Job ID = 9162148 sra ファイルのダウンロード中... Completed: 2240199K bytes transferred in 20 seconds (900663K 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 32853250 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1702427/SRR3375892.sra Written 32853250 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: 00:00:01 Multiseed full-index search: 00:14:08 32853250 reads; of these: 32853250 (100.00%) were unpaired; of these: 1457143 (4.44%) aligned 0 times 28141155 (85.66%) aligned exactly 1 time 3254952 (9.91%) aligned >1 times 95.56% overall alignment rate Time searching: 00:14:09 Overall time: 00:14:09 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 24 files... [bam_rmdupse_core] 23451175 / 31396107 = 0.7469 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 06:50:04: # Command line: callpeak -t SRX1702427.bam -f BAM -g 12100000 -n SRX1702427.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1702427.05 # format = BAM # ChIP-seq file = ['SRX1702427.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 06:50:04: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:50:04: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:50:04: # Command line: callpeak -t SRX1702427.bam -f BAM -g 12100000 -n SRX1702427.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1702427.10 # format = BAM # ChIP-seq file = ['SRX1702427.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 06:50:04: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:50:04: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:50:04: # Command line: callpeak -t SRX1702427.bam -f BAM -g 12100000 -n SRX1702427.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1702427.20 # format = BAM # ChIP-seq file = ['SRX1702427.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 06:50:04: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:50:04: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:50:14: 1000000 INFO @ Wed, 28 Jun 2017 06:50:14: 1000000 INFO @ Wed, 28 Jun 2017 06:50:14: 1000000 INFO @ Wed, 28 Jun 2017 06:50:23: 2000000 INFO @ Wed, 28 Jun 2017 06:50:24: 2000000 INFO @ Wed, 28 Jun 2017 06:50:24: 2000000 INFO @ Wed, 28 Jun 2017 06:50:33: 3000000 INFO @ Wed, 28 Jun 2017 06:50:34: 3000000 INFO @ Wed, 28 Jun 2017 06:50:34: 3000000 INFO @ Wed, 28 Jun 2017 06:50:43: 4000000 INFO @ Wed, 28 Jun 2017 06:50:44: 4000000 INFO @ Wed, 28 Jun 2017 06:50:46: 4000000 INFO @ Wed, 28 Jun 2017 06:50:53: 5000000 INFO @ Wed, 28 Jun 2017 06:50:54: 5000000 INFO @ Wed, 28 Jun 2017 06:50:57: 5000000 INFO @ Wed, 28 Jun 2017 06:51:04: 6000000 INFO @ Wed, 28 Jun 2017 06:51:05: 6000000 INFO @ Wed, 28 Jun 2017 06:51:08: 6000000 INFO @ Wed, 28 Jun 2017 06:51:14: 7000000 INFO @ Wed, 28 Jun 2017 06:51:14: 7000000 INFO @ Wed, 28 Jun 2017 06:51:18: 7000000 INFO @ Wed, 28 Jun 2017 06:51:23: #1 tag size is determined as 149 bps INFO @ Wed, 28 Jun 2017 06:51:23: #1 tag size = 149 INFO @ Wed, 28 Jun 2017 06:51:23: #1 total tags in treatment: 7944932 INFO @ Wed, 28 Jun 2017 06:51:23: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:51:23: #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 06:51:23: #1 tags after filtering in treatment: 7944932 INFO @ Wed, 28 Jun 2017 06:51:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:51:23: #1 finished! INFO @ Wed, 28 Jun 2017 06:51:23: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:51:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:51:23: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:51:23: 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 06:51:23: Process for pairing-model is terminated! cat: SRX1702427.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1702427.05_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 `SRX1702427.05_*.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 `SRX1702427.05_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 06:51:24: #1 tag size is determined as 149 bps INFO @ Wed, 28 Jun 2017 06:51:24: #1 tag size = 149 INFO @ Wed, 28 Jun 2017 06:51:24: #1 total tags in treatment: 7944932 INFO @ Wed, 28 Jun 2017 06:51:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:51:24: #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 06:51:24: #1 tags after filtering in treatment: 7944932 INFO @ Wed, 28 Jun 2017 06:51:24: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:51:24: #1 finished! INFO @ Wed, 28 Jun 2017 06:51:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:51:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:51:24: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:51:24: 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 06:51:24: Process for pairing-model is terminated! cat: SRX1702427.10_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 `SRX1702427.10_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 `SRX1702427.10_*.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 `SRX1702427.10_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 06:51:27: #1 tag size is determined as 149 bps INFO @ Wed, 28 Jun 2017 06:51:27: #1 tag size = 149 INFO @ Wed, 28 Jun 2017 06:51:27: #1 total tags in treatment: 7944932 INFO @ Wed, 28 Jun 2017 06:51:27: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:51:27: #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 06:51:27: #1 tags after filtering in treatment: 7944932 INFO @ Wed, 28 Jun 2017 06:51:27: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:51:27: #1 finished! INFO @ Wed, 28 Jun 2017 06:51:27: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:51:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:51:28: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:51:28: 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 06:51:28: Process for pairing-model is terminated! cat: SRX1702427.20_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 `SRX1702427.20_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 `SRX1702427.20_*.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 `SRX1702427.20_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。