Job ID = 2640740 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,968,876 reads read : 13,937,752 reads written : 13,937,752 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: 00:01:02 6968876 reads; of these: 6968876 (100.00%) were paired; of these: 6864312 (98.50%) aligned concordantly 0 times 88585 (1.27%) aligned concordantly exactly 1 time 15979 (0.23%) aligned concordantly >1 times ---- 6864312 pairs aligned concordantly 0 times; of these: 25576 (0.37%) aligned discordantly 1 time ---- 6838736 pairs aligned 0 times concordantly or discordantly; of these: 13677472 mates make up the pairs; of these: 13306233 (97.29%) aligned 0 times 316643 (2.32%) aligned exactly 1 time 54596 (0.40%) aligned >1 times 4.53% overall alignment rate Time searching: 00:01:02 Overall time: 00:01:02 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] 16654 / 129137 = 0.1290 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 18:50:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.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 18:50:25: #1 read tag files... INFO @ Sat, 24 Aug 2019 18:50:25: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 18:50:29: #1 tag size is determined as 44 bps INFO @ Sat, 24 Aug 2019 18:50:29: #1 tag size = 44 INFO @ Sat, 24 Aug 2019 18:50:29: #1 total tags in treatment: 91102 INFO @ Sat, 24 Aug 2019 18:50:29: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 18:50:29: #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 18:50:29: #1 tags after filtering in treatment: 89338 INFO @ Sat, 24 Aug 2019 18:50:29: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 24 Aug 2019 18:50:29: #1 finished! INFO @ Sat, 24 Aug 2019 18:50:29: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 18:50:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 18:50:29: #2 number of paired peaks: 61 WARNING @ Sat, 24 Aug 2019 18:50:29: Too few paired peaks (61) 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 18:50:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.05_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/ERX2070733/ERX2070733.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 18:50:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.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 18:50:55: #1 read tag files... INFO @ Sat, 24 Aug 2019 18:50:55: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 18:50:59: #1 tag size is determined as 44 bps INFO @ Sat, 24 Aug 2019 18:50:59: #1 tag size = 44 INFO @ Sat, 24 Aug 2019 18:50:59: #1 total tags in treatment: 91102 INFO @ Sat, 24 Aug 2019 18:50:59: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 18:50:59: #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 18:50:59: #1 tags after filtering in treatment: 89338 INFO @ Sat, 24 Aug 2019 18:50:59: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 24 Aug 2019 18:50:59: #1 finished! INFO @ Sat, 24 Aug 2019 18:50:59: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 18:50:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 18:50:59: #2 number of paired peaks: 61 WARNING @ Sat, 24 Aug 2019 18:50:59: Too few paired peaks (61) 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 18:50:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.10_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/ERX2070733/ERX2070733.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Sat, 24 Aug 2019 18:51:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.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 18:51:25: #1 read tag files... INFO @ Sat, 24 Aug 2019 18:51:25: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 18:51:29: #1 tag size is determined as 44 bps INFO @ Sat, 24 Aug 2019 18:51:29: #1 tag size = 44 INFO @ Sat, 24 Aug 2019 18:51:29: #1 total tags in treatment: 91102 INFO @ Sat, 24 Aug 2019 18:51:29: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 18:51:29: #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 18:51:29: #1 tags after filtering in treatment: 89338 INFO @ Sat, 24 Aug 2019 18:51:29: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 24 Aug 2019 18:51:29: #1 finished! INFO @ Sat, 24 Aug 2019 18:51:29: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 18:51:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 18:51:29: #2 number of paired peaks: 61 WARNING @ Sat, 24 Aug 2019 18:51:29: Too few paired peaks (61) 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 18:51:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.20_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/ERX2070733/ERX2070733.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070733/ERX2070733.20_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。