Job ID = 2008252 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,364,791 reads read : 16,729,582 reads written : 16,729,582 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629030.sra.cache’: 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: 00:09:21 8364791 reads; of these: 8364791 (100.00%) were paired; of these: 1055408 (12.62%) aligned concordantly 0 times 6834185 (81.70%) aligned concordantly exactly 1 time 475198 (5.68%) aligned concordantly >1 times ---- 1055408 pairs aligned concordantly 0 times; of these: 338769 (32.10%) aligned discordantly 1 time ---- 716639 pairs aligned 0 times concordantly or discordantly; of these: 1433278 mates make up the pairs; of these: 1200039 (83.73%) aligned 0 times 177162 (12.36%) aligned exactly 1 time 56077 (3.91%) aligned >1 times 92.83% overall alignment rate Time searching: 00:09:21 Overall time: 00:09:21 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 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] 1194241 / 7607824 = 0.1570 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 18:29:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.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 18:29:47: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:29:47: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:29:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.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 18:29:48: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:29:48: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:29:57: 1000000 INFO @ Fri, 05 Jul 2019 18:29:58: 1000000 INFO @ Fri, 05 Jul 2019 18:30:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.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 18:30:01: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:30:01: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:30:07: 2000000 INFO @ Fri, 05 Jul 2019 18:30:08: 2000000 INFO @ Fri, 05 Jul 2019 18:30:10: 1000000 INFO @ Fri, 05 Jul 2019 18:30:17: 3000000 INFO @ Fri, 05 Jul 2019 18:30:18: 3000000 INFO @ Fri, 05 Jul 2019 18:30:18: 2000000 INFO @ Fri, 05 Jul 2019 18:30:26: 3000000 INFO @ Fri, 05 Jul 2019 18:30:26: 4000000 INFO @ Fri, 05 Jul 2019 18:30:28: 4000000 INFO @ Fri, 05 Jul 2019 18:30:35: 4000000 INFO @ Fri, 05 Jul 2019 18:30:36: 5000000 INFO @ Fri, 05 Jul 2019 18:30:37: 5000000 INFO @ Fri, 05 Jul 2019 18:30:43: 5000000 INFO @ Fri, 05 Jul 2019 18:30:46: 6000000 INFO @ Fri, 05 Jul 2019 18:30:47: 6000000 INFO @ Fri, 05 Jul 2019 18:30:51: 6000000 INFO @ Fri, 05 Jul 2019 18:30:55: 7000000 INFO @ Fri, 05 Jul 2019 18:30:57: 7000000 INFO @ Fri, 05 Jul 2019 18:31:00: 7000000 INFO @ Fri, 05 Jul 2019 18:31:05: 8000000 INFO @ Fri, 05 Jul 2019 18:31:07: 8000000 INFO @ Fri, 05 Jul 2019 18:31:08: 8000000 INFO @ Fri, 05 Jul 2019 18:31:14: 9000000 INFO @ Fri, 05 Jul 2019 18:31:16: 9000000 INFO @ Fri, 05 Jul 2019 18:31:16: 9000000 INFO @ Fri, 05 Jul 2019 18:31:24: 10000000 INFO @ Fri, 05 Jul 2019 18:31:25: 10000000 INFO @ Fri, 05 Jul 2019 18:31:26: 10000000 INFO @ Fri, 05 Jul 2019 18:31:33: 11000000 INFO @ Fri, 05 Jul 2019 18:31:34: 11000000 INFO @ Fri, 05 Jul 2019 18:31:36: 11000000 INFO @ Fri, 05 Jul 2019 18:31:42: 12000000 INFO @ Fri, 05 Jul 2019 18:31:44: 12000000 INFO @ Fri, 05 Jul 2019 18:31:46: 12000000 INFO @ Fri, 05 Jul 2019 18:31:50: 13000000 INFO @ Fri, 05 Jul 2019 18:31:51: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:31:51: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:31:51: #1 total tags in treatment: 6132699 INFO @ Fri, 05 Jul 2019 18:31:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:31:51: #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 18:31:51: #1 tags after filtering in treatment: 3481304 INFO @ Fri, 05 Jul 2019 18:31:51: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:31:51: #1 finished! INFO @ Fri, 05 Jul 2019 18:31:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:31:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:31:52: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:31:52: 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 18:31:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.20_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/ERX585776/ERX585776.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:31:53: 13000000 INFO @ Fri, 05 Jul 2019 18:31:55: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:31:55: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:31:55: #1 total tags in treatment: 6132699 INFO @ Fri, 05 Jul 2019 18:31:55: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:31:55: #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 18:31:55: #1 tags after filtering in treatment: 3481304 INFO @ Fri, 05 Jul 2019 18:31:55: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:31:55: #1 finished! INFO @ Fri, 05 Jul 2019 18:31:55: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:31:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:31:55: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:31:55: 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 18:31:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.05_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 18:31:55: 13000000 INFO @ Fri, 05 Jul 2019 18:31:57: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:31:57: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:31:57: #1 total tags in treatment: 6132699 INFO @ Fri, 05 Jul 2019 18:31:57: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:31:57: #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 18:31:57: #1 tags after filtering in treatment: 3481304 INFO @ Fri, 05 Jul 2019 18:31:57: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:31:57: #1 finished! INFO @ Fri, 05 Jul 2019 18:31:57: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:31:57: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 981 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.05_*.xls’: No such file or directory INFO @ Fri, 05 Jul 2019 18:31:57: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:31:57: 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 18:31:57: Process for pairing-model is terminated! rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling cut: /home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.10_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/ERX585776/ERX585776.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585776/ERX585776.10_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。