Job ID = 2008336 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 1,065,360 reads read : 2,130,720 reads written : 2,130,720 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628995.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: 00:00:47 1065360 reads; of these: 1065360 (100.00%) were paired; of these: 59264 (5.56%) aligned concordantly 0 times 871782 (81.83%) aligned concordantly exactly 1 time 134314 (12.61%) aligned concordantly >1 times ---- 59264 pairs aligned concordantly 0 times; of these: 7719 (13.02%) aligned discordantly 1 time ---- 51545 pairs aligned 0 times concordantly or discordantly; of these: 103090 mates make up the pairs; of these: 90973 (88.25%) aligned 0 times 5627 (5.46%) aligned exactly 1 time 6490 (6.30%) aligned >1 times 95.73% overall alignment rate Time searching: 00:00:47 Overall time: 00:00:47 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] 364445 / 1010630 = 0.3606 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 18:39:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.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 18:39:22: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:39:22: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:39:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.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 18:39:23: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:39:23: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:39:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.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 18:39:25: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:39:25: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:39:30: 1000000 INFO @ Fri, 05 Jul 2019 18:39:30: 1000000 INFO @ Fri, 05 Jul 2019 18:39:32: 1000000 INFO @ Fri, 05 Jul 2019 18:39:32: #1 tag size is determined as 44 bps INFO @ Fri, 05 Jul 2019 18:39:32: #1 tag size = 44 INFO @ Fri, 05 Jul 2019 18:39:32: #1 total tags in treatment: 642078 INFO @ Fri, 05 Jul 2019 18:39:32: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:39:32: #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 18:39:32: #1 tags after filtering in treatment: 565609 INFO @ Fri, 05 Jul 2019 18:39:32: #1 Redundant rate of treatment: 0.12 INFO @ Fri, 05 Jul 2019 18:39:32: #1 finished! INFO @ Fri, 05 Jul 2019 18:39:32: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:39:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:39:32: #2 number of paired peaks: 27 WARNING @ Fri, 05 Jul 2019 18:39:32: Too few paired peaks (27) 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 18:39:32: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:39:32: #1 tag size is determined as 44 bps INFO @ Fri, 05 Jul 2019 18:39:32: #1 tag size = 44 INFO @ Fri, 05 Jul 2019 18:39:32: #1 total tags in treatment: 642078 INFO @ Fri, 05 Jul 2019 18:39:32: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:39:32: #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 18:39:32: #1 tags after filtering in treatment: 565609 INFO @ Fri, 05 Jul 2019 18:39:32: #1 Redundant rate of treatment: 0.12 INFO @ Fri, 05 Jul 2019 18:39:32: #1 finished! INFO @ Fri, 05 Jul 2019 18:39:32: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:39:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:39:33: #2 number of paired peaks: 27 WARNING @ Fri, 05 Jul 2019 18:39:33: Too few paired peaks (27) 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 18:39:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.10_peaks.narrowPeakcut: /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.05_peaks.narrowPeakINFO @ Fri, 05 Jul 2019 18:39:34: #1 tag size is determined as 44 bps : No such file or directory INFO @ Fri, 05 Jul 2019 18:39:34: #1 tag size = 44 : No such file or directory INFO @ Fri, 05 Jul 2019 18:39:34: #1 total tags in treatment: 642078 INFO @ Fri, 05 Jul 2019 18:39:34: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:39:34: #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 18:39:34: #1 tags after filtering in treatment: 565609 INFO @ Fri, 05 Jul 2019 18:39:34: #1 Redundant rate of treatment: 0.12 INFO @ Fri, 05 Jul 2019 18:39:34: #1 finished! INFO @ Fri, 05 Jul 2019 18:39:34: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:39:34: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 2 millis pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:39:34: #2 number of paired peaks: 27 WARNING @ Fri, 05 Jul 2019 18:39:34: Too few paired peaks (27) 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 18:39:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.20_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/ERX585844/ERX585844.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585844/ERX585844.20_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。