Job ID = 2010573 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,972,165 reads read : 13,944,330 reads written : 13,944,330 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: 00:06:00 6972165 reads; of these: 6972165 (100.00%) were paired; of these: 784878 (11.26%) aligned concordantly 0 times 4900838 (70.29%) aligned concordantly exactly 1 time 1286449 (18.45%) aligned concordantly >1 times ---- 784878 pairs aligned concordantly 0 times; of these: 356903 (45.47%) aligned discordantly 1 time ---- 427975 pairs aligned 0 times concordantly or discordantly; of these: 855950 mates make up the pairs; of these: 532448 (62.21%) aligned 0 times 130207 (15.21%) aligned exactly 1 time 193295 (22.58%) aligned >1 times 96.18% overall alignment rate Time searching: 00:06:00 Overall time: 00:06:00 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] 128278 / 6465902 = 0.0198 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 23:32:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.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 23:32:05: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:32:05: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:32:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.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 23:32:06: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:32:06: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:32:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.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 23:32:07: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:32:07: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:32:13: 1000000 INFO @ Fri, 05 Jul 2019 23:32:15: 1000000 INFO @ Fri, 05 Jul 2019 23:32:16: 1000000 INFO @ Fri, 05 Jul 2019 23:32:21: 2000000 INFO @ Fri, 05 Jul 2019 23:32:22: 2000000 INFO @ Fri, 05 Jul 2019 23:32:26: 2000000 INFO @ Fri, 05 Jul 2019 23:32:28: 3000000 INFO @ Fri, 05 Jul 2019 23:32:30: 3000000 INFO @ Fri, 05 Jul 2019 23:32:36: 4000000 INFO @ Fri, 05 Jul 2019 23:32:36: 3000000 INFO @ Fri, 05 Jul 2019 23:32:38: 4000000 INFO @ Fri, 05 Jul 2019 23:32:43: 5000000 INFO @ Fri, 05 Jul 2019 23:32:45: 4000000 INFO @ Fri, 05 Jul 2019 23:32:45: 5000000 INFO @ Fri, 05 Jul 2019 23:32:51: 6000000 INFO @ Fri, 05 Jul 2019 23:32:53: 6000000 INFO @ Fri, 05 Jul 2019 23:32:55: 5000000 INFO @ Fri, 05 Jul 2019 23:32:58: 7000000 INFO @ Fri, 05 Jul 2019 23:33:01: 7000000 INFO @ Fri, 05 Jul 2019 23:33:04: 6000000 INFO @ Fri, 05 Jul 2019 23:33:06: 8000000 INFO @ Fri, 05 Jul 2019 23:33:09: 8000000 INFO @ Fri, 05 Jul 2019 23:33:13: 9000000 INFO @ Fri, 05 Jul 2019 23:33:14: 7000000 INFO @ Fri, 05 Jul 2019 23:33:17: 9000000 INFO @ Fri, 05 Jul 2019 23:33:21: 10000000 INFO @ Fri, 05 Jul 2019 23:33:23: 8000000 INFO @ Fri, 05 Jul 2019 23:33:25: 10000000 INFO @ Fri, 05 Jul 2019 23:33:28: 11000000 INFO @ Fri, 05 Jul 2019 23:33:32: 9000000 INFO @ Fri, 05 Jul 2019 23:33:33: 11000000 INFO @ Fri, 05 Jul 2019 23:33:36: 12000000 INFO @ Fri, 05 Jul 2019 23:33:41: 12000000 INFO @ Fri, 05 Jul 2019 23:33:41: 10000000 INFO @ Fri, 05 Jul 2019 23:33:44: 13000000 INFO @ Fri, 05 Jul 2019 23:33:45: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:33:45: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:33:45: #1 total tags in treatment: 6059591 INFO @ Fri, 05 Jul 2019 23:33:45: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:33:45: #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 23:33:45: #1 tags after filtering in treatment: 4444043 INFO @ Fri, 05 Jul 2019 23:33:45: #1 Redundant rate of treatment: 0.27 INFO @ Fri, 05 Jul 2019 23:33:45: #1 finished! INFO @ Fri, 05 Jul 2019 23:33:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:33:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:33:46: #2 number of paired peaks: 52 WARNING @ Fri, 05 Jul 2019 23:33:46: Too few paired peaks (52) 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 23:33:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.05_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/SRX381274/SRX381274.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:33:49: 13000000 INFO @ Fri, 05 Jul 2019 23:33:50: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:33:50: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:33:50: #1 total tags in treatment: 6059591 INFO @ Fri, 05 Jul 2019 23:33:50: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:33:50: #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 23:33:50: #1 tags after filtering in treatment: 4444043 INFO @ Fri, 05 Jul 2019 23:33:50: #1 Redundant rate of treatment: 0.27 INFO @ Fri, 05 Jul 2019 23:33:50: #1 finished! INFO @ Fri, 05 Jul 2019 23:33:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:33:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:33:51: #2 number of paired peaks: 52 WARNING @ Fri, 05 Jul 2019 23:33:51: Too few paired peaks (52) 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 23:33:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.10_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/SRX381274/SRX381274.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:33:51: 11000000 INFO @ Fri, 05 Jul 2019 23:34:00: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:34:09: 13000000 INFO @ Fri, 05 Jul 2019 23:34:10: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:34:10: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:34:10: #1 total tags in treatment: 6059591 INFO @ Fri, 05 Jul 2019 23:34:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:34:10: #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 23:34:11: #1 tags after filtering in treatment: 4444043 INFO @ Fri, 05 Jul 2019 23:34:11: #1 Redundant rate of treatment: 0.27 INFO @ Fri, 05 Jul 2019 23:34:11: #1 finished! INFO @ Fri, 05 Jul 2019 23:34:11: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:34:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:34:11: #2 number of paired peaks: 52 WARNING @ Fri, 05 Jul 2019 23:34:11: Too few paired peaks (52) 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 23:34:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.20_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/SRX381274/SRX381274.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381274/SRX381274.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。