Job ID = 2011674 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 15,710,165 reads read : 31,420,330 reads written : 31,420,330 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146741.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: 00:14:11 15710165 reads; of these: 15710165 (100.00%) were paired; of these: 1304152 (8.30%) aligned concordantly 0 times 11708778 (74.53%) aligned concordantly exactly 1 time 2697235 (17.17%) aligned concordantly >1 times ---- 1304152 pairs aligned concordantly 0 times; of these: 423125 (32.44%) aligned discordantly 1 time ---- 881027 pairs aligned 0 times concordantly or discordantly; of these: 1762054 mates make up the pairs; of these: 1237555 (70.23%) aligned 0 times 242650 (13.77%) aligned exactly 1 time 281849 (16.00%) aligned >1 times 96.06% overall alignment rate Time searching: 00:14:11 Overall time: 00:14:11 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] 1809705 / 14652744 = 0.1235 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 @ Sat, 06 Jul 2019 02:22:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.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 @ Sat, 06 Jul 2019 02:22:01: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:22:01: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:22:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.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 @ Sat, 06 Jul 2019 02:22:02: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:22:02: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:22:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.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 @ Sat, 06 Jul 2019 02:22:03: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:22:03: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:22:07: 1000000 INFO @ Sat, 06 Jul 2019 02:22:08: 1000000 INFO @ Sat, 06 Jul 2019 02:22:10: 1000000 INFO @ Sat, 06 Jul 2019 02:22:13: 2000000 INFO @ Sat, 06 Jul 2019 02:22:14: 2000000 INFO @ Sat, 06 Jul 2019 02:22:18: 2000000 INFO @ Sat, 06 Jul 2019 02:22:19: 3000000 INFO @ Sat, 06 Jul 2019 02:22:20: 3000000 INFO @ Sat, 06 Jul 2019 02:22:25: 4000000 INFO @ Sat, 06 Jul 2019 02:22:25: 3000000 INFO @ Sat, 06 Jul 2019 02:22:26: 4000000 INFO @ Sat, 06 Jul 2019 02:22:31: 5000000 INFO @ Sat, 06 Jul 2019 02:22:32: 5000000 INFO @ Sat, 06 Jul 2019 02:22:33: 4000000 INFO @ Sat, 06 Jul 2019 02:22:37: 6000000 INFO @ Sat, 06 Jul 2019 02:22:38: 6000000 INFO @ Sat, 06 Jul 2019 02:22:40: 5000000 INFO @ Sat, 06 Jul 2019 02:22:43: 7000000 INFO @ Sat, 06 Jul 2019 02:22:44: 7000000 INFO @ Sat, 06 Jul 2019 02:22:47: 6000000 INFO @ Sat, 06 Jul 2019 02:22:49: 8000000 INFO @ Sat, 06 Jul 2019 02:22:50: 8000000 INFO @ Sat, 06 Jul 2019 02:22:54: 7000000 INFO @ Sat, 06 Jul 2019 02:22:56: 9000000 INFO @ Sat, 06 Jul 2019 02:22:56: 9000000 INFO @ Sat, 06 Jul 2019 02:23:02: 8000000 INFO @ Sat, 06 Jul 2019 02:23:02: 10000000 INFO @ Sat, 06 Jul 2019 02:23:03: 10000000 INFO @ Sat, 06 Jul 2019 02:23:09: 11000000 INFO @ Sat, 06 Jul 2019 02:23:09: 11000000 INFO @ Sat, 06 Jul 2019 02:23:09: 9000000 INFO @ Sat, 06 Jul 2019 02:23:15: 12000000 INFO @ Sat, 06 Jul 2019 02:23:15: 12000000 INFO @ Sat, 06 Jul 2019 02:23:17: 10000000 INFO @ Sat, 06 Jul 2019 02:23:21: 13000000 INFO @ Sat, 06 Jul 2019 02:23:21: 13000000 INFO @ Sat, 06 Jul 2019 02:23:24: 11000000 INFO @ Sat, 06 Jul 2019 02:23:27: 14000000 INFO @ Sat, 06 Jul 2019 02:23:27: 14000000 INFO @ Sat, 06 Jul 2019 02:23:31: 12000000 INFO @ Sat, 06 Jul 2019 02:23:33: 15000000 INFO @ Sat, 06 Jul 2019 02:23:33: 15000000 INFO @ Sat, 06 Jul 2019 02:23:38: 13000000 INFO @ Sat, 06 Jul 2019 02:23:39: 16000000 INFO @ Sat, 06 Jul 2019 02:23:40: 16000000 INFO @ Sat, 06 Jul 2019 02:23:45: 17000000 INFO @ Sat, 06 Jul 2019 02:23:46: 17000000 INFO @ Sat, 06 Jul 2019 02:23:46: 14000000 INFO @ Sat, 06 Jul 2019 02:23:51: 18000000 INFO @ Sat, 06 Jul 2019 02:23:52: 18000000 INFO @ Sat, 06 Jul 2019 02:23:53: 15000000 INFO @ Sat, 06 Jul 2019 02:23:57: 19000000 INFO @ Sat, 06 Jul 2019 02:23:58: 19000000 INFO @ Sat, 06 Jul 2019 