Job ID = 2010682 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 3,133,040 reads read : 6,266,080 reads written : 6,266,080 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: 00:01:41 3133040 reads; of these: 3133040 (100.00%) were paired; of these: 968425 (30.91%) aligned concordantly 0 times 2081252 (66.43%) aligned concordantly exactly 1 time 83363 (2.66%) aligned concordantly >1 times ---- 968425 pairs aligned concordantly 0 times; of these: 14140 (1.46%) aligned discordantly 1 time ---- 954285 pairs aligned 0 times concordantly or discordantly; of these: 1908570 mates make up the pairs; of these: 1065475 (55.83%) aligned 0 times 804214 (42.14%) aligned exactly 1 time 38881 (2.04%) aligned >1 times 83.00% overall alignment rate Time searching: 00:01:41 Overall time: 00:01:41 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_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 48035 / 2178405 = 0.0221 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 @ Fri, 05 Jul 2019 23:55:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.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 @ Fri, 05 Jul 2019 23:55:17: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:55:17: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:55:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.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 @ Fri, 05 Jul 2019 23:55:18: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:55:18: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:55:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.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 @ Fri, 05 Jul 2019 23:55:19: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:55:19: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:55:25: 1000000 INFO @ Fri, 05 Jul 2019 23:55:25: 1000000 INFO @ Fri, 05 Jul 2019 23:55:26: 1000000 INFO @ Fri, 05 Jul 2019 23:55:31: 2000000 INFO @ Fri, 05 Jul 2019 23:55:33: 2000000 INFO @ Fri, 05 Jul 2019 23:55:34: 2000000 INFO @ Fri, 05 Jul 2019 23:55:37: 3000000 INFO @ Fri, 05 Jul 2019 23:55:40: 3000000 INFO @ Fri, 05 Jul 2019 23:55:42: 3000000 INFO @ Fri, 05 Jul 2019 23:55:44: 4000000 INFO @ Fri, 05 Jul 2019 23:55:47: 4000000 INFO @ Fri, 05 Jul 2019 23:55:50: 4000000 INFO @ Fri, 05 Jul 2019 23:55:50: 5000000 INFO @ Fri, 05 Jul 2019 23:55:51: #1 tag size is determined as 37 bps INFO @ Fri, 05 Jul 2019 23:55:51: #1 tag size = 37 INFO @ Fri, 05 Jul 2019 23:55:51: #1 total tags in treatment: 2116709 INFO @ Fri, 05 Jul 2019 23:55:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:55:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 23:55:51: #1 tags after filtering in treatment: 1657265 INFO @ Fri, 05 Jul 2019 23:55:51: #1 Redundant rate of treatment: 0.22 INFO @ Fri, 05 Jul 2019 23:55:51: #1 finished! INFO @ Fri, 05 Jul 2019 23:55:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:55:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:55:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:55:51: 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 @ Fri, 05 Jul 2019 23:55:51: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:55:54: 5000000 INFO @ Fri, 05 Jul 2019 23:55:55: #1 tag size is determined as 37 bps INFO @ Fri, 05 Jul 2019 23:55:55: #1 tag size = 37 INFO @ Fri, 05 Jul 2019 23:55:55: #1 total tags in treatment: 2116709 INFO @ Fri, 05 Jul 2019 23:55:55: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:55:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 23:55:55: #1 tags after filtering in treatment: 1657265 INFO @ Fri, 05 Jul 2019 23:55:55: #1 Redundant rate of treatment: 0.22 INFO @ Fri, 05 Jul 2019 23:55:55: #1 finished! INFO @ Fri, 05 Jul 2019 23:55:55: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:55:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:55:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:55:55: 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 @ Fri, 05 Jul 2019 23:55:55: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:55:58: 5000000 INFO @ Fri, 05 Jul 2019 23:55:58: #1 tag size is determined as 37 bps INFO @ Fri, 05 Jul 2019 23:55:58: #1 tag size = 37 INFO @ Fri, 05 Jul 2019 23:55:58: #1 total tags in treatment: 2116709 INFO @ Fri, 05 Jul 2019 23:55:58: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:55:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 23:55:58: #1 tags after filtering in treatment: 1657265 INFO @ Fri, 05 Jul 2019 23:55:58: #1 Redundant rate of treatment: 0.22 INFO @ Fri, 05 Jul 2019 23:55:58: #1 finished! INFO @ Fri, 05 Jul 2019 23:55:58: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:55:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:55:58: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:55:58: 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 @ Fri, 05 Jul 2019 23:55:58: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.05_peaks.narrowPeakcut: : No such file or directory/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.20_peaks.narrowPeak : No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.05_model.r’cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.20_model.r’: No such file or directory: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865898/SRX3865898.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling CompletedMACS2peakCalling BigWig に変換しました。