Job ID = 2008280 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 20,512,064 reads read : 41,024,128 reads written : 41,024,128 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629048.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: 00:30:55 20512064 reads; of these: 20512064 (100.00%) were paired; of these: 2145780 (10.46%) aligned concordantly 0 times 15876122 (77.40%) aligned concordantly exactly 1 time 2490162 (12.14%) aligned concordantly >1 times ---- 2145780 pairs aligned concordantly 0 times; of these: 552940 (25.77%) aligned discordantly 1 time ---- 1592840 pairs aligned 0 times concordantly or discordantly; of these: 3185680 mates make up the pairs; of these: 2893542 (90.83%) aligned 0 times 116378 (3.65%) aligned exactly 1 time 175760 (5.52%) aligned >1 times 92.95% overall alignment rate Time searching: 00:30:55 Overall time: 00:30:55 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] 4641864 / 18805985 = 0.2468 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 19:24:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.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 19:24:53: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:24:53: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:24:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.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 19:24:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:24:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:25:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.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 19:25:14: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:25:14: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:25:22: 1000000 INFO @ Fri, 05 Jul 2019 19:25:22: 1000000 INFO @ Fri, 05 Jul 2019 19:25:24: 1000000 INFO @ Fri, 05 Jul 2019 19:25:32: 2000000 INFO @ Fri, 05 Jul 2019 19:25:32: 2000000 INFO @ Fri, 05 Jul 2019 19:25:33: 2000000 INFO @ Fri, 05 Jul 2019 19:25:42: 3000000 INFO @ Fri, 05 Jul 2019 19:25:42: 3000000 INFO @ Fri, 05 Jul 2019 19:25:43: 3000000 INFO @ Fri, 05 Jul 2019 19:25:53: 4000000 INFO @ Fri, 05 Jul 2019 19:25:53: 4000000 INFO @ Fri, 05 Jul 2019 19:25:53: 4000000 INFO @ Fri, 05 Jul 2019 19:26:03: 5000000 INFO @ Fri, 05 Jul 2019 19:26:04: 5000000 INFO @ Fri, 05 Jul 2019 19:26:04: 5000000 INFO @ Fri, 05 Jul 2019 19:26:12: 6000000 INFO @ Fri, 05 Jul 2019 19:26:14: 6000000 INFO @ Fri, 05 Jul 2019 19:26:15: 6000000 INFO @ Fri, 05 Jul 2019 19:26:21: 7000000 INFO @ Fri, 05 Jul 2019 19:26:23: 7000000 INFO @ Fri, 05 Jul 2019 19:26:25: 7000000 INFO @ Fri, 05 Jul 2019 19:26:31: 8000000 INFO @ Fri, 05 Jul 2019 19:26:33: 8000000 INFO @ Fri, 05 Jul 2019 19:26:35: 8000000 INFO @ Fri, 05 Jul 2019 19:26:41: 9000000 INFO @ Fri, 05 Jul 2019 19:26:43: 9000000 INFO @ Fri, 05 Jul 2019 19:26:45: 9000000 INFO @ Fri, 05 Jul 2019 19:26:51: 10000000 INFO @ Fri, 05 Jul 2019 19:26:54: 10000000 INFO @ Fri, 05 Jul 2019 19:26:54: 10000000 INFO @ Fri, 05 Jul 2019 19:27:01: 11000000 INFO @ Fri, 05 Jul 2019 19:27:04: 11000000 INFO @ Fri, 05 Jul 2019 19:27:05: 11000000 INFO @ Fri, 05 Jul 2019 19:27:12: 12000000 INFO @ Fri, 05 Jul 2019 19:27:13: 12000000 INFO @ Fri, 05 Jul 2019 19:27:15: 12000000 INFO @ Fri, 05 Jul 2019 19:27:22: 13000000 INFO @ Fri, 05 Jul 2019 19:27:23: 13000000 INFO @ Fri, 05 Jul 2019 19:27:26: 13000000 INFO @ Fri, 05 Jul 2019 19:27:32: 14000000 INFO @ Fri, 05 Jul 2019 19:27:33: 14000000 INFO @ Fri, 05 Jul 2019 19:27:36: 14000000 INFO @ Fri, 05 Jul 2019 19:27:41: 15000000 INFO @ Fri, 05 Jul 2019 19:27:43: 15000000 INFO @ Fri, 05 Jul 2019 19:27:47: 15000000 INFO @ Fri, 05 Jul 2019 19:27:50: 16000000 INFO @ Fri, 05 Jul 2019 19:27:53: 16000000 INFO @ Fri, 05 Jul 2019 19:27:57: 16000000 INFO @ Fri, 05 Jul 2019 19:27:59: 17000000 INFO @ Fri, 05 Jul 2019 19:28:03: 17000000 INFO @ Fri, 05 Jul 2019 19:28:08: 18000000 INFO @ Fri, 05 Jul 2019 19:28:08: 17000000 INFO @ Fri, 05 Jul 2019 19:28:13: 18000000 INFO @ Fri, 05 Jul 2019 19:28:16: 19000000 INFO @ Fri, 05 Jul 2019 19:28:18: 18000000 