Job ID = 2009743 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,628,594 reads read : 17,257,188 reads written : 17,257,188 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: 00:07:17 8628594 reads; of these: 8628594 (100.00%) were paired; of these: 703135 (8.15%) aligned concordantly 0 times 6979508 (80.89%) aligned concordantly exactly 1 time 945951 (10.96%) aligned concordantly >1 times ---- 703135 pairs aligned concordantly 0 times; of these: 294840 (41.93%) aligned discordantly 1 time ---- 408295 pairs aligned 0 times concordantly or discordantly; of these: 816590 mates make up the pairs; of these: 517617 (63.39%) aligned 0 times 174152 (21.33%) aligned exactly 1 time 124821 (15.29%) aligned >1 times 97.00% overall alignment rate Time searching: 00:07:17 Overall time: 00:07:17 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] 582617 / 8057970 = 0.0723 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 20:06:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.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 20:06:49: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:06:49: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:06:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.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 20:06:50: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:06:50: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:06:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.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 20:06:51: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:06:51: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:06:58: 1000000 INFO @ Fri, 05 Jul 2019 20:06:59: 1000000 INFO @ Fri, 05 Jul 2019 20:06:59: 1000000 INFO @ Fri, 05 Jul 2019 20:07:06: 2000000 INFO @ Fri, 05 Jul 2019 20:07:07: 2000000 INFO @ Fri, 05 Jul 2019 20:07:08: 2000000 INFO @ Fri, 05 Jul 2019 20:07:12: 3000000 INFO @ Fri, 05 Jul 2019 20:07:16: 3000000 INFO @ Fri, 05 Jul 2019 20:07:17: 3000000 INFO @ Fri, 05 Jul 2019 20:07:19: 4000000 INFO @ Fri, 05 Jul 2019 20:07:26: 4000000 INFO @ Fri, 05 Jul 2019 20:07:26: 5000000 INFO @ Fri, 05 Jul 2019 20:07:26: 4000000 INFO @ Fri, 05 Jul 2019 20:07:33: 6000000 INFO @ Fri, 05 Jul 2019 20:07:35: 5000000 INFO @ Fri, 05 Jul 2019 20:07:35: 5000000 INFO @ Fri, 05 Jul 2019 20:07:39: 7000000 INFO @ Fri, 05 Jul 2019 20:07:45: 6000000 INFO @ Fri, 05 Jul 2019 20:07:45: 6000000 INFO @ Fri, 05 Jul 2019 20:07:46: 8000000 INFO @ Fri, 05 Jul 2019 20:07:53: 9000000 INFO @ Fri, 05 Jul 2019 20:07:54: 7000000 INFO @ Fri, 05 Jul 2019 20:07:55: 7000000 INFO @ Fri, 05 Jul 2019 20:07:59: 10000000 INFO @ Fri, 05 Jul 2019 20:08:03: 8000000 INFO @ Fri, 05 Jul 2019 20:08:04: 8000000 INFO @ Fri, 05 Jul 2019 20:08:06: 11000000 INFO @ Fri, 05 Jul 2019 20:08:12: 9000000 INFO @ Fri, 05 Jul 2019 20:08:13: 12000000 INFO @ Fri, 05 Jul 2019 20:08:14: 9000000 INFO @ Fri, 05 Jul 2019 20:08:20: 13000000 INFO @ Fri, 05 Jul 2019 20:08:20: 10000000 INFO @ Fri, 05 Jul 2019 20:08:23: 10000000 INFO @ Fri, 05 Jul 2019 20:08:26: 14000000 INFO @ Fri, 05 Jul 2019 20:08:29: 11000000 INFO @ Fri, 05 Jul 2019 20:08:32: 11000000 INFO @ Fri, 05 Jul 2019 20:08:33: 15000000 INFO @ Fri, 05 Jul 2019 20:08:37: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:08:37: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:08:37: #1 total tags in treatment: 7352406 INFO @ Fri, 05 Jul 2019 20:08:37: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:08:37: #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 20:08:37: #1 tags after filtering in treatment: 5692494 INFO @ Fri, 05 Jul 2019 20:08:37: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 05 Jul 2019 20:08:37: #1 finished! INFO @ Fri, 05 Jul 2019 20:08:37: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:08:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:08:37: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:08:37: 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 20:08:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.20_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/SRX1462592/SRX1462592.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:08:38: 12000000 INFO @ Fri, 05 Jul 2019 20:08:41: 12000000 INFO @ Fri, 05 Jul 2019 20:08:47: 13000000 INFO @ Fri, 05 Jul 2019 20:08:50: 13000000 INFO @ Fri, 05 Jul 2019 20:08:55: 14000000 INFO @ Fri, 05 Jul 2019 20:08:58: 14000000 INFO @ Fri, 05 Jul 2019 20:09:04: 15000000 INFO @ Fri, 05 Jul 2019 20:09:07: 15000000 INFO @ Fri, 05 Jul 2019 20:09:09: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:09:09: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:09:09: #1 total tags in treatment: 7352406 INFO @ Fri, 05 Jul 2019 20:09:09: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:09:09: #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 20:09:09: #1 tags after filtering in treatment: 5692494 INFO @ Fri, 05 Jul 2019 20:09:09: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 05 Jul 2019 20:09:09: #1 finished! INFO @ Fri, 05 Jul 2019 20:09:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:09:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:09:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:09:09: 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 20:09:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.05_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/SRX1462592/SRX1462592.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:09:12: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:09:12: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:09:12: #1 total tags in treatment: 7352406 INFO @ Fri, 05 Jul 2019 20:09:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:09:12: #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 20:09:12: #1 tags after filtering in treatment: 5692494 INFO @ Fri, 05 Jul 2019 20:09:12: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 05 Jul 2019 20:09:12: #1 finished! INFO @ Fri, 05 Jul 2019 20:09:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:09:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:09:12: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:09:12: 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 20:09:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.10_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/SRX1462592/SRX1462592.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462592/SRX1462592.10_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。