Job ID = 2008348 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,928,278 reads read : 15,856,556 reads written : 15,856,556 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629076.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: 00:08:42 7928278 reads; of these: 7928278 (100.00%) were paired; of these: 375196 (4.73%) aligned concordantly 0 times 7079574 (89.30%) aligned concordantly exactly 1 time 473508 (5.97%) aligned concordantly >1 times ---- 375196 pairs aligned concordantly 0 times; of these: 49421 (13.17%) aligned discordantly 1 time ---- 325775 pairs aligned 0 times concordantly or discordantly; of these: 651550 mates make up the pairs; of these: 576414 (88.47%) aligned 0 times 59705 (9.16%) aligned exactly 1 time 15431 (2.37%) aligned >1 times 96.36% overall alignment rate Time searching: 00:08:42 Overall time: 00:08:42 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] 3428553 / 7587123 = 0.4519 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 18:59:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.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 18:59:40: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:59:40: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:59:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.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 18:59:41: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:59:41: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:59:48: 1000000 INFO @ Fri, 05 Jul 2019 18:59:51: 1000000 INFO @ Fri, 05 Jul 2019 18:59:57: 2000000 INFO @ Fri, 05 Jul 2019 19:00:00: 2000000 INFO @ Fri, 05 Jul 2019 19:00:05: 3000000 INFO @ Fri, 05 Jul 2019 19:00:10: 3000000 INFO @ Fri, 05 Jul 2019 19:00:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.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 19:00:10: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:00:10: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:00:13: 4000000 INFO @ Fri, 05 Jul 2019 19:00:19: 4000000 INFO @ Fri, 05 Jul 2019 19:00:20: 1000000 INFO @ Fri, 05 Jul 2019 19:00:21: 5000000 INFO @ Fri, 05 Jul 2019 19:00:29: 5000000 INFO @ Fri, 05 Jul 2019 19:00:29: 2000000 INFO @ Fri, 05 Jul 2019 19:00:30: 6000000 INFO @ Fri, 05 Jul 2019 19:00:38: 7000000 INFO @ Fri, 05 Jul 2019 19:00:39: 6000000 INFO @ Fri, 05 Jul 2019 19:00:39: 3000000 INFO @ Fri, 05 Jul 2019 19:00:47: 8000000 INFO @ Fri, 05 Jul 2019 19:00:48: 4000000 INFO @ Fri, 05 Jul 2019 19:00:48: 7000000 INFO @ Fri, 05 Jul 2019 19:00:50: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:00:50: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:00:50: #1 total tags in treatment: 4127286 INFO @ Fri, 05 Jul 2019 19:00:50: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:00:50: #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 19:00:50: #1 tags after filtering in treatment: 2182285 INFO @ Fri, 05 Jul 2019 19:00:50: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 19:00:50: #1 finished! INFO @ Fri, 05 Jul 2019 19:00:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:00:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:00:50: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:00:50: 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 19:00:50: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:00:58: 5000000 INFO @ Fri, 05 Jul 2019 19:00:58: 8000000 INFO @ Fri, 05 Jul 2019 19:01:02: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:01:02: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:01:02: #1 total tags in treatment: 4127286 INFO @ Fri, 05 Jul 2019 19:01:02: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:01:02: #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 19:01:02: #1 tags after filtering in treatment: 2182285 INFO @ Fri, 05 Jul 2019 19:01:02: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 19:01:02: #1 finished! INFO @ Fri, 05 Jul 2019 19:01:02: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:01:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:01:02: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:01:02: 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 19:01:02: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:01:07: 6000000 INFO @ Fri, 05 Jul 2019 19:01:17: 7000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis pass1 - making usageList (0 chroms): 1 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/ERX585852/ERX585852.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:01:26: 8000000 INFO @ Fri, 05 Jul 2019 19:01:30: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:01:30: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:01:30: #1 total tags in treatment: 4127286 INFO @ Fri, 05 Jul 2019 19:01:30: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:01:30: #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 19:01:30: #1 tags after filtering in treatment: 2182285 INFO @ Fri, 05 Jul 2019 19:01:30: #1 Redundant rate of treatment: 0.47 INFO @ Fri, 05 Jul 2019 19:01:30: #1 finished! INFO @ Fri, 05 Jul 2019 19:01:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:01:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:01:30: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:01:30: 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 19:01:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.20_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/ERX585852/ERX585852.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585852/ERX585852.20_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。