Job ID = 2008353 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,252,365 reads read : 18,504,730 reads written : 18,504,730 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629027.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: 00:13:46 9252365 reads; of these: 9252365 (100.00%) were paired; of these: 509876 (5.51%) aligned concordantly 0 times 7447282 (80.49%) aligned concordantly exactly 1 time 1295207 (14.00%) aligned concordantly >1 times ---- 509876 pairs aligned concordantly 0 times; of these: 217484 (42.65%) aligned discordantly 1 time ---- 292392 pairs aligned 0 times concordantly or discordantly; of these: 584784 mates make up the pairs; of these: 397447 (67.96%) aligned 0 times 93645 (16.01%) aligned exactly 1 time 93692 (16.02%) aligned >1 times 97.85% overall alignment rate Time searching: 00:13:46 Overall time: 00:13:46 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] 1524214 / 8928296 = 0.1707 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 19:09:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.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 19:09:26: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:09:26: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:09:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.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 19:09:27: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:09:27: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:09:34: 1000000 INFO @ Fri, 05 Jul 2019 19:09:34: 1000000 INFO @ Fri, 05 Jul 2019 19:09:42: 2000000 INFO @ Fri, 05 Jul 2019 19:09:43: 2000000 INFO @ Fri, 05 Jul 2019 19:09:49: 3000000 INFO @ Fri, 05 Jul 2019 19:09:51: 3000000 INFO @ Fri, 05 Jul 2019 19:09:56: 4000000 INFO @ Fri, 05 Jul 2019 19:09:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.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 19:09:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:09:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:09:59: 4000000 INFO @ Fri, 05 Jul 2019 19:10:04: 5000000 INFO @ Fri, 05 Jul 2019 19:10:07: 5000000 INFO @ Fri, 05 Jul 2019 19:10:07: 1000000 INFO @ Fri, 05 Jul 2019 19:10:11: 6000000 INFO @ Fri, 05 Jul 2019 19:10:15: 6000000 INFO @ Fri, 05 Jul 2019 19:10:17: 2000000 INFO @ Fri, 05 Jul 2019 19:10:18: 7000000 INFO @ Fri, 05 Jul 2019 19:10:24: 7000000 INFO @ Fri, 05 Jul 2019 19:10:26: 8000000 INFO @ Fri, 05 Jul 2019 19:10:26: 3000000 INFO @ Fri, 05 Jul 2019 19:10:32: 8000000 INFO @ Fri, 05 Jul 2019 19:10:33: 9000000 INFO @ Fri, 05 Jul 2019 19:10:35: 4000000 INFO @ Fri, 05 Jul 2019 19:10:40: 9000000 INFO @ Fri, 05 Jul 2019 19:10:42: 10000000 INFO @ Fri, 05 Jul 2019 19:10:45: 5000000 INFO @ Fri, 05 Jul 2019 19:10:48: 10000000 INFO @ Fri, 05 Jul 2019 19:10:49: 11000000 INFO @ Fri, 05 Jul 2019 19:10:54: 6000000 INFO @ Fri, 05 Jul 2019 19:10:56: 11000000 INFO @ Fri, 05 Jul 2019 19:10:56: 12000000 INFO @ Fri, 05 Jul 2019 19:11:04: 7000000 INFO @ Fri, 05 Jul 2019 19:11:04: 13000000 INFO @ Fri, 05 Jul 2019 19:11:04: 12000000 INFO @ Fri, 05 Jul 2019 19:11:11: 14000000 INFO @ Fri, 05 Jul 2019 19:11:13: 13000000 INFO @ Fri, 05 Jul 2019 19:11:13: 8000000 INFO @ Fri, 05 Jul 2019 19:11:18: 15000000 INFO @ Fri, 05 Jul 2019 19:11:19: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:11:19: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:11:19: #1 total tags in treatment: 7224063 INFO @ Fri, 05 Jul 2019 19:11:19: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:11:19: #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 19:11:19: #1 tags after filtering in treatment: 4122031 INFO @ Fri, 05 Jul 2019 19:11:19: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 19:11:19: #1 finished! INFO @ Fri, 05 Jul 2019 19:11:19: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:11:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:11:19: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:11:19: 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 19:11:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.10_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/ERX585854/ERX585854.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:11:21: 14000000 INFO @ Fri, 05 Jul 2019 19:11:22: 9000000 INFO @ Fri, 05 Jul 2019 19:11:29: 15000000 INFO @ Fri, 05 Jul 2019 19:11:29: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:11:29: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:11:29: #1 total tags in treatment: 7224063 INFO @ Fri, 05 Jul 2019 19:11:29: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:11:29: #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 19:11:30: #1 tags after filtering in treatment: 4122031 INFO @ Fri, 05 Jul 2019 19:11:30: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 19:11:30: #1 finished! INFO @ Fri, 05 Jul 2019 19:11:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:11:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:11:30: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:11:30: 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 19:11:30: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:11:31: 10000000 INFO @ Fri, 05 Jul 2019 19:11:40: 11000000 INFO @ Fri, 05 Jul 2019 19:11:49: 12000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.05_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/ERX585854/ERX585854.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:11:59: 13000000 INFO @ Fri, 05 Jul 2019 19:12:08: 14000000 INFO @ Fri, 05 Jul 2019 19:12:17: 15000000 INFO @ Fri, 05 Jul 2019 19:12:17: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:12:17: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:12:17: #1 total tags in treatment: 7224063 INFO @ Fri, 05 Jul 2019 19:12:17: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:12:17: #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 19:12:18: #1 tags after filtering in treatment: 4122031 INFO @ Fri, 05 Jul 2019 19:12:18: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 19:12:18: #1 finished! INFO @ Fri, 05 Jul 2019 19:12:18: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:12:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:12:18: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:12:18: 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 19:12:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.20_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/ERX585854/ERX585854.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585854/ERX585854.20_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。