Job ID = 2008338 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,800,653 reads read : 19,601,306 reads written : 19,601,306 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629023.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: 00:11:18 9800653 reads; of these: 9800653 (100.00%) were paired; of these: 1429620 (14.59%) aligned concordantly 0 times 7342373 (74.92%) aligned concordantly exactly 1 time 1028660 (10.50%) aligned concordantly >1 times ---- 1429620 pairs aligned concordantly 0 times; of these: 406293 (28.42%) aligned discordantly 1 time ---- 1023327 pairs aligned 0 times concordantly or discordantly; of these: 2046654 mates make up the pairs; of these: 1722013 (84.14%) aligned 0 times 195491 (9.55%) aligned exactly 1 time 129150 (6.31%) aligned >1 times 91.21% overall alignment rate Time searching: 00:11:18 Overall time: 00:11:18 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] 1325320 / 8725499 = 0.1519 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 19:04:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.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 19:04:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:04:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:04:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.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 19:04:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:04:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:05: 1000000 INFO @ Fri, 05 Jul 2019 19:05:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.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 19:05:06: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:05:06: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:10: 1000000 INFO @ Fri, 05 Jul 2019 19:05:14: 2000000 INFO @ Fri, 05 Jul 2019 19:05:17: 1000000 INFO @ Fri, 05 Jul 2019 19:05:23: 2000000 INFO @ Fri, 05 Jul 2019 19:05:24: 3000000 INFO @ Fri, 05 Jul 2019 19:05:27: 2000000 INFO @ Fri, 05 Jul 2019 19:05:33: 4000000 INFO @ Fri, 05 Jul 2019 19:05:36: 3000000 INFO @ Fri, 05 Jul 2019 19:05:38: 3000000 INFO @ Fri, 05 Jul 2019 19:05:42: 5000000 INFO @ Fri, 05 Jul 2019 19:05:49: 4000000 INFO @ Fri, 05 Jul 2019 19:05:49: 4000000 INFO @ Fri, 05 Jul 2019 19:05:51: 6000000 INFO @ Fri, 05 Jul 2019 19:05:59: 5000000 INFO @ Fri, 05 Jul 2019 19:06:00: 7000000 INFO @ Fri, 05 Jul 2019 19:06:02: 5000000 INFO @ Fri, 05 Jul 2019 19:06:09: 8000000 INFO @ Fri, 05 Jul 2019 19:06:10: 6000000 INFO @ Fri, 05 Jul 2019 19:06:16: 6000000 INFO @ Fri, 05 Jul 2019 19:06:18: 9000000 INFO @ Fri, 05 Jul 2019 19:06:23: 7000000 INFO @ Fri, 05 Jul 2019 19:06:28: 10000000 INFO @ Fri, 05 Jul 2019 19:06:30: 7000000 INFO @ Fri, 05 Jul 2019 19:06:34: 8000000 INFO @ Fri, 05 Jul 2019 19:06:37: 11000000 INFO @ Fri, 05 Jul 2019 19:06:43: 8000000 INFO @ Fri, 05 Jul 2019 19:06:44: 9000000 INFO @ Fri, 05 Jul 2019 19:06:46: 12000000 INFO @ Fri, 05 Jul 2019 19:06:55: 13000000 INFO @ Fri, 05 Jul 2019 19:06:55: 10000000 INFO @ Fri, 05 Jul 2019 19:06:56: 9000000 INFO @ Fri, 05 Jul 2019 19:07:04: 14000000 INFO @ Fri, 05 Jul 2019 19:07:06: 11000000 INFO @ Fri, 05 Jul 2019 19:07:08: 10000000 INFO @ Fri, 05 Jul 2019 19:07:13: 15000000 INFO @ Fri, 05 Jul 2019 19:07:15: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:07:15: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:07:15: #1 total tags in treatment: 7062763 INFO @ Fri, 05 Jul 2019 19:07:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:07:15: #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 19:07:15: #1 tags after filtering in treatment: 4104611 INFO @ Fri, 05 Jul 2019 19:07:15: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 19:07:15: #1 finished! INFO @ Fri, 05 Jul 2019 19:07:15: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:07:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:07:16: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:07:16: 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 19:07:16: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:07:16: 12000000 INFO @ Fri, 05 Jul 2019 19:07:21: 11000000 INFO @ Fri, 05 Jul 2019 19:07:27: 13000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.05_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/ERX585846/ERX585846.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:07:33: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 19:07:38: 14000000 INFO @ Fri, 05 Jul 2019 19:07:46: 13000000 INFO @ Fri, 05 Jul 2019 19:07:48: 15000000 INFO @ Fri, 05 Jul 2019 19:07:51: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:07:51: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:07:51: #1 total tags in treatment: 7062763 INFO @ Fri, 05 Jul 2019 19:07:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:07:51: #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 19:07:51: #1 tags after filtering in treatment: 4104611 INFO @ Fri, 05 Jul 2019 19:07:51: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 19:07:51: #1 finished! INFO @ Fri, 05 Jul 2019 19:07:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:07:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:07:51: 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 19:07:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.20_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/ERX585846/ERX585846.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:07:58: 14000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 19:08:10: 15000000 INFO @ Fri, 05 Jul 2019 19:08:13: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:08:13: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:08:13: #1 total tags in treatment: 7062763 INFO @ Fri, 05 Jul 2019 19:08:13: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:08:13: #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 19:08:13: #1 tags after filtering in treatment: 4104611 INFO @ Fri, 05 Jul 2019 19:08:13: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 19:08:13: #1 finished! INFO @ Fri, 05 Jul 2019 19:08:13: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:08:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:08:13: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:08:13: 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 19:08:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.10_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/ERX585846/ERX585846.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585846/ERX585846.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling