Job ID = 10609022 sra ファイルのダウンロード中... Completed: 376424K bytes transferred in 15 seconds (199748K 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 23060128 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3467373/SRR6372051.sra Written 23060128 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 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: 00:07:53 23060128 reads; of these: 23060128 (100.00%) were unpaired; of these: 7918220 (34.34%) aligned 0 times 7098594 (30.78%) aligned exactly 1 time 8043314 (34.88%) aligned >1 times 65.66% overall alignment rate Time searching: 00:07:53 Overall time: 00:07:53 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] 12337248 / 15141908 = 0.8148 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 @ Thu, 03 May 2018 23:19:20: # Command line: callpeak -t SRX3467373.bam -f BAM -g 12100000 -n SRX3467373.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3467373.05 # format = BAM # ChIP-seq file = ['SRX3467373.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 @ Thu, 03 May 2018 23:19:20: #1 read tag files... INFO @ Thu, 03 May 2018 23:19:20: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:19:20: # Command line: callpeak -t SRX3467373.bam -f BAM -g 12100000 -n SRX3467373.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3467373.20 # format = BAM # ChIP-seq file = ['SRX3467373.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 @ Thu, 03 May 2018 23:19:20: #1 read tag files... INFO @ Thu, 03 May 2018 23:19:20: # Command line: callpeak -t SRX3467373.bam -f BAM -g 12100000 -n SRX3467373.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3467373.10 # format = BAM # ChIP-seq file = ['SRX3467373.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 @ Thu, 03 May 2018 23:19:20: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:19:20: #1 read tag files... INFO @ Thu, 03 May 2018 23:19:20: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:19:27: 1000000 INFO @ Thu, 03 May 2018 23:19:27: 1000000 INFO @ Thu, 03 May 2018 23:19:27: 1000000 INFO @ Thu, 03 May 2018 23:19:33: 2000000 INFO @ Thu, 03 May 2018 23:19:33: 2000000 INFO @ Thu, 03 May 2018 23:19:33: 2000000 INFO @ Thu, 03 May 2018 23:19:38: #1 tag size is determined as 50 bps INFO @ Thu, 03 May 2018 23:19:38: #1 tag size = 50 INFO @ Thu, 03 May 2018 23:19:38: #1 total tags in treatment: 2804660 INFO @ Thu, 03 May 2018 23:19:38: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:19:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:19:38: #1 tags after filtering in treatment: 2804660 INFO @ Thu, 03 May 2018 23:19:38: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:19:38: #1 finished! INFO @ Thu, 03 May 2018 23:19:38: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:19:38: #1 tag size is determined as 50 bps INFO @ Thu, 03 May 2018 23:19:38: #1 tag size = 50 INFO @ Thu, 03 May 2018 23:19:38: #1 total tags in treatment: 2804660 INFO @ Thu, 03 May 2018 23:19:38: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:19:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:19:38: #2 number of paired peaks: 74 WARNING @ Thu, 03 May 2018 23:19:38: Too few paired peaks (74) 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 @ Thu, 03 May 2018 23:19:38: Process for pairing-model is terminated! cat: SRX3467373.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Thu, 03 May 2018 23:19:38: #1 tag size is determined as 50 bps INFO @ Thu, 03 May 2018 23:19:38: #1 tag size = 50 INFO @ Thu, 03 May 2018 23:19:38: #1 total tags in treatment: 2804660 INFO @ Thu, 03 May 2018 23:19:38: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:19:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3467373.10_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 `SRX3467373.10_*.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 `SRX3467373.10_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 @ Thu, 03 May 2018 23:19:38: #1 tags after filtering in treatment: 2804660 INFO @ Thu, 03 May 2018 23:19:38: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:19:38: #1 finished! INFO @ Thu, 03 May 2018 23:19:38: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:19:38: #1 tags after filtering in treatment: 2804660 INFO @ Thu, 03 May 2018 23:19:38: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 03 May 2018 23:19:38: #1 finished! INFO @ Thu, 03 May 2018 23:19:38: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:19:38: #2 number of paired peaks: 74 WARNING @ Thu, 03 May 2018 23:19:38: Too few paired peaks (74) 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 @ Thu, 03 May 2018 23:19:38: Process for pairing-model is terminated! cat: SRX3467373.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3467373.05_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 `SRX3467373.05_*.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 `SRX3467373.05_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 @ Thu, 03 May 2018 23:19:38: #2 number of paired peaks: 74 WARNING @ Thu, 03 May 2018 23:19:38: Too few paired peaks (74) 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 @ Thu, 03 May 2018 23:19:38: Process for pairing-model is terminated! cat: SRX3467373.20_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 `SRX3467373.20_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 `SRX3467373.20_*.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 `SRX3467373.20_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。