Job ID = 4306424 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 5,880,138 reads read : 5,880,138 reads written : 5,880,138 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1542455.sra.cache’: No such file or directory 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: 00:00:55 5880138 reads; of these: 5880138 (100.00%) were unpaired; of these: 709553 (12.07%) aligned 0 times 4327872 (73.60%) aligned exactly 1 time 842713 (14.33%) aligned >1 times 87.93% overall alignment rate Time searching: 00:00:55 Overall time: 00:00:55 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_rmdupse_core] 1093955 / 5170585 = 0.2116 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Thu, 12 Dec 2019 22:47:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.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, 12 Dec 2019 22:47:56: #1 read tag files... INFO @ Thu, 12 Dec 2019 22:47:56: #1 read treatment tags... INFO @ Thu, 12 Dec 2019 22:48:04: 1000000 INFO @ Thu, 12 Dec 2019 22:48:11: 2000000 INFO @ Thu, 12 Dec 2019 22:48:18: 3000000 INFO @ Thu, 12 Dec 2019 22:48:25: 4000000 INFO @ Thu, 12 Dec 2019 22:48:26: #1 tag size is determined as 42 bps INFO @ Thu, 12 Dec 2019 22:48:26: #1 tag size = 42 INFO @ Thu, 12 Dec 2019 22:48:26: #1 total tags in treatment: 4076630 INFO @ Thu, 12 Dec 2019 22:48:26: #1 user defined the maximum tags... INFO @ Thu, 12 Dec 2019 22:48:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 12 Dec 2019 22:48:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.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, 12 Dec 2019 22:48:26: #1 read tag files... INFO @ Thu, 12 Dec 2019 22:48:26: #1 read treatment tags... INFO @ Thu, 12 Dec 2019 22:48:26: #1 tags after filtering in treatment: 4076630 INFO @ Thu, 12 Dec 2019 22:48:26: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 12 Dec 2019 22:48:26: #1 finished! INFO @ Thu, 12 Dec 2019 22:48:26: #2 Build Peak Model... INFO @ Thu, 12 Dec 2019 22:48:26: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 12 Dec 2019 22:48:26: #2 number of paired peaks: 28 WARNING @ Thu, 12 Dec 2019 22:48:26: Too few paired peaks (28) 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, 12 Dec 2019 22:48:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 12 Dec 2019 22:48:35: 1000000 INFO @ Thu, 12 Dec 2019 22:48:44: 2000000 INFO @ Thu, 12 Dec 2019 22:48:53: 3000000 BedGraph に変換中... INFO @ Thu, 12 Dec 2019 22:48:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.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, 12 Dec 2019 22:48:56: #1 read tag files... INFO @ Thu, 12 Dec 2019 22:48:56: #1 read treatment tags... INFO @ Thu, 12 Dec 2019 22:49:02: 4000000 INFO @ Thu, 12 Dec 2019 22:49:03: #1 tag size is determined as 42 bps INFO @ Thu, 12 Dec 2019 22:49:03: #1 tag size = 42 INFO @ Thu, 12 Dec 2019 22:49:03: #1 total tags in treatment: 4076630 INFO @ Thu, 12 Dec 2019 22:49:03: #1 user defined the maximum tags... INFO @ Thu, 12 Dec 2019 22:49:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 12 Dec 2019 22:49:03: #1 tags after filtering in treatment: 4076630 INFO @ Thu, 12 Dec 2019 22:49:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 12 Dec 2019 22:49:03: #1 finished! INFO @ Thu, 12 Dec 2019 22:49:03: #2 Build Peak Model... INFO @ Thu, 12 Dec 2019 22:49:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 12 Dec 2019 22:49:03: #2 number of paired peaks: 28 WARNING @ Thu, 12 Dec 2019 22:49:03: Too few paired peaks (28) 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, 12 Dec 2019 22:49:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 12 Dec 2019 22:49:04: 1000000 INFO @ Thu, 12 Dec 2019 22:49:12: 2000000 INFO @ Thu, 12 Dec 2019 22:49:20: 3000000 INFO @ Thu, 12 Dec 2019 22:49:28: 4000000 INFO @ Thu, 12 Dec 2019 22:49:28: #1 tag size is determined as 42 bps INFO @ Thu, 12 Dec 2019 22:49:28: #1 tag size = 42 INFO @ Thu, 12 Dec 2019 22:49:28: #1 total tags in treatment: 4076630 INFO @ Thu, 12 Dec 2019 22:49:28: #1 user defined the maximum tags... INFO @ Thu, 12 Dec 2019 22:49:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 12 Dec 2019 22:49:29: #1 tags after filtering in treatment: 4076630 INFO @ Thu, 12 Dec 2019 22:49:29: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 12 Dec 2019 22:49:29: #1 finished! INFO @ Thu, 12 Dec 2019 22:49:29: #2 Build Peak Model... INFO @ Thu, 12 Dec 2019 22:49:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 12 Dec 2019 22:49:29: #2 number of paired peaks: 28 WARNING @ Thu, 12 Dec 2019 22:49:29: Too few paired peaks (28) 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, 12 Dec 2019 22:49:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX673885/SRX673885.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。