Job ID = 9162181 sra ファイルのダウンロード中... Completed: 575341K bytes transferred in 7 seconds (600929K 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 23481510 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738611/SRR3471142.sra Written 23481510 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: 00:04:58 23481510 reads; of these: 23481510 (100.00%) were unpaired; of these: 12508436 (53.27%) aligned 0 times 9417709 (40.11%) aligned exactly 1 time 1555365 (6.62%) aligned >1 times 46.73% overall alignment rate Time searching: 00:04:58 Overall time: 00:04:58 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] 3399128 / 10973074 = 0.3098 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 06:49:13: # Command line: callpeak -t SRX1738611.bam -f BAM -g 12100000 -n SRX1738611.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738611.10 # format = BAM # ChIP-seq file = ['SRX1738611.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 06:49:13: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:49:13: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:49:13: # Command line: callpeak -t SRX1738611.bam -f BAM -g 12100000 -n SRX1738611.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738611.05 # format = BAM # ChIP-seq file = ['SRX1738611.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 06:49:13: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:49:13: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:49:13: # Command line: callpeak -t SRX1738611.bam -f BAM -g 12100000 -n SRX1738611.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738611.20 # format = BAM # ChIP-seq file = ['SRX1738611.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 06:49:13: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:49:13: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:49:20: 1000000 INFO @ Wed, 28 Jun 2017 06:49:20: 1000000 INFO @ Wed, 28 Jun 2017 06:49:20: 1000000 INFO @ Wed, 28 Jun 2017 06:49:28: 2000000 INFO @ Wed, 28 Jun 2017 06:49:29: 2000000 INFO @ Wed, 28 Jun 2017 06:49:30: 2000000 INFO @ Wed, 28 Jun 2017 06:49:35: 3000000 INFO @ Wed, 28 Jun 2017 06:49:38: 3000000 INFO @ Wed, 28 Jun 2017 06:49:39: 3000000 INFO @ Wed, 28 Jun 2017 06:49:42: 4000000 INFO @ Wed, 28 Jun 2017 06:49:45: 4000000 INFO @ Wed, 28 Jun 2017 06:49:46: 4000000 INFO @ Wed, 28 Jun 2017 06:49:49: 5000000 INFO @ Wed, 28 Jun 2017 06:49:52: 5000000 INFO @ Wed, 28 Jun 2017 06:49:54: 5000000 INFO @ Wed, 28 Jun 2017 06:49:56: 6000000 INFO @ Wed, 28 Jun 2017 06:49:59: 6000000 INFO @ Wed, 28 Jun 2017 06:50:01: 6000000 INFO @ Wed, 28 Jun 2017 06:50:03: 7000000 INFO @ Wed, 28 Jun 2017 06:50:07: 7000000 INFO @ Wed, 28 Jun 2017 06:50:07: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:50:07: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:50:07: #1 total tags in treatment: 7573946 INFO @ Wed, 28 Jun 2017 06:50:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:50:07: #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 06:50:07: #1 tags after filtering in treatment: 7573946 INFO @ Wed, 28 Jun 2017 06:50:07: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:50:07: #1 finished! INFO @ Wed, 28 Jun 2017 06:50:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:50:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:50:07: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:50:07: 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 06:50:07: Process for pairing-model is terminated! cat: SRX1738611.05_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 `SRX1738611.05_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 `SRX1738611.05_*.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 `SRX1738611.05_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 06:50:09: 7000000 INFO @ Wed, 28 Jun 2017 06:50:11: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:50:11: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:50:11: #1 total tags in treatment: 7573946 INFO @ Wed, 28 Jun 2017 06:50:11: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:50:11: #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 06:50:11: #1 tags after filtering in treatment: 7573946 INFO @ Wed, 28 Jun 2017 06:50:11: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:50:11: #1 finished! INFO @ Wed, 28 Jun 2017 06:50:11: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:50:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:50:12: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:50:12: 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 06:50:12: Process for pairing-model is terminated! cat: SRX1738611.10_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 `SRX1738611.10_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 `SRX1738611.10_*.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 `SRX1738611.10_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 06:50:13: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:50:13: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:50:13: #1 total tags in treatment: 7573946 INFO @ Wed, 28 Jun 2017 06:50:13: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:50:13: #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 06:50:14: #1 tags after filtering in treatment: 7573946 INFO @ Wed, 28 Jun 2017 06:50:14: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 06:50:14: #1 finished! INFO @ Wed, 28 Jun 2017 06:50:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:50:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:50:14: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:50:14: 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 06:50:14: Process for pairing-model is terminated! cat: SRX1738611.20_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 `SRX1738611.20_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 `SRX1738611.20_*.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 `SRX1738611.20_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。