Job ID = 2008310 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,016,292 reads read : 14,032,584 reads written : 14,032,584 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: 00:07:57 7016292 reads; of these: 7016292 (100.00%) were paired; of these: 280520 (4.00%) aligned concordantly 0 times 6169441 (87.93%) aligned concordantly exactly 1 time 566331 (8.07%) aligned concordantly >1 times ---- 280520 pairs aligned concordantly 0 times; of these: 143944 (51.31%) aligned discordantly 1 time ---- 136576 pairs aligned 0 times concordantly or discordantly; of these: 273152 mates make up the pairs; of these: 175660 (64.31%) aligned 0 times 67964 (24.88%) aligned exactly 1 time 29528 (10.81%) aligned >1 times 98.75% overall alignment rate Time searching: 00:07:57 Overall time: 00:07:57 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_sort_core] merging from 8 files... [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] 1375775 / 6859850 = 0.2006 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Fri, 05 Jul 2019 18:57:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.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 BedGraph に変換中... INFO @ Fri, 05 Jul 2019 18:57:01: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:57:01: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:57:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.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 18:57:02: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:57:02: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:57:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.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 18:57:03: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:57:03: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:57:11: 1000000 INFO @ Fri, 05 Jul 2019 18:57:12: 1000000 INFO @ Fri, 05 Jul 2019 18:57:13: 1000000 INFO @ Fri, 05 Jul 2019 18:57:21: 2000000 INFO @ Fri, 05 Jul 2019 18:57:22: 2000000 INFO @ Fri, 05 Jul 2019 18:57:22: 2000000 INFO @ Fri, 05 Jul 2019 18:57:31: 3000000 INFO @ Fri, 05 Jul 2019 18:57:31: 3000000 INFO @ Fri, 05 Jul 2019 18:57:32: 3000000 INFO @ Fri, 05 Jul 2019 18:57:39: 4000000 INFO @ Fri, 05 Jul 2019 18:57:41: 4000000 INFO @ Fri, 05 Jul 2019 18:57:42: 4000000 INFO @ Fri, 05 Jul 2019 18:57:48: 5000000 INFO @ Fri, 05 Jul 2019 18:57:51: 5000000 INFO @ Fri, 05 Jul 2019 18:57:52: 5000000 INFO @ Fri, 05 Jul 2019 18:57:57: 6000000 INFO @ Fri, 05 Jul 2019 18:58:01: 6000000 INFO @ Fri, 05 Jul 2019 18:58:02: 6000000 INFO @ Fri, 05 Jul 2019 18:58:05: 7000000 INFO @ Fri, 05 Jul 2019 18:58:11: 7000000 INFO @ Fri, 05 Jul 2019 18:58:12: 7000000 INFO @ Fri, 05 Jul 2019 18:58:14: 8000000 INFO @ Fri, 05 Jul 2019 18:58:21: 8000000 INFO @ Fri, 05 Jul 2019 18:58:22: 8000000 INFO @ Fri, 05 Jul 2019 18:58:23: 9000000 INFO @ Fri, 05 Jul 2019 18:58:31: 10000000 INFO @ Fri, 05 Jul 2019 18:58:31: 9000000 INFO @ Fri, 05 Jul 2019 18:58:32: 9000000 INFO @ Fri, 05 Jul 2019 18:58:40: 11000000 INFO @ Fri, 05 Jul 2019 18:58:41: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:58:41: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:58:41: #1 total tags in treatment: 5366909 INFO @ Fri, 05 Jul 2019 18:58:41: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:58:41: #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 18:58:41: #1 tags after filtering in treatment: 3033212 INFO @ Fri, 05 Jul 2019 18:58:41: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:58:41: #1 finished! INFO @ Fri, 05 Jul 2019 18:58:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:58:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:58:41: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:58:41: 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 18:58:41: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:58:41: 10000000 INFO @ Fri, 05 Jul 2019 18:58:42: 10000000 INFO @ Fri, 05 Jul 2019 18:58:51: 11000000 INFO @ Fri, 05 Jul 2019 18:58:52: 11000000 INFO @ Fri, 05 Jul 2019 18:58:52: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:58:52: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:58:52: #1 total tags in treatment: 5366909 INFO @ Fri, 05 Jul 2019 18:58:52: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:58:52: #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 18:58:52: #1 tags after filtering in treatment: 3033212 INFO @ Fri, 05 Jul 2019 18:58:52: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:58:52: #1 finished! INFO @ Fri, 05 Jul 2019 18:58:52: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:58:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:58:53: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:58:53: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:58:53: #1 total tags in treatment: 5366909 INFO @ Fri, 05 Jul 2019 18:58:53: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:58:53: #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 18:58:53: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:58:53: 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 18:58:53: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:58:53: #1 tags after filtering in treatment: 3033212 INFO @ Fri, 05 Jul 2019 18:58:53: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:58:53: #1 finished! INFO @ Fri, 05 Jul 2019 18:58:53: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:58:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:58:53: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:58:53: 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 18:58:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.20_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 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/ERX585820/ERX585820.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585820/ERX585820.20_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。