Job ID = 2011904 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,455,247 reads read : 12,910,494 reads written : 12,910,494 rm: cannot remove ‘[DSE]RR*’: 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: 00:04:04 6455247 reads; of these: 6455247 (100.00%) were paired; of these: 639535 (9.91%) aligned concordantly 0 times 5005358 (77.54%) aligned concordantly exactly 1 time 810354 (12.55%) aligned concordantly >1 times ---- 639535 pairs aligned concordantly 0 times; of these: 298944 (46.74%) aligned discordantly 1 time ---- 340591 pairs aligned 0 times concordantly or discordantly; of these: 681182 mates make up the pairs; of these: 467011 (68.56%) aligned 0 times 102530 (15.05%) aligned exactly 1 time 111641 (16.39%) aligned >1 times 96.38% overall alignment rate Time searching: 00:04:04 Overall time: 00:04:04 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_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] 298283 / 6111501 = 0.0488 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 03:17:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.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 03:17:17: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:17:17: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:17:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.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 03:17:17: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:17:17: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:17:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.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 03:17:19: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:17:19: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:17:24: 1000000 INFO @ Sat, 06 Jul 2019 03:17:26: 1000000 INFO @ Sat, 06 Jul 2019 03:17:26: 1000000 INFO @ Sat, 06 Jul 2019 03:17:31: 2000000 INFO @ Sat, 06 Jul 2019 03:17:33: 2000000 INFO @ Sat, 06 Jul 2019 03:17:35: 2000000 INFO @ Sat, 06 Jul 2019 03:17:39: 3000000 INFO @ Sat, 06 Jul 2019 03:17:41: 3000000 INFO @ Sat, 06 Jul 2019 03:17:44: 3000000 INFO @ Sat, 06 Jul 2019 03:17:47: 4000000 INFO @ Sat, 06 Jul 2019 03:17:48: 4000000 INFO @ Sat, 06 Jul 2019 03:17:53: 4000000 INFO @ Sat, 06 Jul 2019 03:17:54: 5000000 INFO @ Sat, 06 Jul 2019 03:17:55: 5000000 INFO @ Sat, 06 Jul 2019 03:18:01: 6000000 INFO @ Sat, 06 Jul 2019 03:18:02: 5000000 INFO @ Sat, 06 Jul 2019 03:18:03: 6000000 INFO @ Sat, 06 Jul 2019 03:18:09: 7000000 INFO @ Sat, 06 Jul 2019 03:18:10: 7000000 INFO @ Sat, 06 Jul 2019 03:18:11: 6000000 INFO @ Sat, 06 Jul 2019 03:18:16: 8000000 INFO @ Sat, 06 Jul 2019 03:18:17: 8000000 INFO @ Sat, 06 Jul 2019 03:18:20: 7000000 INFO @ Sat, 06 Jul 2019 03:18:24: 9000000 INFO @ Sat, 06 Jul 2019 03:18:25: 9000000 INFO @ Sat, 06 Jul 2019 03:18:29: 8000000 INFO @ Sat, 06 Jul 2019 03:18:31: 10000000 INFO @ Sat, 06 Jul 2019 03:18:32: 10000000 INFO @ Sat, 06 Jul 2019 03:18:38: 9000000 INFO @ Sat, 06 Jul 2019 03:18:39: 11000000 INFO @ Sat, 06 Jul 2019 03:18:39: 11000000 INFO @ Sat, 06 Jul 2019 03:18:45: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 03:18:45: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 03:18:45: #1 total tags in treatment: 5526555 INFO @ Sat, 06 Jul 2019 03:18:45: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:18:45: #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 03:18:45: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 03:18:45: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 03:18:45: #1 total tags in treatment: 5526555 INFO @ Sat, 06 Jul 2019 03:18:45: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:18:45: #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 03:18:45: #1 tags after filtering in treatment: 4506286 INFO @ Sat, 06 Jul 2019 03:18:45: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 06 Jul 2019 03:18:45: #1 finished! INFO @ Sat, 06 Jul 2019 03:18:45: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:18:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:18:45: #1 tags after filtering in treatment: 4506286 INFO @ Sat, 06 Jul 2019 03:18:45: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 06 Jul 2019 03:18:45: #1 finished! INFO @ Sat, 06 Jul 2019 03:18:45: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:18:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:18:46: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 03:18:46: Too few paired peaks (28) 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 03:18:46: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 03:18:46: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 03:18:46: Too few paired peaks (28) 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 03:18:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.05_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/SRX5383677/SRX5383677.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling cut: /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.20_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/SRX5383677/SRX5383677.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:18:47: 10000000 INFO @ Sat, 06 Jul 2019 03:18:55: 11000000 INFO @ Sat, 06 Jul 2019 03:19:02: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 03:19:02: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 03:19:02: #1 total tags in treatment: 5526555 INFO @ Sat, 06 Jul 2019 03:19:02: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:19:02: #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 03:19:02: #1 tags after filtering in treatment: 4506286 INFO @ Sat, 06 Jul 2019 03:19:02: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 06 Jul 2019 03:19:02: #1 finished! INFO @ Sat, 06 Jul 2019 03:19:02: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:19:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:19:03: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 03:19:03: Too few paired peaks (28) 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 03:19:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.10_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/SRX5383677/SRX5383677.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383677/SRX5383677.10_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。