Job ID = 9162267 sra ファイルのダウンロード中... Completed: 724261K bytes transferred in 10 seconds (559636K bits/sec), in 1 file, 2 directories. 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 21397759 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1791133/SRR3568005.sra Written 21397759 spots total 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: 00:04:12 21397759 reads; of these: 21397759 (100.00%) were unpaired; of these: 1118133 (5.23%) aligned 0 times 16398878 (76.64%) aligned exactly 1 time 3880748 (18.14%) aligned >1 times 94.77% overall alignment rate Time searching: 00:04:12 Overall time: 00:04:12 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] 9069805 / 20279626 = 0.4472 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, 28 Jun 2017 07:15:47: # Command line: callpeak -t SRX1791133.bam -f BAM -g 12100000 -n SRX1791133.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1791133.05 # format = BAM # ChIP-seq file = ['SRX1791133.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, 28 Jun 2017 07:15:47: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:15:47: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:15:47: # Command line: callpeak -t SRX1791133.bam -f BAM -g 12100000 -n SRX1791133.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1791133.20 # format = BAM # ChIP-seq file = ['SRX1791133.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, 28 Jun 2017 07:15:47: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:15:47: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:15:47: # Command line: callpeak -t SRX1791133.bam -f BAM -g 12100000 -n SRX1791133.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1791133.10 # format = BAM # ChIP-seq file = ['SRX1791133.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, 28 Jun 2017 07:15:47: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:15:47: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:15:55: 1000000 INFO @ Wed, 28 Jun 2017 07:15:55: 1000000 INFO @ Wed, 28 Jun 2017 07:15:55: 1000000 INFO @ Wed, 28 Jun 2017 07:16:03: 2000000 INFO @ Wed, 28 Jun 2017 07:16:03: 2000000 INFO @ Wed, 28 Jun 2017 07:16:03: 2000000 INFO @ Wed, 28 Jun 2017 07:16:10: 3000000 INFO @ Wed, 28 Jun 2017 07:16:10: 3000000 INFO @ Wed, 28 Jun 2017 07:16:10: 3000000 INFO @ Wed, 28 Jun 2017 07:16:18: 4000000 INFO @ Wed, 28 Jun 2017 07:16:18: 4000000 INFO @ Wed, 28 Jun 2017 07:16:18: 4000000 INFO @ Wed, 28 Jun 2017 07:16:26: 5000000 INFO @ Wed, 28 Jun 2017 07:16:26: 5000000 INFO @ Wed, 28 Jun 2017 07:16:26: 5000000 INFO @ Wed, 28 Jun 2017 07:16:34: 6000000 INFO @ Wed, 28 Jun 2017 07:16:34: 6000000 INFO @ Wed, 28 Jun 2017 07:16:34: 6000000 INFO @ Wed, 28 Jun 2017 07:16:41: 7000000 INFO @ Wed, 28 Jun 2017 07:16:41: 7000000 INFO @ Wed, 28 Jun 2017 07:16:41: 7000000 INFO @ Wed, 28 Jun 2017 07:16:49: 8000000 INFO @ Wed, 28 Jun 2017 07:16:49: 8000000 INFO @ Wed, 28 Jun 2017 07:16:49: 8000000 INFO @ Wed, 28 Jun 2017 07:16:55: 9000000 INFO @ Wed, 28 Jun 2017 07:16:55: 9000000 INFO @ Wed, 28 Jun 2017 07:16:55: 9000000 INFO @ Wed, 28 Jun 2017 07:17:02: 10000000 INFO @ Wed, 28 Jun 2017 07:17:02: 10000000 INFO @ Wed, 28 Jun 2017 07:17:02: 10000000 INFO @ Wed, 28 Jun 2017 07:17:08: 11000000 INFO @ Wed, 28 Jun 2017 07:17:08: 11000000 INFO @ Wed, 28 Jun 2017 07:17:09: 11000000 INFO @ Wed, 28 Jun 2017 07:17:10: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:17:10: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:17:10: #1 total tags in treatment: 11209821 INFO @ Wed, 28 Jun 2017 07:17:10: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:17:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:17:10: #1 tags after filtering in treatment: 11209821 INFO @ Wed, 28 Jun 2017 07:17:10: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:17:10: #1 finished! INFO @ Wed, 28 Jun 2017 07:17:10: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:17:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:17:10: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:17:10: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:17:10: #1 total tags in treatment: 11209821 INFO @ Wed, 28 Jun 2017 07:17:10: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:17:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:17:10: #1 tags after filtering in treatment: 11209821 INFO @ Wed, 28 Jun 2017 07:17:10: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:17:10: #1 finished! INFO @ Wed, 28 Jun 2017 07:17:10: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:17:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:17:10: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:17:10: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:17:10: #1 total tags in treatment: 11209821 INFO @ Wed, 28 Jun 2017 07:17:10: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:17:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:17:10: #1 tags after filtering in treatment: 11209821 INFO @ Wed, 28 Jun 2017 07:17:10: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:17:10: #1 finished! INFO @ Wed, 28 Jun 2017 07:17:10: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:17:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:17:10: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:17:10: 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, 28 Jun 2017 07:17:10: Process for pairing-model is terminated! cat: SRX1791133.05_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 `SRX1791133.05_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 `SRX1791133.05_*.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 `SRX1791133.05_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, 28 Jun 2017 07:17:11: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:17:11: 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, 28 Jun 2017 07:17:11: Process for pairing-model is terminated! cat: SRX1791133.20_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 `SRX1791133.20_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 `SRX1791133.20_*.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 `SRX1791133.20_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, 28 Jun 2017 07:17:11: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:17:11: 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, 28 Jun 2017 07:17:11: Process for pairing-model is terminated! cat: SRX1791133.10_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 `SRX1791133.10_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 `SRX1791133.10_*.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 `SRX1791133.10_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。