Job ID = 9163283 sra ファイルのダウンロード中... Completed: 1614201K bytes transferred in 19 seconds (673269K 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 22179681 spots for /home/okishinya/chipatlas/results/sacCer3/SRX707475/SRR1582478.sra Written 22179681 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: 00:05:52 22179681 reads; of these: 22179681 (100.00%) were unpaired; of these: 8554880 (38.57%) aligned 0 times 9860034 (44.46%) aligned exactly 1 time 3764767 (16.97%) aligned >1 times 61.43% overall alignment rate Time searching: 00:05:52 Overall time: 00:05:52 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] 6498057 / 13624801 = 0.4769 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 10:36:12: # Command line: callpeak -t SRX707475.bam -f BAM -g 12100000 -n SRX707475.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX707475.10 # format = BAM # ChIP-seq file = ['SRX707475.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 10:36:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:36:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:36:12: # Command line: callpeak -t SRX707475.bam -f BAM -g 12100000 -n SRX707475.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX707475.20 # format = BAM # ChIP-seq file = ['SRX707475.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 10:36:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:36:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:36:12: # Command line: callpeak -t SRX707475.bam -f BAM -g 12100000 -n SRX707475.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX707475.05 # format = BAM # ChIP-seq file = ['SRX707475.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 10:36:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:36:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:36:20: 1000000 INFO @ Wed, 28 Jun 2017 10:36:20: 1000000 INFO @ Wed, 28 Jun 2017 10:36:20: 1000000 INFO @ Wed, 28 Jun 2017 10:36:27: 2000000 INFO @ Wed, 28 Jun 2017 10:36:28: 2000000 INFO @ Wed, 28 Jun 2017 10:36:28: 2000000 INFO @ Wed, 28 Jun 2017 10:36:35: 3000000 INFO @ Wed, 28 Jun 2017 10:36:35: 3000000 INFO @ Wed, 28 Jun 2017 10:36:36: 3000000 INFO @ Wed, 28 Jun 2017 10:36:42: 4000000 INFO @ Wed, 28 Jun 2017 10:36:43: 4000000 INFO @ Wed, 28 Jun 2017 10:36:44: 4000000 INFO @ Wed, 28 Jun 2017 10:36:49: 5000000 INFO @ Wed, 28 Jun 2017 10:36:51: 5000000 INFO @ Wed, 28 Jun 2017 10:36:52: 5000000 INFO @ Wed, 28 Jun 2017 10:36:57: 6000000 INFO @ Wed, 28 Jun 2017 10:36:58: 6000000 INFO @ Wed, 28 Jun 2017 10:37:00: 6000000 INFO @ Wed, 28 Jun 2017 10:37:04: 7000000 INFO @ Wed, 28 Jun 2017 10:37:05: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 10:37:05: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 10:37:05: #1 total tags in treatment: 7126744 INFO @ Wed, 28 Jun 2017 10:37:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:37:05: #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 10:37:05: #1 tags after filtering in treatment: 7126744 INFO @ Wed, 28 Jun 2017 10:37:05: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:37:05: #1 finished! INFO @ Wed, 28 Jun 2017 10:37:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:37:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:37:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:37:06: 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 10:37:06: Process for pairing-model is terminated! cat: SRX707475.10_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 `SRX707475.10_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 `SRX707475.10_*.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 `SRX707475.10_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, 28 Jun 2017 10:37:06: 7000000 INFO @ Wed, 28 Jun 2017 10:37:07: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 10:37:07: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 10:37:07: #1 total tags in treatment: 7126744 INFO @ Wed, 28 Jun 2017 10:37:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:37:07: #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 10:37:07: #1 tags after filtering in treatment: 7126744 INFO @ Wed, 28 Jun 2017 10:37:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:37:07: #1 finished! INFO @ Wed, 28 Jun 2017 10:37:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:37:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:37:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:37:08: 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, 28 Jun 2017 10:37:08: Process for pairing-model is terminated! cat: SRX707475.20_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 `SRX707475.20_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 `SRX707475.20_*.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 `SRX707475.20_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 10:37:08: 7000000 INFO @ Wed, 28 Jun 2017 10:37:09: #1 tag size is determined as 100 bps INFO @ Wed, 28 Jun 2017 10:37:09: #1 tag size = 100 INFO @ Wed, 28 Jun 2017 10:37:09: #1 total tags in treatment: 7126744 INFO @ Wed, 28 Jun 2017 10:37:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:37:09: #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 10:37:09: #1 tags after filtering in treatment: 7126744 INFO @ Wed, 28 Jun 2017 10:37:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:37:09: #1 finished! INFO @ Wed, 28 Jun 2017 10:37:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:37:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:37:10: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 10:37:10: 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 10:37:10: Process for pairing-model is terminated! cat: SRX707475.05_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 `SRX707475.05_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 `SRX707475.05_*.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 `SRX707475.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。