616 sra ファイルのダウンロード中... Completed: 679292K bytes transferred in 8 seconds (640599K 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 21691223 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585221/SRR6495921.sra Written 21691223 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585221/SRR6495921.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: 00:03:54 21691223 reads; of these: 21691223 (100.00%) were unpaired; of these: 2052457 (9.46%) aligned 0 times 17162490 (79.12%) aligned exactly 1 time 2476276 (11.42%) aligned >1 times 90.54% overall alignment rate Time searching: 00:03:54 Overall time: 00:03:54 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] 8568572 / 19638766 = 0.4363 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 10:37:57: # Command line: callpeak -t SRX3585221.bam -f BAM -g 12100000 -n SRX3585221.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585221.10 # format = BAM # ChIP-seq file = ['SRX3585221.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 10:37:57: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:37:57: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:37:57: # Command line: callpeak -t SRX3585221.bam -f BAM -g 12100000 -n SRX3585221.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585221.05 # format = BAM # ChIP-seq file = ['SRX3585221.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 10:37:57: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:37:57: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:37:57: # Command line: callpeak -t SRX3585221.bam -f BAM -g 12100000 -n SRX3585221.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585221.20 # format = BAM # ChIP-seq file = ['SRX3585221.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 10:37:57: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:37:57: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:38:03: 1000000 INFO @ Wed, 05 Sep 2018 10:38:03: 1000000 INFO @ Wed, 05 Sep 2018 10:38:03: 1000000 INFO @ Wed, 05 Sep 2018 10:38:10: 2000000 INFO @ Wed, 05 Sep 2018 10:38:10: 2000000 INFO @ Wed, 05 Sep 2018 10:38:10: 2000000 INFO @ Wed, 05 Sep 2018 10:38:17: 3000000 INFO @ Wed, 05 Sep 2018 10:38:17: 3000000 INFO @ Wed, 05 Sep 2018 10:38:18: 3000000 INFO @ Wed, 05 Sep 2018 10:38:24: 4000000 INFO @ Wed, 05 Sep 2018 10:38:24: 4000000 INFO @ Wed, 05 Sep 2018 10:38:25: 4000000 INFO @ Wed, 05 Sep 2018 10:38:30: 5000000 INFO @ Wed, 05 Sep 2018 10:38:30: 5000000 INFO @ Wed, 05 Sep 2018 10:38:32: 5000000 INFO @ Wed, 05 Sep 2018 10:38:37: 6000000 INFO @ Wed, 05 Sep 2018 10:38:37: 6000000 INFO @ Wed, 05 Sep 2018 10:38:39: 6000000 INFO @ Wed, 05 Sep 2018 10:38:44: 7000000 INFO @ Wed, 05 Sep 2018 10:38:44: 7000000 INFO @ Wed, 05 Sep 2018 10:38:46: 7000000 INFO @ Wed, 05 Sep 2018 10:38:51: 8000000 INFO @ Wed, 05 Sep 2018 10:38:51: 8000000 INFO @ Wed, 05 Sep 2018 10:38:53: 8000000 INFO @ Wed, 05 Sep 2018 10:38:57: 9000000 INFO @ Wed, 05 Sep 2018 10:38:58: 9000000 INFO @ Wed, 05 Sep 2018 10:39:01: 9000000 INFO @ Wed, 05 Sep 2018 10:39:04: 10000000 INFO @ Wed, 05 Sep 2018 10:39:04: 10000000 INFO @ Wed, 05 Sep 2018 10:39:08: 10000000 INFO @ Wed, 05 Sep 2018 10:39:11: 11000000 INFO @ Wed, 05 Sep 2018 10:39:12: 11000000 INFO @ Wed, 05 Sep 2018 10:39:12: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:39:12: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:39:12: #1 total tags in treatment: 11070194 INFO @ Wed, 05 Sep 2018 10:39:12: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:39:12: #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 10:39:12: #1 tags after filtering in treatment: 11070194 INFO @ Wed, 05 Sep 2018 10:39:12: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:39:12: #1 finished! INFO @ Wed, 05 Sep 2018 10:39:12: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:39:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:39:12: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:39:12: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:39:12: #1 total tags in treatment: 11070194 INFO @ Wed, 05 Sep 2018 10:39:12: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:39:12: #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 10:39:12: #1 tags after filtering in treatment: 11070194 INFO @ Wed, 05 Sep 2018 10:39:12: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:39:12: #1 finished! INFO @ Wed, 05 Sep 2018 10:39:12: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:39:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:39:13: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:39:13: 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 10:39:13: Process for pairing-model is terminated! cat: SRX3585221.10_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 `SRX3585221.10_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 `SRX3585221.10_*.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 `SRX3585221.10_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 10:39:13: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:39:13: 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 10:39:13: Process for pairing-model is terminated! cat: SRX3585221.05_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 `SRX3585221.05_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 `SRX3585221.05_*.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 `SRX3585221.05_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 10:39:15: 11000000 INFO @ Wed, 05 Sep 2018 10:39:15: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:39:15: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:39:15: #1 total tags in treatment: 11070194 INFO @ Wed, 05 Sep 2018 10:39:15: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:39:15: #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 10:39:15: #1 tags after filtering in treatment: 11070194 INFO @ Wed, 05 Sep 2018 10:39:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:39:15: #1 finished! INFO @ Wed, 05 Sep 2018 10:39:15: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:39:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:39:16: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:39:16: 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 10:39:16: Process for pairing-model is terminated! cat: SRX3585221.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585221.20_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 `SRX3585221.20_*.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 `SRX3585221.20_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。