Job ID = 10254451 sra ファイルのダウンロード中... Completed: 201053K bytes transferred in 9 seconds (174046K bits/sec), in 1 file. Completed: 183659K bytes transferred in 8 seconds (171865K 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 7199294 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353389/SRR6246253.sra Written 7199294 spots total Written 7930447 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3353389/SRR6246252.sra Written 7930447 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: 00:02:20 15129741 reads; of these: 15129741 (100.00%) were unpaired; of these: 3632823 (24.01%) aligned 0 times 10697504 (70.71%) aligned exactly 1 time 799414 (5.28%) aligned >1 times 75.99% overall alignment rate Time searching: 00:02:20 Overall time: 00:02:20 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] 3557375 / 11496918 = 0.3094 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 18:19:43: # Command line: callpeak -t SRX3353389.bam -f BAM -g 12100000 -n SRX3353389.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3353389.10 # format = BAM # ChIP-seq file = ['SRX3353389.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 18:19:43: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:19:43: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:19:43: # Command line: callpeak -t SRX3353389.bam -f BAM -g 12100000 -n SRX3353389.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3353389.20 # format = BAM # ChIP-seq file = ['SRX3353389.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 18:19:43: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:19:43: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:19:43: # Command line: callpeak -t SRX3353389.bam -f BAM -g 12100000 -n SRX3353389.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3353389.05 # format = BAM # ChIP-seq file = ['SRX3353389.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 18:19:43: #1 read tag files... INFO @ Wed, 06 Dec 2017 18:19:43: #1 read treatment tags... INFO @ Wed, 06 Dec 2017 18:19:49: 1000000 INFO @ Wed, 06 Dec 2017 18:19:49: 1000000 INFO @ Wed, 06 Dec 2017 18:19:49: 1000000 INFO @ Wed, 06 Dec 2017 18:19:55: 2000000 INFO @ Wed, 06 Dec 2017 18:19:55: 2000000 INFO @ Wed, 06 Dec 2017 18:19:55: 2000000 INFO @ Wed, 06 Dec 2017 18:20:01: 3000000 INFO @ Wed, 06 Dec 2017 18:20:01: 3000000 INFO @ Wed, 06 Dec 2017 18:20:01: 3000000 INFO @ Wed, 06 Dec 2017 18:20:07: 4000000 INFO @ Wed, 06 Dec 2017 18:20:07: 4000000 INFO @ Wed, 06 Dec 2017 18:20:07: 4000000 INFO @ Wed, 06 Dec 2017 18:20:13: 5000000 INFO @ Wed, 06 Dec 2017 18:20:13: 5000000 INFO @ Wed, 06 Dec 2017 18:20:14: 5000000 INFO @ Wed, 06 Dec 2017 18:20:19: 6000000 INFO @ Wed, 06 Dec 2017 18:20:20: 6000000 INFO @ Wed, 06 Dec 2017 18:20:20: 6000000 INFO @ Wed, 06 Dec 2017 18:20:25: 7000000 INFO @ Wed, 06 Dec 2017 18:20:26: 7000000 INFO @ Wed, 06 Dec 2017 18:20:26: 7000000 INFO @ Wed, 06 Dec 2017 18:20:31: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:20:31: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:20:31: #1 total tags in treatment: 7939543 INFO @ Wed, 06 Dec 2017 18:20:31: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:20:31: #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 18:20:31: #1 tags after filtering in treatment: 7939543 INFO @ Wed, 06 Dec 2017 18:20:31: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:20:31: #1 finished! INFO @ Wed, 06 Dec 2017 18:20:31: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:20:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:20:32: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:20:32: 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 18:20:32: Process for pairing-model is terminated! cat: SRX3353389.10_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 `SRX3353389.10_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 `SRX3353389.10_*.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 `SRX3353389.10_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 18:20:32: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:20:32: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:20:32: #1 total tags in treatment: 7939543 INFO @ Wed, 06 Dec 2017 18:20:32: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:20:32: #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 18:20:32: #1 tags after filtering in treatment: 7939543 INFO @ Wed, 06 Dec 2017 18:20:32: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:20:32: #1 finished! INFO @ Wed, 06 Dec 2017 18:20:32: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:20:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 06 Dec 2017 18:20:32: #1 tag size is determined as 51 bps INFO @ Wed, 06 Dec 2017 18:20:32: #1 tag size = 51 INFO @ Wed, 06 Dec 2017 18:20:32: #1 total tags in treatment: 7939543 INFO @ Wed, 06 Dec 2017 18:20:32: #1 user defined the maximum tags... INFO @ Wed, 06 Dec 2017 18:20:32: #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 18:20:33: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:20:33: 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 18:20:33: Process for pairing-model is terminated! INFO @ Wed, 06 Dec 2017 18:20:33: #1 tags after filtering in treatment: 7939543 INFO @ Wed, 06 Dec 2017 18:20:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 06 Dec 2017 18:20:33: #1 finished! INFO @ Wed, 06 Dec 2017 18:20:33: #2 Build Peak Model... INFO @ Wed, 06 Dec 2017 18:20:33: #2 looking for paired plus/minus strand peaks... cat: SRX3353389.05_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 `SRX3353389.05_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 `SRX3353389.05_*.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 `SRX3353389.05_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, 06 Dec 2017 18:20:33: #2 number of paired peaks: 0 WARNING @ Wed, 06 Dec 2017 18:20:33: 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 18:20:33: Process for pairing-model is terminated! cat: SRX3353389.20_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 `SRX3353389.20_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 `SRX3353389.20_*.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 `SRX3353389.20_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。