Job ID = 9161664 sra ファイルのダウンロード中... Completed: 591319K bytes transferred in 11 seconds (427653K 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 27763078 spots for /home/okishinya/chipatlas/results/sacCer3/SRX058454/SRR189599.sra Written 27763078 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: 00:05:17 27763078 reads; of these: 27763078 (100.00%) were unpaired; of these: 1709330 (6.16%) aligned 0 times 22292388 (80.30%) aligned exactly 1 time 3761360 (13.55%) aligned >1 times 93.84% overall alignment rate Time searching: 00:05:17 Overall time: 00:05:17 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] 14992677 / 26053748 = 0.5755 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 04:27:16: # Command line: callpeak -t SRX058454.bam -f BAM -g 12100000 -n SRX058454.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX058454.20 # format = BAM # ChIP-seq file = ['SRX058454.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 04:27:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:27:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:27:16: # Command line: callpeak -t SRX058454.bam -f BAM -g 12100000 -n SRX058454.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX058454.05 # format = BAM # ChIP-seq file = ['SRX058454.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 04:27:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:27:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:27:16: # Command line: callpeak -t SRX058454.bam -f BAM -g 12100000 -n SRX058454.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX058454.10 # format = BAM # ChIP-seq file = ['SRX058454.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 04:27:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:27:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:27:22: 1000000 INFO @ Wed, 28 Jun 2017 04:27:22: 1000000 INFO @ Wed, 28 Jun 2017 04:27:22: 1000000 INFO @ Wed, 28 Jun 2017 04:27:28: 2000000 INFO @ Wed, 28 Jun 2017 04:27:28: 2000000 INFO @ Wed, 28 Jun 2017 04:27:28: 2000000 INFO @ Wed, 28 Jun 2017 04:27:34: 3000000 INFO @ Wed, 28 Jun 2017 04:27:34: 3000000 INFO @ Wed, 28 Jun 2017 04:27:34: 3000000 INFO @ Wed, 28 Jun 2017 04:27:40: 4000000 INFO @ Wed, 28 Jun 2017 04:27:41: 4000000 INFO @ Wed, 28 Jun 2017 04:27:41: 4000000 INFO @ Wed, 28 Jun 2017 04:27:45: 5000000 INFO @ Wed, 28 Jun 2017 04:27:47: 5000000 INFO @ Wed, 28 Jun 2017 04:27:48: 5000000 INFO @ Wed, 28 Jun 2017 04:27:51: 6000000 INFO @ Wed, 28 Jun 2017 04:27:53: 6000000 INFO @ Wed, 28 Jun 2017 04:27:54: 6000000 INFO @ Wed, 28 Jun 2017 04:27:57: 7000000 INFO @ Wed, 28 Jun 2017 04:28:00: 7000000 INFO @ Wed, 28 Jun 2017 04:28:01: 7000000 INFO @ Wed, 28 Jun 2017 04:28:03: 8000000 INFO @ Wed, 28 Jun 2017 04:28:06: 8000000 INFO @ Wed, 28 Jun 2017 04:28:07: 8000000 INFO @ Wed, 28 Jun 2017 04:28:09: 9000000 INFO @ Wed, 28 Jun 2017 04:28:13: 9000000 INFO @ Wed, 28 Jun 2017 04:28:14: 9000000 INFO @ Wed, 28 Jun 2017 04:28:15: 10000000 INFO @ Wed, 28 Jun 2017 04:28:19: 10000000 INFO @ Wed, 28 Jun 2017 04:28:20: 10000000 INFO @ Wed, 28 Jun 2017 04:28:21: 11000000 INFO @ Wed, 28 Jun 2017 04:28:21: #1 tag size is determined as 40 bps INFO @ Wed, 28 Jun 2017 04:28:21: #1 tag size = 40 INFO @ Wed, 28 Jun 2017 04:28:21: #1 total tags in treatment: 11061071 INFO @ Wed, 28 Jun 2017 04:28:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:28:21: #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 04:28:21: #1 tags after filtering in treatment: 11061071 INFO @ Wed, 28 Jun 2017 04:28:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:28:21: #1 finished! INFO @ Wed, 28 Jun 2017 04:28:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:28:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:28:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:28:22: 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 04:28:22: Process for pairing-model is terminated! cat: SRX058454.10_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 `SRX058454.10_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 `SRX058454.10_*.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 `SRX058454.10_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 04:28:26: 11000000 INFO @ Wed, 28 Jun 2017 04:28:26: #1 tag size is determined as 40 bps INFO @ Wed, 28 Jun 2017 04:28:26: #1 tag size = 40 INFO @ Wed, 28 Jun 2017 04:28:26: #1 total tags in treatment: 11061071 INFO @ Wed, 28 Jun 2017 04:28:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:28:26: #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 04:28:26: #1 tags after filtering in treatment: 11061071 INFO @ Wed, 28 Jun 2017 04:28:26: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:28:26: #1 finished! INFO @ Wed, 28 Jun 2017 04:28:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:28:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:28:27: 11000000 INFO @ Wed, 28 Jun 2017 04:28:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:28:27: 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 04:28:27: Process for pairing-model is terminated! cat: SRX058454.05_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 `SRX058454.05_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 `SRX058454.05_*.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 `SRX058454.05_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 04:28:27: #1 tag size is determined as 40 bps INFO @ Wed, 28 Jun 2017 04:28:27: #1 tag size = 40 INFO @ Wed, 28 Jun 2017 04:28:27: #1 total tags in treatment: 11061071 INFO @ Wed, 28 Jun 2017 04:28:27: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:28:27: #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 04:28:27: #1 tags after filtering in treatment: 11061071 INFO @ Wed, 28 Jun 2017 04:28:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:28:27: #1 finished! INFO @ Wed, 28 Jun 2017 04:28:27: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:28:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:28:28: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:28:28: 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 04:28:28: Process for pairing-model is terminated! cat: SRX058454.20_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 `SRX058454.20_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 `SRX058454.20_*.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 `SRX058454.20_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。