Job ID = 2007668 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 754,454 reads read : 1,508,908 reads written : 1,508,908 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: 00:00:25 754454 reads; of these: 754454 (100.00%) were paired; of these: 83316 (11.04%) aligned concordantly 0 times 612162 (81.14%) aligned concordantly exactly 1 time 58976 (7.82%) aligned concordantly >1 times ---- 83316 pairs aligned concordantly 0 times; of these: 43139 (51.78%) aligned discordantly 1 time ---- 40177 pairs aligned 0 times concordantly or discordantly; of these: 80354 mates make up the pairs; of these: 60115 (74.81%) aligned 0 times 10500 (13.07%) aligned exactly 1 time 9739 (12.12%) aligned >1 times 96.02% overall alignment rate Time searching: 00:00:25 Overall time: 00:00:25 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] 511 / 709034 = 0.0007 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 16:17:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.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 16:17:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:17:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:17:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.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 16:17:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:17:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:17:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.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 16:17:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:17:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:18:03: 1000000 INFO @ Fri, 05 Jul 2019 16:18:03: 1000000 INFO @ Fri, 05 Jul 2019 16:18:05: 1000000 INFO @ Fri, 05 Jul 2019 16:18:05: #1 tag size is determined as 25 bps INFO @ Fri, 05 Jul 2019 16:18:05: #1 tag size = 25 INFO @ Fri, 05 Jul 2019 16:18:05: #1 total tags in treatment: 670644 INFO @ Fri, 05 Jul 2019 16:18:05: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:18:05: #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 16:18:05: #1 tags after filtering in treatment: 658891 INFO @ Fri, 05 Jul 2019 16:18:05: #1 Redundant rate of treatment: 0.02 INFO @ Fri, 05 Jul 2019 16:18:05: #1 finished! INFO @ Fri, 05 Jul 2019 16:18:05: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:18:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:18:06: #2 number of paired peaks: 24 WARNING @ Fri, 05 Jul 2019 16:18:06: Too few paired peaks (24) 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 16:18:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.05_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/ERX433645/ERX433645.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:18:06: #1 tag size is determined as 25 bps INFO @ Fri, 05 Jul 2019 16:18:06: #1 tag size = 25 INFO @ Fri, 05 Jul 2019 16:18:06: #1 total tags in treatment: 670644 INFO @ Fri, 05 Jul 2019 16:18:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:18:06: #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 16:18:06: #1 tags after filtering in treatment: 658891 INFO @ Fri, 05 Jul 2019 16:18:06: #1 Redundant rate of treatment: 0.02 INFO @ Fri, 05 Jul 2019 16:18:06: #1 finished! INFO @ Fri, 05 Jul 2019 16:18:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:18:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:18:06: #2 number of paired peaks: 24 WARNING @ Fri, 05 Jul 2019 16:18:06: Too few paired peaks (24) 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 16:18:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.10_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/ERX433645/ERX433645.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:18:08: #1 tag size is determined as 25 bps INFO @ Fri, 05 Jul 2019 16:18:08: #1 tag size = 25 INFO @ Fri, 05 Jul 2019 16:18:08: #1 total tags in treatment: 670644 INFO @ Fri, 05 Jul 2019 16:18:08: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:18:08: #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 16:18:08: #1 tags after filtering in treatment: 658891 INFO @ Fri, 05 Jul 2019 16:18:08: #1 Redundant rate of treatment: 0.02 INFO @ Fri, 05 Jul 2019 16:18:08: #1 finished! INFO @ Fri, 05 Jul 2019 16:18:08: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:18:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:18:08: #2 number of paired peaks: 24 WARNING @ Fri, 05 Jul 2019 16:18:08: Too few paired peaks (24) 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 16:18:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.20_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/ERX433645/ERX433645.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX433645/ERX433645.20_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。