Job ID = 9161704 sra ファイルのダウンロード中... Completed: 200202K bytes transferred in 5 seconds (297564K 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 5265047 spots for /home/okishinya/chipatlas/results/sacCer3/SRX092429/SRR332218.sra Written 5265047 spots total Written 5472549 spots for /home/okishinya/chipatlas/results/sacCer3/SRX092429/SRR332217.sra Written 5472549 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: 00:01:02 10737596 reads; of these: 10737596 (100.00%) were unpaired; of these: 4427219 (41.23%) aligned 0 times 4972865 (46.31%) aligned exactly 1 time 1337512 (12.46%) aligned >1 times 58.77% overall alignment rate Time searching: 00:01:02 Overall time: 00:01:02 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] 1878993 / 6310377 = 0.2978 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 04:22:53: # Command line: callpeak -t SRX092429.bam -f BAM -g 12100000 -n SRX092429.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX092429.10 # format = BAM # ChIP-seq file = ['SRX092429.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 04:22:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:22:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:22:53: # Command line: callpeak -t SRX092429.bam -f BAM -g 12100000 -n SRX092429.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX092429.20 # format = BAM # ChIP-seq file = ['SRX092429.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 04:22:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:22:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:22:53: # Command line: callpeak -t SRX092429.bam -f BAM -g 12100000 -n SRX092429.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX092429.05 # format = BAM # ChIP-seq file = ['SRX092429.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 04:22:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:22:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:22:58: 1000000 INFO @ Wed, 28 Jun 2017 04:22:59: 1000000 INFO @ Wed, 28 Jun 2017 04:22:59: 1000000 INFO @ Wed, 28 Jun 2017 04:23:04: 2000000 INFO @ Wed, 28 Jun 2017 04:23:05: 2000000 INFO @ Wed, 28 Jun 2017 04:23:05: 2000000 INFO @ Wed, 28 Jun 2017 04:23:09: 3000000 INFO @ Wed, 28 Jun 2017 04:23:11: 3000000 INFO @ Wed, 28 Jun 2017 04:23:12: 3000000 INFO @ Wed, 28 Jun 2017 04:23:14: 4000000 INFO @ Wed, 28 Jun 2017 04:23:17: #1 tag size is determined as 32 bps INFO @ Wed, 28 Jun 2017 04:23:17: #1 tag size = 32 INFO @ Wed, 28 Jun 2017 04:23:17: #1 total tags in treatment: 4431384 INFO @ Wed, 28 Jun 2017 04:23:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:23:17: #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 04:23:17: #1 tags after filtering in treatment: 4431384 INFO @ Wed, 28 Jun 2017 04:23:17: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:23:17: #1 finished! INFO @ Wed, 28 Jun 2017 04:23:17: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:23:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:23:17: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 04:23:17: Too few paired peaks (28) 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 04:23:17: Process for pairing-model is terminated! cat: SRX092429.10_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 `SRX092429.10_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 `SRX092429.10_*.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 `SRX092429.10_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 04:23:18: 4000000 INFO @ Wed, 28 Jun 2017 04:23:19: 4000000 INFO @ Wed, 28 Jun 2017 04:23:20: #1 tag size is determined as 32 bps INFO @ Wed, 28 Jun 2017 04:23:20: #1 tag size = 32 INFO @ Wed, 28 Jun 2017 04:23:20: #1 total tags in treatment: 4431384 INFO @ Wed, 28 Jun 2017 04:23:20: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:23:20: #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 04:23:21: #1 tags after filtering in treatment: 4431384 INFO @ Wed, 28 Jun 2017 04:23:21: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:23:21: #1 finished! INFO @ Wed, 28 Jun 2017 04:23:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:23:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:23:21: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 04:23:21: Too few paired peaks (28) 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 04:23:21: Process for pairing-model is terminated! cat: SRX092429.05_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 `SRX092429.05_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 `SRX092429.05_*.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 `SRX092429.05_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 04:23:22: #1 tag size is determined as 32 bps INFO @ Wed, 28 Jun 2017 04:23:22: #1 tag size = 32 INFO @ Wed, 28 Jun 2017 04:23:22: #1 total tags in treatment: 4431384 INFO @ Wed, 28 Jun 2017 04:23:22: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:23:22: #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 04:23:22: #1 tags after filtering in treatment: 4431384 INFO @ Wed, 28 Jun 2017 04:23:22: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 04:23:22: #1 finished! INFO @ Wed, 28 Jun 2017 04:23:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:23:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:23:22: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 04:23:22: Too few paired peaks (28) 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 04:23:22: Process for pairing-model is terminated! cat: SRX092429.20_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 `SRX092429.20_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 `SRX092429.20_*.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 `SRX092429.20_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。