Job ID = 2010733 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,755,480 reads read : 13,510,960 reads written : 13,510,960 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: 00:06:24 6755480 reads; of these: 6755480 (100.00%) were paired; of these: 992948 (14.70%) aligned concordantly 0 times 5134882 (76.01%) aligned concordantly exactly 1 time 627650 (9.29%) aligned concordantly >1 times ---- 992948 pairs aligned concordantly 0 times; of these: 91343 (9.20%) aligned discordantly 1 time ---- 901605 pairs aligned 0 times concordantly or discordantly; of these: 1803210 mates make up the pairs; of these: 1589614 (88.15%) aligned 0 times 146688 (8.13%) aligned exactly 1 time 66908 (3.71%) aligned >1 times 88.23% overall alignment rate Time searching: 00:06:24 Overall time: 00:06:24 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] 67626 / 5836272 = 0.0116 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 00:29:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.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 00:29:22: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:29:22: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:29:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.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 00:29:23: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:29:23: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:29:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.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 00:29:24: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:29:24: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:29:30: 1000000 INFO @ Sat, 06 Jul 2019 00:29:31: 1000000 INFO @ Sat, 06 Jul 2019 00:29:32: 1000000 INFO @ Sat, 06 Jul 2019 00:29:38: 2000000 INFO @ Sat, 06 Jul 2019 00:29:38: 2000000 INFO @ Sat, 06 Jul 2019 00:29:41: 2000000 INFO @ Sat, 06 Jul 2019 00:29:45: 3000000 INFO @ Sat, 06 Jul 2019 00:29:45: 3000000 INFO @ Sat, 06 Jul 2019 00:29:50: 3000000 INFO @ Sat, 06 Jul 2019 00:29:53: 4000000 INFO @ Sat, 06 Jul 2019 00:29:54: 4000000 INFO @ Sat, 06 Jul 2019 00:29:59: 4000000 INFO @ Sat, 06 Jul 2019 00:30:00: 5000000 INFO @ Sat, 06 Jul 2019 00:30:02: 5000000 INFO @ Sat, 06 Jul 2019 00:30:08: 5000000 INFO @ Sat, 06 Jul 2019 00:30:09: 6000000 INFO @ Sat, 06 Jul 2019 00:30:10: 6000000 INFO @ Sat, 06 Jul 2019 00:30:16: 6000000 INFO @ Sat, 06 Jul 2019 00:30:17: 7000000 INFO @ Sat, 06 Jul 2019 00:30:19: 7000000 INFO @ Sat, 06 Jul 2019 00:30:24: 7000000 INFO @ Sat, 06 Jul 2019 00:30:26: 8000000 INFO @ Sat, 06 Jul 2019 00:30:28: 8000000 INFO @ Sat, 06 Jul 2019 00:30:32: 8000000 INFO @ Sat, 06 Jul 2019 00:30:35: 9000000 INFO @ Sat, 06 Jul 2019 00:30:37: 9000000 INFO @ Sat, 06 Jul 2019 00:30:40: 9000000 INFO @ Sat, 06 Jul 2019 00:30:44: 10000000 INFO @ Sat, 06 Jul 2019 00:30:46: 10000000 INFO @ Sat, 06 Jul 2019 00:30:48: 10000000 INFO @ Sat, 06 Jul 2019 00:30:53: 11000000 INFO @ Sat, 06 Jul 2019 00:30:55: 11000000 INFO @ Sat, 06 Jul 2019 00:30:56: 11000000 INFO @ Sat, 06 Jul 2019 00:30:59: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:30:59: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:30:59: #1 total tags in treatment: 5695463 INFO @ Sat, 06 Jul 2019 00:30:59: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:30:59: #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 00:31:00: #1 tags after filtering in treatment: 4680323 INFO @ Sat, 06 Jul 2019 00:31:00: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 06 Jul 2019 00:31:00: #1 finished! INFO @ Sat, 06 Jul 2019 00:31:00: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:31:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:31:00: #2 number of paired peaks: 26 WARNING @ Sat, 06 Jul 2019 00:31:00: Too few paired peaks (26) 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 00:31:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.10_peaks.narrowPeak: No such file or directory INFO @ Sat, 06 Jul 2019 00:31:02: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:31:02: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:31:02: #1 total tags in treatment: 5695463 INFO @ Sat, 06 Jul 2019 00:31:02: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:31:02: #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 00:31:02: #1 tags after filtering in treatment: 4680323 INFO @ Sat, 06 Jul 2019 00:31:02: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 06 Jul 2019 00:31:02: #1 finished! INFO @ Sat, 06 Jul 2019 00:31:02: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:31:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:31:02: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:31:02: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:31:02: #1 total tags in treatment: 5695463 INFO @ Sat, 06 Jul 2019 00:31:02: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:31:02: #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 00:31:02: #1 tags after filtering in treatment: 4680323 INFO @ Sat, 06 Jul 2019 00:31:02: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 06 Jul 2019 00:31:02: #1 finished! INFO @ Sat, 06 Jul 2019 00:31:02: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:31:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:31:02: #2 number of paired peaks: 26 WARNING @ Sat, 06 Jul 2019 00:31:02: Too few paired peaks (26) 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 00:31:02: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 00:31:02: #2 number of paired peaks: 26 WARNING @ Sat, 06 Jul 2019 00:31:02: Too few paired peaks (26) 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 00:31:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.05_peaks.narrowPeak: No such file or directorycut: /home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.20_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/SRX386914/SRX386914.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386914/SRX386914.20_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。