Job ID = 9163624 sra ファイルのダウンロード中... Completed: 657680K bytes transferred in 9 seconds (587519K bits/sec), in 2 files, 3 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 10538632 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974673/SRR1948304.sra Written 10538632 spots total Written 10807916 spots for /home/okishinya/chipatlas/results/sacCer3/SRX974673/SRR1948305.sra Written 10807916 spots total 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: 00:04:05 21346548 reads; of these: 21346548 (100.00%) were unpaired; of these: 740619 (3.47%) aligned 0 times 16078775 (75.32%) aligned exactly 1 time 4527154 (21.21%) aligned >1 times 96.53% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 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 12 files... [bam_rmdupse_core] 9006484 / 20605929 = 0.4371 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 11:16:21: # Command line: callpeak -t SRX974673.bam -f BAM -g 12100000 -n SRX974673.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX974673.05 # format = BAM # ChIP-seq file = ['SRX974673.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 11:16:21: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:21: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:21: # Command line: callpeak -t SRX974673.bam -f BAM -g 12100000 -n SRX974673.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX974673.20 # format = BAM # ChIP-seq file = ['SRX974673.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 11:16:21: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:21: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:21: # Command line: callpeak -t SRX974673.bam -f BAM -g 12100000 -n SRX974673.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX974673.10 # format = BAM # ChIP-seq file = ['SRX974673.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 11:16:21: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:16:21: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:16:28: 1000000 INFO @ Wed, 28 Jun 2017 11:16:28: 1000000 INFO @ Wed, 28 Jun 2017 11:16:28: 1000000 INFO @ Wed, 28 Jun 2017 11:16:34: 2000000 INFO @ Wed, 28 Jun 2017 11:16:34: 2000000 INFO @ Wed, 28 Jun 2017 11:16:35: 2000000 INFO @ Wed, 28 Jun 2017 11:16:41: 3000000 INFO @ Wed, 28 Jun 2017 11:16:41: 3000000 INFO @ Wed, 28 Jun 2017 11:16:41: 3000000 INFO @ Wed, 28 Jun 2017 11:16:47: 4000000 INFO @ Wed, 28 Jun 2017 11:16:47: 4000000 INFO @ Wed, 28 Jun 2017 11:16:48: 4000000 INFO @ Wed, 28 Jun 2017 11:16:54: 5000000 INFO @ Wed, 28 Jun 2017 11:16:54: 5000000 INFO @ Wed, 28 Jun 2017 11:16:54: 5000000 INFO @ Wed, 28 Jun 2017 11:17:00: 6000000 INFO @ Wed, 28 Jun 2017 11:17:01: 6000000 INFO @ Wed, 28 Jun 2017 11:17:01: 6000000 INFO @ Wed, 28 Jun 2017 11:17:07: 7000000 INFO @ Wed, 28 Jun 2017 11:17:07: 7000000 INFO @ Wed, 28 Jun 2017 11:17:08: 7000000 INFO @ Wed, 28 Jun 2017 11:17:13: 8000000 INFO @ Wed, 28 Jun 2017 11:17:14: 8000000 INFO @ Wed, 28 Jun 2017 11:17:14: 8000000 INFO @ Wed, 28 Jun 2017 11:17:20: 9000000 INFO @ Wed, 28 Jun 2017 11:17:21: 9000000 INFO @ Wed, 28 Jun 2017 11:17:21: 9000000 INFO @ Wed, 28 Jun 2017 11:17:26: 10000000 INFO @ Wed, 28 Jun 2017 11:17:28: 10000000 INFO @ Wed, 28 Jun 2017 11:17:28: 10000000 INFO @ Wed, 28 Jun 2017 11:17:33: 11000000 INFO @ Wed, 28 Jun 2017 11:17:34: 11000000 INFO @ Wed, 28 Jun 2017 11:17:34: 11000000 INFO @ Wed, 28 Jun 2017 11:17:37: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:17:37: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:17:37: #1 total tags in treatment: 11599445 INFO @ Wed, 28 Jun 2017 11:17:37: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:17:37: #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 11:17:37: #1 tags after filtering in treatment: 11599445 INFO @ Wed, 28 Jun 2017 11:17:37: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:17:37: #1 finished! INFO @ Wed, 28 Jun 2017 11:17:37: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:17:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:17:38: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:17:38: 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 11:17:38: Process for pairing-model is terminated! cat: SRX974673.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX974673.05_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 `SRX974673.05_*.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 `SRX974673.05_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 11:17:38: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:17:38: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:17:38: #1 total tags in treatment: 11599445 INFO @ Wed, 28 Jun 2017 11:17:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:17:38: #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 11:17:38: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 11:17:38: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 11:17:38: #1 total tags in treatment: 11599445 INFO @ Wed, 28 Jun 2017 11:17:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:17:38: #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 11:17:38: #1 tags after filtering in treatment: 11599445 INFO @ Wed, 28 Jun 2017 11:17:38: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:17:38: #1 finished! INFO @ Wed, 28 Jun 2017 11:17:38: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:17:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:17:39: #1 tags after filtering in treatment: 11599445 INFO @ Wed, 28 Jun 2017 11:17:39: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 11:17:39: #1 finished! INFO @ Wed, 28 Jun 2017 11:17:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:17:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:17:39: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:17:39: 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 11:17:39: Process for pairing-model is terminated! cat: SRX974673.20_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 `SRX974673.20_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 `SRX974673.20_*.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 `SRX974673.20_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 11:17:39: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 11:17:39: 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 11:17:39: Process for pairing-model is terminated! cat: SRX974673.10_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 `SRX974673.10_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 `SRX974673.10_*.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 `SRX974673.10_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。