Job ID = 9162433 sra ファイルのダウンロード中... Completed: 1061199K bytes transferred in 11 seconds (741658K 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 33348710 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2494096/SRR5177913.sra Written 33348710 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: 00:05:56 33348710 reads; of these: 33348710 (100.00%) were unpaired; of these: 3484800 (10.45%) aligned 0 times 26136070 (78.37%) aligned exactly 1 time 3727840 (11.18%) aligned >1 times 89.55% overall alignment rate Time searching: 00:05:56 Overall time: 00:05:56 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 16 files... [bam_rmdupse_core] 17106514 / 29863910 = 0.5728 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 07:58:03: # Command line: callpeak -t SRX2494096.bam -f BAM -g 12100000 -n SRX2494096.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2494096.05 # format = BAM # ChIP-seq file = ['SRX2494096.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 07:58:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:58:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:58:03: # Command line: callpeak -t SRX2494096.bam -f BAM -g 12100000 -n SRX2494096.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2494096.20 # format = BAM # ChIP-seq file = ['SRX2494096.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 07:58:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:58:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:58:03: # Command line: callpeak -t SRX2494096.bam -f BAM -g 12100000 -n SRX2494096.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2494096.10 # format = BAM # ChIP-seq file = ['SRX2494096.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 07:58:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:58:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:58:10: 1000000 INFO @ Wed, 28 Jun 2017 07:58:11: 1000000 INFO @ Wed, 28 Jun 2017 07:58:11: 1000000 INFO @ Wed, 28 Jun 2017 07:58:17: 2000000 INFO @ Wed, 28 Jun 2017 07:58:18: 2000000 INFO @ Wed, 28 Jun 2017 07:58:19: 2000000 INFO @ Wed, 28 Jun 2017 07:58:25: 3000000 INFO @ Wed, 28 Jun 2017 07:58:26: 3000000 INFO @ Wed, 28 Jun 2017 07:58:27: 3000000 INFO @ Wed, 28 Jun 2017 07:58:32: 4000000 INFO @ Wed, 28 Jun 2017 07:58:34: 4000000 INFO @ Wed, 28 Jun 2017 07:58:35: 4000000 INFO @ Wed, 28 Jun 2017 07:58:39: 5000000 INFO @ Wed, 28 Jun 2017 07:58:41: 5000000 INFO @ Wed, 28 Jun 2017 07:58:43: 5000000 INFO @ Wed, 28 Jun 2017 07:58:45: 6000000 INFO @ Wed, 28 Jun 2017 07:58:48: 6000000 INFO @ Wed, 28 Jun 2017 07:58:49: 6000000 INFO @ Wed, 28 Jun 2017 07:58:51: 7000000 INFO @ Wed, 28 Jun 2017 07:58:54: 7000000 INFO @ Wed, 28 Jun 2017 07:58:56: 7000000 INFO @ Wed, 28 Jun 2017 07:58:57: 8000000 INFO @ Wed, 28 Jun 2017 07:59:00: 8000000 INFO @ Wed, 28 Jun 2017 07:59:02: 8000000 INFO @ Wed, 28 Jun 2017 07:59:03: 9000000 INFO @ Wed, 28 Jun 2017 07:59:07: 9000000 INFO @ Wed, 28 Jun 2017 07:59:08: 9000000 INFO @ Wed, 28 Jun 2017 07:59:09: 10000000 INFO @ Wed, 28 Jun 2017 07:59:13: 10000000 INFO @ Wed, 28 Jun 2017 07:59:15: 10000000 INFO @ Wed, 28 Jun 2017 07:59:15: 11000000 INFO @ Wed, 28 Jun 2017 07:59:19: 11000000 INFO @ Wed, 28 Jun 2017 07:59:21: 11000000 INFO @ Wed, 28 Jun 2017 07:59:21: 12000000 INFO @ Wed, 28 Jun 2017 07:59:26: 12000000 INFO @ Wed, 28 Jun 2017 07:59:26: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:59:26: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:59:26: #1 total tags in treatment: 12757396 INFO @ Wed, 28 Jun 2017 07:59:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:59:26: #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 07:59:26: #1 tags after filtering in treatment: 12757396 INFO @ Wed, 28 Jun 2017 07:59:26: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:59:26: #1 finished! INFO @ Wed, 28 Jun 2017 07:59:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:59:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:59:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:59:27: 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 07:59:27: Process for pairing-model is terminated! cat: SRX2494096.05_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 `SRX2494096.05_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 `SRX2494096.05_*.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 `SRX2494096.05_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 07:59:28: 12000000 INFO @ Wed, 28 Jun 2017 07:59:31: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:59:31: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:59:31: #1 total tags in treatment: 12757396 INFO @ Wed, 28 Jun 2017 07:59:31: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:59:31: #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 07:59:31: #1 tags after filtering in treatment: 12757396 INFO @ Wed, 28 Jun 2017 07:59:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:59:31: #1 finished! INFO @ Wed, 28 Jun 2017 07:59:31: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:59:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:59:32: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:59:32: 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 07:59:32: Process for pairing-model is terminated! cat: SRX2494096.20_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 `SRX2494096.20_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 `SRX2494096.20_*.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 `SRX2494096.20_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 07:59:32: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 07:59:32: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 07:59:32: #1 total tags in treatment: 12757396 INFO @ Wed, 28 Jun 2017 07:59:32: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:59:32: #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 07:59:33: #1 tags after filtering in treatment: 12757396 INFO @ Wed, 28 Jun 2017 07:59:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:59:33: #1 finished! INFO @ Wed, 28 Jun 2017 07:59:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:59:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:59:33: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:59:33: 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 07:59:33: Process for pairing-model is terminated! cat: SRX2494096.10_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 `SRX2494096.10_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 `SRX2494096.10_*.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 `SRX2494096.10_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。