Job ID = 10851114 sra ファイルのダウンロード中... Completed: 264857K bytes transferred in 5 seconds (431891K 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 15113158 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3748404/SRR6789154.sra Written 15113158 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3748404/SRR6789154.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: 00:03:38 15113158 reads; of these: 15113158 (100.00%) were unpaired; of these: 416447 (2.76%) aligned 0 times 12661482 (83.78%) aligned exactly 1 time 2035229 (13.47%) aligned >1 times 97.24% overall alignment rate Time searching: 00:03:38 Overall time: 00:03:38 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] 4684781 / 14696711 = 0.3188 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, 05 Jul 2018 23:01:50: # Command line: callpeak -t SRX3748404.bam -f BAM -g 12100000 -n SRX3748404.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3748404.05 # format = BAM # ChIP-seq file = ['SRX3748404.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, 05 Jul 2018 23:01:50: #1 read tag files... INFO @ Thu, 05 Jul 2018 23:01:50: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 23:01:50: # Command line: callpeak -t SRX3748404.bam -f BAM -g 12100000 -n SRX3748404.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3748404.20 # format = BAM # ChIP-seq file = ['SRX3748404.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, 05 Jul 2018 23:01:50: #1 read tag files... INFO @ Thu, 05 Jul 2018 23:01:50: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 23:01:50: # Command line: callpeak -t SRX3748404.bam -f BAM -g 12100000 -n SRX3748404.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3748404.10 # format = BAM # ChIP-seq file = ['SRX3748404.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, 05 Jul 2018 23:01:50: #1 read tag files... INFO @ Thu, 05 Jul 2018 23:01:50: #1 read treatment tags... INFO @ Thu, 05 Jul 2018 23:02:01: 1000000 INFO @ Thu, 05 Jul 2018 23:02:01: 1000000 INFO @ Thu, 05 Jul 2018 23:02:01: 1000000 INFO @ Thu, 05 Jul 2018 23:02:12: 2000000 INFO @ Thu, 05 Jul 2018 23:02:12: 2000000 INFO @ Thu, 05 Jul 2018 23:02:12: 2000000 INFO @ Thu, 05 Jul 2018 23:02:22: 3000000 INFO @ Thu, 05 Jul 2018 23:02:22: 3000000 INFO @ Thu, 05 Jul 2018 23:02:24: 3000000 INFO @ Thu, 05 Jul 2018 23:02:33: 4000000 INFO @ Thu, 05 Jul 2018 23:02:33: 4000000 INFO @ Thu, 05 Jul 2018 23:02:35: 4000000 INFO @ Thu, 05 Jul 2018 23:02:44: 5000000 INFO @ Thu, 05 Jul 2018 23:02:44: 5000000 INFO @ Thu, 05 Jul 2018 23:02:47: 5000000 INFO @ Thu, 05 Jul 2018 23:02:55: 6000000 INFO @ Thu, 05 Jul 2018 23:02:55: 6000000 INFO @ Thu, 05 Jul 2018 23:02:58: 6000000 INFO @ Thu, 05 Jul 2018 23:03:06: 7000000 INFO @ Thu, 05 Jul 2018 23:03:06: 7000000 INFO @ Thu, 05 Jul 2018 23:03:10: 7000000 INFO @ Thu, 05 Jul 2018 23:03:18: 8000000 INFO @ Thu, 05 Jul 2018 23:03:18: 8000000 INFO @ Thu, 05 Jul 2018 23:03:21: 8000000 INFO @ Thu, 05 Jul 2018 23:03:29: 9000000 INFO @ Thu, 05 Jul 2018 23:03:29: 9000000 INFO @ Thu, 05 Jul 2018 23:03:33: 9000000 INFO @ Thu, 05 Jul 2018 23:03:39: 10000000 INFO @ Thu, 05 Jul 2018 23:03:39: 10000000 INFO @ Thu, 05 Jul 2018 23:03:40: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 23:03:40: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 23:03:40: #1 total tags in treatment: 10011930 INFO @ Thu, 05 Jul 2018 23:03:40: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 23:03:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Jul 2018 23:03:40: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 23:03:40: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 23:03:40: #1 total tags in treatment: 10011930 INFO @ Thu, 05 Jul 2018 23:03:40: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 23:03:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Jul 2018 23:03:40: #1 tags after filtering in treatment: 10011930 INFO @ Thu, 05 Jul 2018 23:03:40: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 23:03:40: #1 finished! INFO @ Thu, 05 Jul 2018 23:03:40: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 23:03:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 23:03:40: #1 tags after filtering in treatment: 10011930 INFO @ Thu, 05 Jul 2018 23:03:40: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 23:03:40: #1 finished! INFO @ Thu, 05 Jul 2018 23:03:40: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 23:03:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 23:03:40: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 23:03:40: 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 @ Thu, 05 Jul 2018 23:03:40: Process for pairing-model is terminated! INFO @ Thu, 05 Jul 2018 23:03:40: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 23:03:40: 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 @ Thu, 05 Jul 2018 23:03:40: Process for pairing-model is terminated! cat: SRX3748404.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3748404.05_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 `SRX3748404.20_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 `SRX3748404.20_*.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 `SRX3748404.20_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 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3748404.05_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 `SRX3748404.05_*.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 `SRX3748404.05_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, 05 Jul 2018 23:03:44: 10000000 INFO @ Thu, 05 Jul 2018 23:03:44: #1 tag size is determined as 51 bps INFO @ Thu, 05 Jul 2018 23:03:44: #1 tag size = 51 INFO @ Thu, 05 Jul 2018 23:03:44: #1 total tags in treatment: 10011930 INFO @ Thu, 05 Jul 2018 23:03:44: #1 user defined the maximum tags... INFO @ Thu, 05 Jul 2018 23:03:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Jul 2018 23:03:44: #1 tags after filtering in treatment: 10011930 INFO @ Thu, 05 Jul 2018 23:03:44: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Jul 2018 23:03:44: #1 finished! INFO @ Thu, 05 Jul 2018 23:03:44: #2 Build Peak Model... INFO @ Thu, 05 Jul 2018 23:03:44: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Jul 2018 23:03:45: #2 number of paired peaks: 0 WARNING @ Thu, 05 Jul 2018 23:03:45: 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 @ Thu, 05 Jul 2018 23:03:45: Process for pairing-model is terminated! cat: SRX3748404.10_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 `SRX3748404.10_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 `SRX3748404.10_*.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 `SRX3748404.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。