INFO @ Fri, 05 Jul 2019 19:28:22: 19000000 INFO @ Fri, 05 Jul 2019 19:28:25: 20000000 INFO @ Fri, 05 Jul 2019 19:28:28: 19000000 INFO @ Fri, 05 Jul 2019 19:28:32: 20000000 INFO @ Fri, 05 Jul 2019 19:28:33: 21000000 INFO @ Fri, 05 Jul 2019 19:28:38: 20000000 INFO @ Fri, 05 Jul 2019 19:28:42: 22000000 INFO @ Fri, 05 Jul 2019 19:28:42: 21000000 INFO @ Fri, 05 Jul 2019 19:28:48: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 19:28:50: 23000000 INFO @ Fri, 05 Jul 2019 19:28:51: 22000000 INFO @ Fri, 05 Jul 2019 19:28:58: 22000000 INFO @ Fri, 05 Jul 2019 19:28:59: 24000000 INFO @ Fri, 05 Jul 2019 19:29:01: 23000000 INFO @ Fri, 05 Jul 2019 19:29:08: 25000000 INFO @ Fri, 05 Jul 2019 19:29:08: 23000000 INFO @ Fri, 05 Jul 2019 19:29:11: 24000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 19:29:17: 26000000 INFO @ Fri, 05 Jul 2019 19:29:18: 24000000 INFO @ Fri, 05 Jul 2019 19:29:20: 25000000 INFO @ Fri, 05 Jul 2019 19:29:26: 27000000 INFO @ Fri, 05 Jul 2019 19:29:28: 25000000 INFO @ Fri, 05 Jul 2019 19:29:30: 26000000 INFO @ Fri, 05 Jul 2019 19:29:35: 28000000 INFO @ Fri, 05 Jul 2019 19:29:38: 26000000 INFO @ Fri, 05 Jul 2019 19:29:40: 27000000 INFO @ Fri, 05 Jul 2019 19:29:42: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:29:42: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:29:42: #1 total tags in treatment: 13758927 INFO @ Fri, 05 Jul 2019 19:29:42: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:29:42: #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 19:29:42: #1 tags after filtering in treatment: 6099527 INFO @ Fri, 05 Jul 2019 19:29:42: #1 Redundant rate of treatment: 0.56 INFO @ Fri, 05 Jul 2019 19:29:42: #1 finished! INFO @ Fri, 05 Jul 2019 19:29:42: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:29:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:29:43: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:29:43: 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 19:29:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.10_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/ERX585801/ERX585801.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:29:48: 27000000 INFO @ Fri, 05 Jul 2019 19:29:50: 28000000 INFO @ Fri, 05 Jul 2019 19:29:57: 28000000 INFO @ Fri, 05 Jul 2019 19:29:58: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:29:58: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:29:58: #1 total tags in treatment: 13758927 INFO @ Fri, 05 Jul 2019 19:29:58: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:29:58: #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 19:29:58: #1 tags after filtering in treatment: 6099527 INFO @ Fri, 05 Jul 2019 19:29:58: #1 Redundant rate of treatment: 0.56 INFO @ Fri, 05 Jul 2019 19:29:58: #1 finished! INFO @ Fri, 05 Jul 2019 19:29:58: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:29:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:29:59: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:29:59: 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 19:29:59: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:30:04: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:30:04: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:30:04: #1 total tags in treatment: 13758927 INFO @ Fri, 05 Jul 2019 19:30:04: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:30:04: #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 19:30:04: #1 tags after filtering in treatment: 6099527 INFO @ Fri, 05 Jul 2019 19:30:04: #1 Redundant rate of treatment: 0.56 INFO @ Fri, 05 Jul 2019 19:30:04: #1 finished! INFO @ Fri, 05 Jul 2019 19:30:04: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:30:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:30:05: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:30:05: 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 19:30:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.20_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585801/ERX585801.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling