Job ID = 9163442 sra ファイルのダウンロード中... Completed: 242208K bytes transferred in 5 seconds (365473K 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 9411977 spots for /home/okishinya/chipatlas/results/sacCer3/SRX717509/SRR1593204.sra Written 9411977 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: 00:01:28 9411977 reads; of these: 9411977 (100.00%) were unpaired; of these: 750274 (7.97%) aligned 0 times 7024036 (74.63%) aligned exactly 1 time 1637667 (17.40%) aligned >1 times 92.03% overall alignment rate Time searching: 00:01:28 Overall time: 00:01:28 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_rmdupse_core] 4571995 / 8661703 = 0.5278 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 10:46:20: # Command line: callpeak -t SRX717509.bam -f BAM -g 12100000 -n SRX717509.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX717509.05 # format = BAM # ChIP-seq file = ['SRX717509.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 10:46:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:46:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:46:20: # Command line: callpeak -t SRX717509.bam -f BAM -g 12100000 -n SRX717509.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX717509.20 # format = BAM # ChIP-seq file = ['SRX717509.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 10:46:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:46:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:46:20: # Command line: callpeak -t SRX717509.bam -f BAM -g 12100000 -n SRX717509.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX717509.10 # format = BAM # ChIP-seq file = ['SRX717509.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 10:46:20: #1 read tag files... INFO @ Wed, 28 Jun 2017 10:46:20: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 10:46:27: 1000000 INFO @ Wed, 28 Jun 2017 10:46:28: 1000000 INFO @ Wed, 28 Jun 2017 10:46:28: 1000000 INFO @ Wed, 28 Jun 2017 10:46:34: 2000000 INFO @ Wed, 28 Jun 2017 10:46:35: 2000000 INFO @ Wed, 28 Jun 2017 10:46:35: 2000000 INFO @ Wed, 28 Jun 2017 10:46:41: 3000000 INFO @ Wed, 28 Jun 2017 10:46:43: 3000000 INFO @ Wed, 28 Jun 2017 10:46:43: 3000000 INFO @ Wed, 28 Jun 2017 10:46:49: 4000000 INFO @ Wed, 28 Jun 2017 10:46:49: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:46:49: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:46:49: #1 total tags in treatment: 4089708 INFO @ Wed, 28 Jun 2017 10:46:49: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:46:49: #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 10:46:49: #1 tags after filtering in treatment: 4089708 INFO @ Wed, 28 Jun 2017 10:46:49: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:46:49: #1 finished! INFO @ Wed, 28 Jun 2017 10:46:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:46:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:46:49: #2 number of paired peaks: 15 WARNING @ Wed, 28 Jun 2017 10:46:49: Too few paired peaks (15) 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 10:46:49: Process for pairing-model is terminated! cat: SRX717509.05_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 `SRX717509.05_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 `SRX717509.05_*.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 `SRX717509.05_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 10:46:51: 4000000 INFO @ Wed, 28 Jun 2017 10:46:51: 4000000 INFO @ Wed, 28 Jun 2017 10:46:51: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:46:51: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:46:51: #1 total tags in treatment: 4089708 INFO @ Wed, 28 Jun 2017 10:46:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:46:51: #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 10:46:51: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 10:46:51: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 10:46:51: #1 total tags in treatment: 4089708 INFO @ Wed, 28 Jun 2017 10:46:51: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 10:46:51: #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 10:46:51: #1 tags after filtering in treatment: 4089708 INFO @ Wed, 28 Jun 2017 10:46:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:46:51: #1 finished! INFO @ Wed, 28 Jun 2017 10:46:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:46:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:46:51: #1 tags after filtering in treatment: 4089708 INFO @ Wed, 28 Jun 2017 10:46:51: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 10:46:51: #1 finished! INFO @ Wed, 28 Jun 2017 10:46:51: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 10:46:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 10:46:52: #2 number of paired peaks: 15 WARNING @ Wed, 28 Jun 2017 10:46:52: Too few paired peaks (15) 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 10:46:52: Process for pairing-model is terminated! cat: SRX717509.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 10:46:52: #2 number of paired peaks: 15 WARNING @ Wed, 28 Jun 2017 10:46:52: Too few paired peaks (15) 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 10:46:52: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX717509.20_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 `SRX717509.20_*.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 `SRX717509.20_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 cat: SRX717509.10_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 `SRX717509.10_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 `SRX717509.10_*.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 `SRX717509.10_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。