02:24:00: 16000000 INFO @ Sat, 06 Jul 2019 02:24:03: 20000000 INFO @ Sat, 06 Jul 2019 02:24:04: 20000000 INFO @ Sat, 06 Jul 2019 02:24:08: 17000000 INFO @ Sat, 06 Jul 2019 02:24:09: 21000000 INFO @ Sat, 06 Jul 2019 02:24:10: 21000000 INFO @ Sat, 06 Jul 2019 02:24:15: 18000000 INFO @ Sat, 06 Jul 2019 02:24:15: 22000000 INFO @ Sat, 06 Jul 2019 02:24:16: 22000000 INFO @ Sat, 06 Jul 2019 02:24:22: 19000000 INFO @ Sat, 06 Jul 2019 02:24:22: 23000000 INFO @ Sat, 06 Jul 2019 02:24:23: 23000000 INFO @ Sat, 06 Jul 2019 02:24:28: 24000000 INFO @ Sat, 06 Jul 2019 02:24:29: 20000000 INFO @ Sat, 06 Jul 2019 02:24:30: 24000000 INFO @ Sat, 06 Jul 2019 02:24:34: 25000000 INFO @ Sat, 06 Jul 2019 02:24:36: 21000000 INFO @ Sat, 06 Jul 2019 02:24:38: 25000000 INFO @ Sat, 06 Jul 2019 02:24:40: 26000000 INFO @ Sat, 06 Jul 2019 02:24:44: 22000000 INFO @ Sat, 06 Jul 2019 02:24:44: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:24:44: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:24:44: #1 total tags in treatment: 12622586 INFO @ Sat, 06 Jul 2019 02:24:44: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:24:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:24:44: #1 tags after filtering in treatment: 8674441 INFO @ Sat, 06 Jul 2019 02:24:44: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 06 Jul 2019 02:24:44: #1 finished! INFO @ Sat, 06 Jul 2019 02:24:44: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:24:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:24:45: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:24:45: 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 @ Sat, 06 Jul 2019 02:24:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.05_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/SRX455451/SRX455451.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:24:45: 26000000 INFO @ Sat, 06 Jul 2019 02:24:49: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:24:49: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:24:49: #1 total tags in treatment: 12622586 INFO @ Sat, 06 Jul 2019 02:24:49: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:24:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:24:50: #1 tags after filtering in treatment: 8674441 INFO @ Sat, 06 Jul 2019 02:24:50: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 06 Jul 2019 02:24:50: #1 finished! INFO @ Sat, 06 Jul 2019 02:24:50: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:24:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:24:50: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:24:50: 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 @ Sat, 06 Jul 2019 02:24:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.10_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/SRX455451/SRX455451.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:24:51: 23000000 INFO @ Sat, 06 Jul 2019 02:24:58: 24000000 INFO @ Sat, 06 Jul 2019 02:25:05: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:25:12: 26000000 INFO @ Sat, 06 Jul 2019 02:25:16: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:25:16: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:25:16: #1 total tags in treatment: 12622586 INFO @ Sat, 06 Jul 2019 02:25:16: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:25:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:25:17: #1 tags after filtering in treatment: 8674441 INFO @ Sat, 06 Jul 2019 02:25:17: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 06 Jul 2019 02:25:17: #1 finished! INFO @ Sat, 06 Jul 2019 02:25:17: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:25:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:25:17: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:25:17: 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 @ Sat, 06 Jul 2019 02:25:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.20_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/SRX455451/SRX455451.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455451/SRX455451.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。