Job ID = 2010580 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 13,634,525 reads read : 27,269,050 reads written : 27,269,050 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: 00:12:27 13634525 reads; of these: 13634525 (100.00%) were paired; of these: 2000431 (14.67%) aligned concordantly 0 times 9631775 (70.64%) aligned concordantly exactly 1 time 2002319 (14.69%) aligned concordantly >1 times ---- 2000431 pairs aligned concordantly 0 times; of these: 147030 (7.35%) aligned discordantly 1 time ---- 1853401 pairs aligned 0 times concordantly or discordantly; of these: 3706802 mates make up the pairs; of these: 3511153 (94.72%) aligned 0 times 94336 (2.54%) aligned exactly 1 time 101313 (2.73%) aligned >1 times 87.12% overall alignment rate Time searching: 00:12:27 Overall time: 00:12:27 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 12 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] 1646241 / 11768734 = 0.1399 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 23:50:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.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 23:50:11: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:50:11: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:50:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.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 23:50:11: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:50:11: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:50:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.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 23:50:12: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:50:12: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:50:18: 1000000 INFO @ Fri, 05 Jul 2019 23:50:19: 1000000 INFO @ Fri, 05 Jul 2019 23:50:21: 1000000 INFO @ Fri, 05 Jul 2019 23:50:25: 2000000 INFO @ Fri, 05 Jul 2019 23:50:27: 2000000 INFO @ Fri, 05 Jul 2019 23:50:29: 2000000 INFO @ Fri, 05 Jul 2019 23:50:32: 3000000 INFO @ Fri, 05 Jul 2019 23:50:34: 3000000 INFO @ Fri, 05 Jul 2019 23:50:38: 3000000 INFO @ Fri, 05 Jul 2019 23:50:38: 4000000 INFO @ Fri, 05 Jul 2019 23:50:42: 4000000 INFO @ Fri, 05 Jul 2019 23:50:45: 5000000 INFO @ Fri, 05 Jul 2019 23:50:47: 4000000 INFO @ Fri, 05 Jul 2019 23:50:49: 5000000 INFO @ Fri, 05 Jul 2019 23:50:51: 6000000 INFO @ Fri, 05 Jul 2019 23:50:55: 5000000 INFO @ Fri, 05 Jul 2019 23:50:56: 6000000 INFO @ Fri, 05 Jul 2019 23:50:58: 7000000 INFO @ Fri, 05 Jul 2019 23:51:04: 6000000 INFO @ Fri, 05 Jul 2019 23:51:04: 7000000 INFO @ Fri, 05 Jul 2019 23:51:05: 8000000 INFO @ Fri, 05 Jul 2019 23:51:11: 9000000 INFO @ Fri, 05 Jul 2019 23:51:11: 8000000 INFO @ Fri, 05 Jul 2019 23:51:12: 7000000 INFO @ Fri, 05 Jul 2019 23:51:18: 10000000 INFO @ Fri, 05 Jul 2019 23:51:19: 9000000 INFO @ Fri, 05 Jul 2019 23:51:20: 8000000 INFO @ Fri, 05 Jul 2019 23:51:24: 11000000 INFO @ Fri, 05 Jul 2019 23:51:26: 10000000 INFO @ Fri, 05 Jul 2019 23:51:29: 9000000 INFO @ Fri, 05 Jul 2019 23:51:31: 12000000 INFO @ Fri, 05 Jul 2019 23:51:33: 11000000 INFO @ Fri, 05 Jul 2019 23:51:37: 13000000 INFO @ Fri, 05 Jul 2019 23:51:37: 10000000 INFO @ Fri, 05 Jul 2019 23:51:41: 12000000 INFO @ Fri, 05 Jul 2019 23:51:44: 14000000 INFO @ Fri, 05 Jul 2019 23:51:46: 11000000 INFO @ Fri, 05 Jul 2019 23:51:48: 13000000 INFO @ Fri, 05 Jul 2019 23:51:50: 15000000 INFO @ Fri, 05 Jul 2019 23:51:54: 12000000 INFO @ Fri, 05 Jul 2019 23:51:55: 14000000 INFO @ Fri, 05 Jul 2019 23:51:57: 16000000 INFO @ Fri, 05 Jul 2019 23:52:02: 15000000 INFO @ Fri, 05 Jul 2019 23:52:03: 13000000 INFO @ Fri, 05 Jul 2019 23:52:03: 17000000 INFO @ Fri, 05 Jul 2019 23:52:10: 18000000 INFO @ Fri, 05 Jul 2019 23:52:10: 16000000 INFO @ Fri, 05 Jul 2019 23:52:11: 14000000 INFO @ Fri, 05 Jul 2019 23:52:16: 19000000 INFO @ Fri, 05 Jul 2019 23:52:17: 17000000 INFO @ Fri, 05 Jul 2019 23:52:18: 15000000 INFO @ Fri, 05 Jul 2019 23:52:23: 20000000 INFO @ Fri, 05 Jul 2019 23:52:24: 18000000 INFO @ Fri, 05 Jul 2019 23:52:25: 16000000 INFO @ Fri, 05 Jul 2019 23:52:26: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:52:26: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:52:26: #1 total tags in treatment: 9998337 INFO @ Fri, 05 Jul 2019 23:52:26: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:52:26: #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 23:52:26: #1 tags after filtering in treatment: 6103744 INFO @ Fri, 05 Jul 2019 23:52:26: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 05 Jul 2019 23:52:26: #1 finished! INFO @ Fri, 05 Jul 2019 23:52:26: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:52:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:52:26: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:52:26: 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 23:52:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.05_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/SRX381281/SRX381281.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:52:32: 19000000 INFO @ Fri, 05 Jul 2019 23:52:33: 17000000 INFO @ Fri, 05 Jul 2019 23:52:39: 20000000 INFO @ Fri, 05 Jul 2019 23:52:40: 18000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 23:52:42: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:52:42: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:52:42: #1 total tags in treatment: 9998337 INFO @ Fri, 05 Jul 2019 23:52:42: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:52:42: #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 23:52:43: #1 tags after filtering in treatment: 6103744 INFO @ Fri, 05 Jul 2019 23:52:43: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 05 Jul 2019 23:52:43: #1 finished! INFO @ Fri, 05 Jul 2019 23:52:43: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:52:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:52:43: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:52:43: 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 23:52:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.10_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/SRX381281/SRX381281.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:52:47: 19000000 INFO @ Fri, 05 Jul 2019 23:52:54: 20000000 INFO @ Fri, 05 Jul 2019 23:52:57: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:52:57: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:52:57: #1 total tags in treatment: 9998337 INFO @ Fri, 05 Jul 2019 23:52:57: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:52:57: #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 23:52:58: #1 tags after filtering in treatment: 6103744 INFO @ Fri, 05 Jul 2019 23:52:58: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 05 Jul 2019 23:52:58: #1 finished! INFO @ Fri, 05 Jul 2019 23:52:58: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:52:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:52:58: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:52:58: 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 23:52:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.20_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/SRX381281/SRX381281.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381281/SRX381281.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling