Job ID = 2008326 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 17,746,810 reads read : 35,493,620 reads written : 35,493,620 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629081.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: 00:19:44 17746810 reads; of these: 17746810 (100.00%) were paired; of these: 3605582 (20.32%) aligned concordantly 0 times 12298981 (69.30%) aligned concordantly exactly 1 time 1842247 (10.38%) aligned concordantly >1 times ---- 3605582 pairs aligned concordantly 0 times; of these: 454124 (12.60%) aligned discordantly 1 time ---- 3151458 pairs aligned 0 times concordantly or discordantly; of these: 6302916 mates make up the pairs; of these: 5868186 (93.10%) aligned 0 times 174100 (2.76%) aligned exactly 1 time 260630 (4.14%) aligned >1 times 83.47% overall alignment rate Time searching: 00:19:44 Overall time: 00:19:44 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 16 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] 3274306 / 14540534 = 0.2252 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 19:19:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.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 19:19:51: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:19:51: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:19:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.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 19:19:51: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:19:51: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:20:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.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 19:20:14: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:20:14: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:20:24: 1000000 INFO @ Fri, 05 Jul 2019 19:20:25: 1000000 INFO @ Fri, 05 Jul 2019 19:20:25: 1000000 INFO @ Fri, 05 Jul 2019 19:20:33: 2000000 INFO @ Fri, 05 Jul 2019 19:20:37: 2000000 INFO @ Fri, 05 Jul 2019 19:20:37: 2000000 INFO @ Fri, 05 Jul 2019 19:20:43: 3000000 INFO @ Fri, 05 Jul 2019 19:20:50: 3000000 INFO @ Fri, 05 Jul 2019 19:20:50: 3000000 INFO @ Fri, 05 Jul 2019 19:20:52: 4000000 INFO @ Fri, 05 Jul 2019 19:21:02: 5000000 INFO @ Fri, 05 Jul 2019 19:21:03: 4000000 INFO @ Fri, 05 Jul 2019 19:21:03: 4000000 INFO @ Fri, 05 Jul 2019 19:21:12: 6000000 INFO @ Fri, 05 Jul 2019 19:21:15: 5000000 INFO @ Fri, 05 Jul 2019 19:21:15: 5000000 INFO @ Fri, 05 Jul 2019 19:21:21: 7000000 INFO @ Fri, 05 Jul 2019 19:21:28: 6000000 INFO @ Fri, 05 Jul 2019 19:21:28: 6000000 INFO @ Fri, 05 Jul 2019 19:21:31: 8000000 INFO @ Fri, 05 Jul 2019 19:21:40: 9000000 INFO @ Fri, 05 Jul 2019 19:21:41: 7000000 INFO @ Fri, 05 Jul 2019 19:21:41: 7000000 INFO @ Fri, 05 Jul 2019 19:21:50: 10000000 INFO @ Fri, 05 Jul 2019 19:21:54: 8000000 INFO @ Fri, 05 Jul 2019 19:21:54: 8000000 INFO @ Fri, 05 Jul 2019 19:21:59: 11000000 INFO @ Fri, 05 Jul 2019 19:22:07: 9000000 INFO @ Fri, 05 Jul 2019 19:22:07: 9000000 INFO @ Fri, 05 Jul 2019 19:22:09: 12000000 INFO @ Fri, 05 Jul 2019 19:22:18: 13000000 INFO @ Fri, 05 Jul 2019 19:22:20: 10000000 INFO @ Fri, 05 Jul 2019 19:22:20: 10000000 INFO @ Fri, 05 Jul 2019 19:22:27: 14000000 INFO @ Fri, 05 Jul 2019 19:22:33: 11000000 INFO @ Fri, 05 Jul 2019 19:22:33: 11000000 INFO @ Fri, 05 Jul 2019 19:22:37: 15000000 INFO @ Fri, 05 Jul 2019 19:22:46: 12000000 INFO @ Fri, 05 Jul 2019 19:22:46: 12000000 INFO @ Fri, 05 Jul 2019 19:22:47: 16000000 INFO @ Fri, 05 Jul 2019 19:22:57: 17000000 INFO @ Fri, 05 Jul 2019 19:22:59: 13000000 INFO @ Fri, 05 Jul 2019 19:22:59: 13000000 INFO @ Fri, 05 Jul 2019 19:23:06: 18000000 INFO @ Fri, 05 Jul 2019 19:23:11: 14000000 INFO @ Fri, 05 Jul 2019 19:23:11: 14000000 INFO @ Fri, 05 Jul 2019 19:23:16: 19000000 INFO @ Fri, 05 Jul 2019 19:23:25: 15000000 INFO @ Fri, 05 Jul 2019 19:23:25: 15000000 INFO @ Fri, 05 Jul 2019 19:23:26: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 19:23:35: 21000000 INFO @ Fri, 05 Jul 2019 19:23:39: 16000000 INFO @ Fri, 05 Jul 2019 19:23:39: 16000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 19:23:49: 22000000 INFO @ Fri, 05 Jul 2019 19:23:53: 17000000 INFO @ Fri, 05 Jul 2019 19:23:55: 17000000 INFO @ Fri, 05 Jul 2019 19:23:58: 23000000 INFO @ Fri, 05 Jul 2019 19:23:59: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:23:59: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:23:59: #1 total tags in treatment: 10895512 INFO @ Fri, 05 Jul 2019 19:23:59: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:23:59: #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 19:23:59: #1 tags after filtering in treatment: 5362750 INFO @ Fri, 05 Jul 2019 19:23:59: #1 Redundant rate of treatment: 0.51 INFO @ Fri, 05 Jul 2019 19:23:59: #1 finished! INFO @ Fri, 05 Jul 2019 19:23:59: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:23:59: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:24:00: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:24:00: 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 19:24:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.20_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/ERX585834/ERX585834.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:24:06: 18000000 INFO @ Fri, 05 Jul 2019 19:24:09: 18000000 INFO @ Fri, 05 Jul 2019 19:24:18: 19000000 INFO @ Fri, 05 Jul 2019 19:24:22: 19000000 INFO @ Fri, 05 Jul 2019 19:24:31: 20000000 INFO @ Fri, 05 Jul 2019 19:24:35: 20000000 INFO @ Fri, 05 Jul 2019 19:24:44: 21000000 INFO @ Fri, 05 Jul 2019 19:24:48: 21000000 INFO @ Fri, 05 Jul 2019 19:24:57: 22000000 INFO @ Fri, 05 Jul 2019 19:25:00: 22000000 INFO @ Fri, 05 Jul 2019 19:25:11: 23000000 INFO @ Fri, 05 Jul 2019 19:25:12: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:25:12: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:25:12: #1 total tags in treatment: 10895512 INFO @ Fri, 05 Jul 2019 19:25:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:25:12: #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 19:25:12: #1 tags after filtering in treatment: 5362750 INFO @ Fri, 05 Jul 2019 19:25:12: #1 Redundant rate of treatment: 0.51 INFO @ Fri, 05 Jul 2019 19:25:12: #1 finished! INFO @ Fri, 05 Jul 2019 19:25:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:25:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:25:13: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:25:13: 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 19:25:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.10_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/ERX585834/ERX585834.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:25:14: 23000000 INFO @ Fri, 05 Jul 2019 19:25:15: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:25:15: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:25:15: #1 total tags in treatment: 10895512 INFO @ Fri, 05 Jul 2019 19:25:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:25:15: #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 19:25:15: #1 tags after filtering in treatment: 5362750 INFO @ Fri, 05 Jul 2019 19:25:15: #1 Redundant rate of treatment: 0.51 INFO @ Fri, 05 Jul 2019 19:25:15: #1 finished! INFO @ Fri, 05 Jul 2019 19:25:15: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:25:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:25:16: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:25:16: 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 19:25:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.05_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/ERX585834/ERX585834.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585834/ERX585834.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling