Job ID = 10254461 sra ファイルのダウンロード中... Completed: 299933K bytes transferred in 14 seconds (164247K bits/sec), in 1 file. Completed: 376439K bytes transferred in 15 seconds (201250K bits/sec), in 1 file. 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 8518988 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353398/SRR6246270.sra Written 8518988 spots total Written 10756899 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353398/SRR6246271.sra Written 10756899 spots total rm: cannot remove `[DSE]RX*': 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: 00:03:24 19275887 reads; of these: 19275887 (100.00%) were unpaired; of these: 501778 (2.60%) aligned 0 times 16655544 (86.41%) aligned exactly 1 time 2118565 (10.99%) aligned >1 times 97.40% overall alignment rate Time searching: 00:03:24 Overall time: 00:03:24 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] 7458350 / 18774109 = 0.3973 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, 06 Dec 2017 18:31:04: # Command line: callpeak -t SRX3353398.bam -f BAM -g 12100000 -n SRX3353398.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3353398.10 # format = BAM # ChIP-seq file = ['SRX3353398.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, 06 Dec 2017 18:31:04: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:31:04: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:31:04: # Command line: callpeak -t SRX3353398.bam -f BAM -g 12100000 -n SRX3353398.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3353398.05 # format = BAM # ChIP-seq file = ['SRX3353398.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, 06 Dec 2017 18:31:04: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:31:04: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:31:04: # Command line: callpeak -t SRX3353398.bam -f BAM -g 12100000 -n SRX3353398.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3353398.20 # format = BAM # ChIP-seq file = ['SRX3353398.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, 06 Dec 2017 18:31:04: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:31:04: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:31:11: 1000000 INFO @ Wed, 06 Dec 2017 18:31:11: 1000000 INFO @ Wed, 06 Dec 2017 18:31:11: 1000000 INFO @ Wed, 06 Dec 2017 18:31:17: 2000000 INFO @ Wed, 06 Dec 2017 18:31:17: 2000000 INFO @ Wed, 06 Dec 2017 18:31:17: 2000000 INFO @ Wed, 06 Dec 2017 18:31:24: 3000000 INFO @ Wed, 06 Dec 2017 18:31:24: 3000000 INFO @ Wed, 06 Dec 2017 18:31:24: 3000000 INFO @ Wed, 06 Dec 2017 18:31:31: 4000000 INFO @ Wed, 06 Dec 2017 18:31:31: 4000000 INFO @ Wed, 06 Dec 2017 18:31:31: 4000000 INFO @ Wed, 06 Dec 2017 18:31:37: 5000000 INFO @ Wed, 06 Dec 2017 18:31:38: 5000000 INFO @ Wed, 06 Dec 2017 18:31:38: 5000000 INFO @ Wed, 06 Dec 2017 18:31:44: 6000000 INFO @ Wed, 06 Dec 2017 18:31:44: 6000000 INFO @ Wed, 06 Dec 2017 18:31:44: 6000000 INFO @ Wed, 06 Dec 2017 18:31:51: 7000000 INFO @ Wed, 06 Dec 2017 18:31:51: 7000000 INFO @ Wed, 06 Dec 2017 18:31:51: 7000000 INFO @ Wed, 06 Dec 2017 18:31:57: 8000000 INFO @ Wed, 06 Dec 2017 18:31:58: 8000000 INFO @ Wed, 06 Dec 2017 18:31:58: 8000000 INFO @ Wed, 06 Dec 2017 18:32:04: 9000000 INFO @ Wed, 06 Dec 2017 18:32:04: 9000000 INFO @ Wed, 06 Dec 2017 18:32:05: 9000000 INFO @ Wed, 06 Dec 2017 18:32:11: 10000000 INFO @ Wed, 06 Dec 2017 18:32:11: 10000000 INFO @ Wed, 06 Dec 2017 18:32:11: 10000000 INFO @ Wed, 06 Dec 2017 18:32:17: 11000000 INFO @ Wed, 06 Dec 2017 18:32:18: 11000000 INFO @ Wed, 06 Dec 2017 18:32:18: 11000000 INFO @ Wed, 06 Dec 2017 18:32:19: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:32:19: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:32:19: #1 total tags in treatment: 11315759 INFO @ Wed, 06 Dec 2017 18:32:19: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:32:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:32:20: #1 tags after filtering in treatment: 11315759 INFO @ Wed, 06 Dec 2017 18:32:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:32:20: #1 finished! INFO @ Wed, 06 Dec 2017 18:32:20: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:32:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:32:20: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:32:20: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:32:20: #1 total tags in treatment: 11315759 INFO @ Wed, 06 Dec 2017 18:32:20: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:32:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:32:20: #1 tags after filtering in treatment: 11315759 INFO @ Wed, 06 Dec 2017 18:32:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:32:20: #1 finished! INFO @ Wed, 06 Dec 2017 18:32:20: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:32:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:32:20: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:32:20: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:32:20: #1 total tags in treatment: 11315759 INFO @ Wed, 06 Dec 2017 18:32:20: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:32:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 06 Dec 2017 18:32:20: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:32:20: 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, 06 Dec 2017 18:32:20: Process for pairing-model is terminated! cat: SRX3353398.10_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 `SRX3353398.10_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 `SRX3353398.10_*.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 `SRX3353398.10_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, 06 Dec 2017 18:32:20: #1 tags after filtering in treatment: 11315759 INFO @ Wed, 06 Dec 2017 18:32:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:32:20: #1 finished! INFO @ Wed, 06 Dec 2017 18:32:20: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:32:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:32:21: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:32:21: 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, 06 Dec 2017 18:32:21: Process for pairing-model is terminated! cat: SRX3353398.20_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 `SRX3353398.20_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 `SRX3353398.20_*.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 `SRX3353398.20_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, 06 Dec 2017 18:32:21: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:32:21: 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, 06 Dec 2017 18:32:21: Process for pairing-model is terminated! cat: SRX3353398.05_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 `SRX3353398.05_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 `SRX3353398.05_*.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 `SRX3353398.05_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。