Job ID = 2640738 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,770,177 reads read : 15,540,354 reads written : 15,540,354 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: 00:01:22 7770177 reads; of these: 7770177 (100.00%) were paired; of these: 7636748 (98.28%) aligned concordantly 0 times 110296 (1.42%) aligned concordantly exactly 1 time 23133 (0.30%) aligned concordantly >1 times ---- 7636748 pairs aligned concordantly 0 times; of these: 33893 (0.44%) aligned discordantly 1 time ---- 7602855 pairs aligned 0 times concordantly or discordantly; of these: 15205710 mates make up the pairs; of these: 14715218 (96.77%) aligned 0 times 410847 (2.70%) aligned exactly 1 time 79645 (0.52%) aligned >1 times 5.31% overall alignment rate Time searching: 00:01:22 Overall time: 00:01:22 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] 24083 / 165876 = 0.1452 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 18:50:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.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 18:50:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 18:50:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 18:50:27: #1 tag size is determined as 44 bps INFO @ Sat, 24 Aug 2019 18:50:27: #1 tag size = 44 INFO @ Sat, 24 Aug 2019 18:50:27: #1 total tags in treatment: 114733 INFO @ Sat, 24 Aug 2019 18:50:27: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 18:50:27: #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 18:50:27: #1 tags after filtering in treatment: 112243 INFO @ Sat, 24 Aug 2019 18:50:27: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 24 Aug 2019 18:50:27: #1 finished! INFO @ Sat, 24 Aug 2019 18:50:27: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 18:50:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 18:50:27: #2 number of paired peaks: 49 WARNING @ Sat, 24 Aug 2019 18:50:27: Too few paired peaks (49) 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 18:50:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.05_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/ERX2070731/ERX2070731.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 18:50:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.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 18:50:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 18:50:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 18:50:55: #1 tag size is determined as 44 bps INFO @ Sat, 24 Aug 2019 18:50:55: #1 tag size = 44 INFO @ Sat, 24 Aug 2019 18:50:55: #1 total tags in treatment: 114733 INFO @ Sat, 24 Aug 2019 18:50:55: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 18:50:55: #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 18:50:55: #1 tags after filtering in treatment: 112243 INFO @ Sat, 24 Aug 2019 18:50:55: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 24 Aug 2019 18:50:55: #1 finished! INFO @ Sat, 24 Aug 2019 18:50:55: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 18:50:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 18:50:55: #2 number of paired peaks: 49 WARNING @ Sat, 24 Aug 2019 18:50:55: Too few paired peaks (49) 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 18:50:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.10_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/ERX2070731/ERX2070731.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Sat, 24 Aug 2019 18:51:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.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 18:51:19: #1 read tag files... INFO @ Sat, 24 Aug 2019 18:51:19: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 18:51:24: #1 tag size is determined as 44 bps INFO @ Sat, 24 Aug 2019 18:51:24: #1 tag size = 44 INFO @ Sat, 24 Aug 2019 18:51:24: #1 total tags in treatment: 114733 INFO @ Sat, 24 Aug 2019 18:51:24: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 18:51:24: #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 18:51:24: #1 tags after filtering in treatment: 112243 INFO @ Sat, 24 Aug 2019 18:51:24: #1 Redundant rate of treatment: 0.02 INFO @ Sat, 24 Aug 2019 18:51:24: #1 finished! INFO @ Sat, 24 Aug 2019 18:51:24: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 18:51:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 18:51:24: #2 number of paired peaks: 49 WARNING @ Sat, 24 Aug 2019 18:51:24: Too few paired peaks (49) 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 18:51:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.20_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/ERX2070731/ERX2070731.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2070731/ERX2070731.20_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。