Job ID = 9163563 sra ファイルのダウンロード中... Completed: 970479K bytes transferred in 11 seconds (715484K 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 18552692 spots for /home/okishinya/chipatlas/results/sacCer3/SRX957134/SRR1916162.sra Written 18552692 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: 00:03:35 18552692 reads; of these: 18552692 (100.00%) were unpaired; of these: 1275760 (6.88%) aligned 0 times 13680700 (73.74%) aligned exactly 1 time 3596232 (19.38%) aligned >1 times 93.12% overall alignment rate Time searching: 00:03:35 Overall time: 00:03:35 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] 7004144 / 17276932 = 0.4054 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 11:03:54: # Command line: callpeak -t SRX957134.bam -f BAM -g 12100000 -n SRX957134.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX957134.10 # format = BAM # ChIP-seq file = ['SRX957134.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 11:03:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:03:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:03:54: # Command line: callpeak -t SRX957134.bam -f BAM -g 12100000 -n SRX957134.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX957134.20 # format = BAM # ChIP-seq file = ['SRX957134.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 11:03:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:03:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:03:54: # Command line: callpeak -t SRX957134.bam -f BAM -g 12100000 -n SRX957134.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX957134.05 # format = BAM # ChIP-seq file = ['SRX957134.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 11:03:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:03:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:04:00: 1000000 INFO @ Wed, 28 Jun 2017 11:04:00: 1000000 INFO @ Wed, 28 Jun 2017 11:04:00: 1000000 INFO @ Wed, 28 Jun 2017 11:04:06: 2000000 INFO @ Wed, 28 Jun 2017 11:04:07: 2000000 INFO @ Wed, 28 Jun 2017 11:04:07: 2000000 INFO @ Wed, 28 Jun 2017 11:04:13: 3000000 INFO @ Wed, 28 Jun 2017 11:04:13: 3000000 INFO @ Wed, 28 Jun 2017 11:04:13: 3000000 INFO @ Wed, 28 Jun 2017 11:04:19: 4000000 INFO @ Wed, 28 Jun 2017 11:04:20: 4000000 INFO @ Wed, 28 Jun 2017 11:04:20: 4000000 INFO @ Wed, 28 Jun 2017 11:04:25: 5000000 INFO @ Wed, 28 Jun 2017 11:04:27: 5000000 INFO @ Wed, 28 Jun 2017 11:04:27: 5000000 INFO @ Wed, 28 Jun 2017 11:04:31: 6000000 INFO @ Wed, 28 Jun 2017 11:04:34: 6000000 INFO @ Wed, 28 Jun 2017 11:04:35: 6000000 INFO @ Wed, 28 Jun 2017 11:04:38: 7000000 INFO @ Wed, 28 Jun 2017 11:04:41: 7000000 INFO @ Wed, 28 Jun 2017 11:04:42: 7000000 INFO @ Wed, 28 Jun 2017 11:04:44: 8000000 INFO @ Wed, 28 Jun 2017 11:04:48: 8000000 INFO @ Wed, 28 Jun 2017 11:04:49: 8000000 INFO @ Wed, 28 Jun 2017 11:04:50: 9000000 INFO @ Wed, 28 Jun 2017 11:04:55: 9000000 INFO @ Wed, 28 Jun 2017 11:04:56: 9000000 INFO @ Wed, 28 Jun 2017 11:04:56: 10000000 INFO @ Wed, 28 Jun 2017 11:04:58: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:04:58: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:04:58: #1 total tags in treatment: 10272788 INFO @ Wed, 28 Jun 2017 11:04:58: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:04:58: #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 11:04:58: #1 tags after filtering in treatment: 10272788 INFO @ Wed, 28 Jun 2017 11:04:58: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:04:58: #1 finished! INFO @ Wed, 28 Jun 2017 11:04:58: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:04:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:04:59: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:04:59: 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 11:04:59: Process for pairing-model is terminated! cat: SRX957134.10_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 `SRX957134.10_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 `SRX957134.10_*.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 `SRX957134.10_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 11:05:02: 10000000 INFO @ Wed, 28 Jun 2017 11:05:03: 10000000 INFO @ Wed, 28 Jun 2017 11:05:04: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:05:04: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:05:04: #1 total tags in treatment: 10272788 INFO @ Wed, 28 Jun 2017 11:05:04: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:05:04: #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 11:05:04: #1 tags after filtering in treatment: 10272788 INFO @ Wed, 28 Jun 2017 11:05:04: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:05:04: #1 finished! INFO @ Wed, 28 Jun 2017 11:05:04: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:05:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:05:04: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:05:04: 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 11:05:04: Process for pairing-model is terminated! cat: SRX957134.20_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 `SRX957134.20_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 `SRX957134.20_*.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 `SRX957134.20_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 11:05:05: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:05:05: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:05:05: #1 total tags in treatment: 10272788 INFO @ Wed, 28 Jun 2017 11:05:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:05:05: #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 11:05:05: #1 tags after filtering in treatment: 10272788 INFO @ Wed, 28 Jun 2017 11:05:05: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:05:05: #1 finished! INFO @ Wed, 28 Jun 2017 11:05:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:05:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:05:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:05:06: 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 11:05:06: Process for pairing-model is terminated! cat: SRX957134.05_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 `SRX957134.05_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 `SRX957134.05_*.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 `SRX957134.05_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。