Job ID = 9162342 sra ファイルのダウンロード中... Completed: 1424273K bytes transferred in 14 seconds (791792K 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 42683503 spots for /home/okishinya/chipatlas/results/sacCer3/SRX211374/SRR636625.sra Written 42683503 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: 00:08:35 42683503 reads; of these: 42683503 (100.00%) were unpaired; of these: 13889869 (32.54%) aligned 0 times 26105350 (61.16%) aligned exactly 1 time 2688284 (6.30%) aligned >1 times 67.46% overall alignment rate Time searching: 00:08:35 Overall time: 00:08:35 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 12 files... [bam_rmdupse_core] 18839650 / 28793634 = 0.6543 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 07:44:16: # Command line: callpeak -t SRX211374.bam -f BAM -g 12100000 -n SRX211374.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX211374.05 # format = BAM # ChIP-seq file = ['SRX211374.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 07:44:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:44:16: # Command line: callpeak -t SRX211374.bam -f BAM -g 12100000 -n SRX211374.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX211374.10 # format = BAM # ChIP-seq file = ['SRX211374.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 07:44:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:44:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:44:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:44:16: # Command line: callpeak -t SRX211374.bam -f BAM -g 12100000 -n SRX211374.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX211374.20 # format = BAM # ChIP-seq file = ['SRX211374.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 07:44:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:44:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:44:23: 1000000 INFO @ Wed, 28 Jun 2017 07:44:23: 1000000 INFO @ Wed, 28 Jun 2017 07:44:23: 1000000 INFO @ Wed, 28 Jun 2017 07:44:29: 2000000 INFO @ Wed, 28 Jun 2017 07:44:30: 2000000 INFO @ Wed, 28 Jun 2017 07:44:30: 2000000 INFO @ Wed, 28 Jun 2017 07:44:35: 3000000 INFO @ Wed, 28 Jun 2017 07:44:36: 3000000 INFO @ Wed, 28 Jun 2017 07:44:36: 3000000 INFO @ Wed, 28 Jun 2017 07:44:41: 4000000 INFO @ Wed, 28 Jun 2017 07:44:43: 4000000 INFO @ Wed, 28 Jun 2017 07:44:43: 4000000 INFO @ Wed, 28 Jun 2017 07:44:47: 5000000 INFO @ Wed, 28 Jun 2017 07:44:50: 5000000 INFO @ Wed, 28 Jun 2017 07:44:50: 5000000 INFO @ Wed, 28 Jun 2017 07:44:53: 6000000 INFO @ Wed, 28 Jun 2017 07:44:56: 6000000 INFO @ Wed, 28 Jun 2017 07:44:56: 6000000 INFO @ Wed, 28 Jun 2017 07:44:59: 7000000 INFO @ Wed, 28 Jun 2017 07:45:03: 7000000 INFO @ Wed, 28 Jun 2017 07:45:03: 7000000 INFO @ Wed, 28 Jun 2017 07:45:06: 8000000 INFO @ Wed, 28 Jun 2017 07:45:09: 8000000 INFO @ Wed, 28 Jun 2017 07:45:11: 8000000 INFO @ Wed, 28 Jun 2017 07:45:12: 9000000 INFO @ Wed, 28 Jun 2017 07:45:16: 9000000 INFO @ Wed, 28 Jun 2017 07:45:18: 9000000 INFO @ Wed, 28 Jun 2017 07:45:18: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:45:18: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:45:18: #1 total tags in treatment: 9953984 INFO @ Wed, 28 Jun 2017 07:45:18: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:45:18: #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 07:45:18: #1 tags after filtering in treatment: 9953984 INFO @ Wed, 28 Jun 2017 07:45:18: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:45:18: #1 finished! INFO @ Wed, 28 Jun 2017 07:45:18: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:45:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:45:19: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:45:19: 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 07:45:19: Process for pairing-model is terminated! cat: SRX211374.20_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): 6 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX211374.20_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 `SRX211374.20_*.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 `SRX211374.20_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 07:45:23: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:45:23: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:45:23: #1 total tags in treatment: 9953984 INFO @ Wed, 28 Jun 2017 07:45:23: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:45:23: #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 07:45:23: #1 tags after filtering in treatment: 9953984 INFO @ Wed, 28 Jun 2017 07:45:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:45:23: #1 finished! INFO @ Wed, 28 Jun 2017 07:45:23: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:45:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:45:24: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:45:24: 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 07:45:24: Process for pairing-model is terminated! cat: SRX211374.10_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 `SRX211374.10_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 `SRX211374.10_*.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 `SRX211374.10_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 07:45:24: #1 tag size is determined as 51 bps INFO @ Wed, 28 Jun 2017 07:45:24: #1 tag size = 51 INFO @ Wed, 28 Jun 2017 07:45:24: #1 total tags in treatment: 9953984 INFO @ Wed, 28 Jun 2017 07:45:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:45:24: #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 07:45:25: #1 tags after filtering in treatment: 9953984 INFO @ Wed, 28 Jun 2017 07:45:25: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:45:25: #1 finished! INFO @ Wed, 28 Jun 2017 07:45:25: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:45:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:45:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:45:25: 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 07:45:25: Process for pairing-model is terminated! cat: SRX211374.05_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 `SRX211374.05_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 `SRX211374.05_*.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 `SRX211374.05_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。