Job ID = 11162591 sra ファイルのダウンロード中... Completed: 570639K bytes transferred in 7 seconds (643494K 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... Read 18435779 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585202/SRR6495902.sra Written 18435779 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3585202/SRR6495902.sra 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 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: 00:02:46 18435779 reads; of these: 18435779 (100.00%) were unpaired; of these: 6826542 (37.03%) aligned 0 times 10535752 (57.15%) aligned exactly 1 time 1073485 (5.82%) aligned >1 times 62.97% overall alignment rate Time searching: 00:02:46 Overall time: 00:02:46 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] 5388289 / 11609237 = 0.4641 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, 05 Sep 2018 10:23:36: # Command line: callpeak -t SRX3585202.bam -f BAM -g 12100000 -n SRX3585202.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3585202.10 # format = BAM # ChIP-seq file = ['SRX3585202.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, 05 Sep 2018 10:23:36: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:23:36: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:23:36: # Command line: callpeak -t SRX3585202.bam -f BAM -g 12100000 -n SRX3585202.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3585202.20 # format = BAM # ChIP-seq file = ['SRX3585202.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, 05 Sep 2018 10:23:36: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:23:36: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:23:36: # Command line: callpeak -t SRX3585202.bam -f BAM -g 12100000 -n SRX3585202.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3585202.05 # format = BAM # ChIP-seq file = ['SRX3585202.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, 05 Sep 2018 10:23:36: #1 read tag files... INFO @ Wed, 05 Sep 2018 10:23:36: #1 read treatment tags... INFO @ Wed, 05 Sep 2018 10:23:43: 1000000 INFO @ Wed, 05 Sep 2018 10:23:43: 1000000 INFO @ Wed, 05 Sep 2018 10:23:44: 1000000 INFO @ Wed, 05 Sep 2018 10:23:50: 2000000 INFO @ Wed, 05 Sep 2018 10:23:50: 2000000 INFO @ Wed, 05 Sep 2018 10:23:52: 2000000 INFO @ Wed, 05 Sep 2018 10:23:58: 3000000 INFO @ Wed, 05 Sep 2018 10:23:58: 3000000 INFO @ Wed, 05 Sep 2018 10:24:00: 3000000 INFO @ Wed, 05 Sep 2018 10:24:05: 4000000 INFO @ Wed, 05 Sep 2018 10:24:05: 4000000 INFO @ Wed, 05 Sep 2018 10:24:09: 4000000 INFO @ Wed, 05 Sep 2018 10:24:12: 5000000 INFO @ Wed, 05 Sep 2018 10:24:13: 5000000 INFO @ Wed, 05 Sep 2018 10:24:17: 5000000 INFO @ Wed, 05 Sep 2018 10:24:20: 6000000 INFO @ Wed, 05 Sep 2018 10:24:21: 6000000 INFO @ Wed, 05 Sep 2018 10:24:22: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:24:22: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:24:22: #1 total tags in treatment: 6220948 INFO @ Wed, 05 Sep 2018 10:24:22: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:24:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:24:22: #1 tags after filtering in treatment: 6220948 INFO @ Wed, 05 Sep 2018 10:24:22: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:24:22: #1 finished! INFO @ Wed, 05 Sep 2018 10:24:22: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:24:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:24:22: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:24:22: 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, 05 Sep 2018 10:24:22: Process for pairing-model is terminated! cat: SRX3585202.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585202.20_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 `SRX3585202.20_*.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 `SRX3585202.20_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, 05 Sep 2018 10:24:23: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:24:23: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:24:23: #1 total tags in treatment: 6220948 INFO @ Wed, 05 Sep 2018 10:24:23: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:24:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:24:23: #1 tags after filtering in treatment: 6220948 INFO @ Wed, 05 Sep 2018 10:24:23: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:24:23: #1 finished! INFO @ Wed, 05 Sep 2018 10:24:23: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:24:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:24:23: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:24:23: 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, 05 Sep 2018 10:24:23: Process for pairing-model is terminated! cat: SRX3585202.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585202.10_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 `SRX3585202.10_*.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 `SRX3585202.10_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, 05 Sep 2018 10:24:25: 6000000 INFO @ Wed, 05 Sep 2018 10:24:26: #1 tag size is determined as 50 bps INFO @ Wed, 05 Sep 2018 10:24:26: #1 tag size = 50 INFO @ Wed, 05 Sep 2018 10:24:26: #1 total tags in treatment: 6220948 INFO @ Wed, 05 Sep 2018 10:24:26: #1 user defined the maximum tags... INFO @ Wed, 05 Sep 2018 10:24:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 05 Sep 2018 10:24:26: #1 tags after filtering in treatment: 6220948 INFO @ Wed, 05 Sep 2018 10:24:26: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 05 Sep 2018 10:24:26: #1 finished! INFO @ Wed, 05 Sep 2018 10:24:26: #2 Build Peak Model... INFO @ Wed, 05 Sep 2018 10:24:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 05 Sep 2018 10:24:27: #2 number of paired peaks: 0 WARNING @ Wed, 05 Sep 2018 10:24:27: 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, 05 Sep 2018 10:24:27: Process for pairing-model is terminated! cat: SRX3585202.05_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3585202.05_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 `SRX3585202.05_*.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 `SRX3585202.05_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。