Job ID = 2640802 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,795,310 reads read : 45,590,620 reads written : 22,795,310 reads 0-length : 22,795,310 rm: cannot remove ‘[DSE]RR*’: 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: 00:08:17 22795310 reads; of these: 22795310 (100.00%) were unpaired; of these: 11886073 (52.14%) aligned 0 times 7776324 (34.11%) aligned exactly 1 time 3132913 (13.74%) aligned >1 times 47.86% overall alignment rate Time searching: 00:08:17 Overall time: 00:08:17 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] 4712976 / 10909237 = 0.4320 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:57:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.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 @ Sat, 24 Aug 2019 19:57:11: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:57:11: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:57:25: 1000000 INFO @ Sat, 24 Aug 2019 19:57:36: 2000000 INFO @ Sat, 24 Aug 2019 19:57:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.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 @ Sat, 24 Aug 2019 19:57:42: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:57:42: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:57:50: 3000000 INFO @ Sat, 24 Aug 2019 19:57:56: 1000000 INFO @ Sat, 24 Aug 2019 19:58:03: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:58:09: 2000000 INFO @ Sat, 24 Aug 2019 19:58:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.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 @ Sat, 24 Aug 2019 19:58:11: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:58:11: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:58:16: 5000000 INFO @ Sat, 24 Aug 2019 19:58:24: 1000000 INFO @ Sat, 24 Aug 2019 19:58:26: 3000000 INFO @ Sat, 24 Aug 2019 19:58:29: 6000000 INFO @ Sat, 24 Aug 2019 19:58:32: #1 tag size is determined as 148 bps INFO @ Sat, 24 Aug 2019 19:58:32: #1 tag size = 148 INFO @ Sat, 24 Aug 2019 19:58:32: #1 total tags in treatment: 6196261 INFO @ Sat, 24 Aug 2019 19:58:32: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:58:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:58:32: #1 tags after filtering in treatment: 6196261 INFO @ Sat, 24 Aug 2019 19:58:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:58:32: #1 finished! INFO @ Sat, 24 Aug 2019 19:58:32: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:58:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:58:33: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:58:33: 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 @ Sat, 24 Aug 2019 19:58:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.05_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/SRX2439290/SRX2439290.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:58:37: 2000000 INFO @ Sat, 24 Aug 2019 19:58:43: 4000000 INFO @ Sat, 24 Aug 2019 19:58:52: 3000000 INFO @ Sat, 24 Aug 2019 19:59:01: 5000000 INFO @ Sat, 24 Aug 2019 19:59:07: 4000000 INFO @ Sat, 24 Aug 2019 19:59:14: 6000000 INFO @ Sat, 24 Aug 2019 19:59:17: #1 tag size is determined as 148 bps INFO @ Sat, 24 Aug 2019 19:59:17: #1 tag size = 148 INFO @ Sat, 24 Aug 2019 19:59:17: #1 total tags in treatment: 6196261 INFO @ Sat, 24 Aug 2019 19:59:17: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:59:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:59:17: #1 tags after filtering in treatment: 6196261 INFO @ Sat, 24 Aug 2019 19:59:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:59:17: #1 finished! INFO @ Sat, 24 Aug 2019 19:59:17: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:59:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:59:17: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:59:17: 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 @ Sat, 24 Aug 2019 19:59:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.10_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/SRX2439290/SRX2439290.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:59:18: 5000000 INFO @ Sat, 24 Aug 2019 19:59:29: 6000000 INFO @ Sat, 24 Aug 2019 19:59:31: #1 tag size is determined as 148 bps INFO @ Sat, 24 Aug 2019 19:59:31: #1 tag size = 148 INFO @ Sat, 24 Aug 2019 19:59:31: #1 total tags in treatment: 6196261 INFO @ Sat, 24 Aug 2019 19:59:31: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:59:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:59:31: #1 tags after filtering in treatment: 6196261 INFO @ Sat, 24 Aug 2019 19:59:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:59:31: #1 finished! INFO @ Sat, 24 Aug 2019 19:59:31: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:59:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:59:32: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:59:32: 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 @ Sat, 24 Aug 2019 19:59:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.20_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/SRX2439290/SRX2439290.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2439290/SRX2439290.20_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。