Job ID = 2010723 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,632,588 reads read : 21,265,176 reads written : 21,265,176 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: 00:10:06 10632588 reads; of these: 10632588 (100.00%) were paired; of these: 1639353 (15.42%) aligned concordantly 0 times 7786073 (73.23%) aligned concordantly exactly 1 time 1207162 (11.35%) aligned concordantly >1 times ---- 1639353 pairs aligned concordantly 0 times; of these: 125298 (7.64%) aligned discordantly 1 time ---- 1514055 pairs aligned 0 times concordantly or discordantly; of these: 3028110 mates make up the pairs; of these: 2568869 (84.83%) aligned 0 times 338145 (11.17%) aligned exactly 1 time 121096 (4.00%) aligned >1 times 87.92% overall alignment rate Time searching: 00:10:06 Overall time: 00:10:06 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] 183556 / 9093034 = 0.0202 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 00:38:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.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 00:38:31: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:38:31: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:38:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.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 00:38:32: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:38:32: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:38:43: 1000000 INFO @ Sat, 06 Jul 2019 00:38:44: 1000000 INFO @ Sat, 06 Jul 2019 00:38:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.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 00:38:54: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:38:54: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:38:54: 2000000 INFO @ Sat, 06 Jul 2019 00:38:55: 2000000 INFO @ Sat, 06 Jul 2019 00:39:04: 1000000 INFO @ Sat, 06 Jul 2019 00:39:06: 3000000 INFO @ Sat, 06 Jul 2019 00:39:07: 3000000 INFO @ Sat, 06 Jul 2019 00:39:13: 2000000 INFO @ Sat, 06 Jul 2019 00:39:18: 4000000 INFO @ Sat, 06 Jul 2019 00:39:19: 4000000 INFO @ Sat, 06 Jul 2019 00:39:23: 3000000 INFO @ Sat, 06 Jul 2019 00:39:30: 5000000 INFO @ Sat, 06 Jul 2019 00:39:31: 5000000 INFO @ Sat, 06 Jul 2019 00:39:32: 4000000 INFO @ Sat, 06 Jul 2019 00:39:41: 5000000 INFO @ Sat, 06 Jul 2019 00:39:42: 6000000 INFO @ Sat, 06 Jul 2019 00:39:43: 6000000 INFO @ Sat, 06 Jul 2019 00:39:51: 6000000 INFO @ Sat, 06 Jul 2019 00:39:53: 7000000 INFO @ Sat, 06 Jul 2019 00:39:55: 7000000 INFO @ Sat, 06 Jul 2019 00:40:00: 7000000 INFO @ Sat, 06 Jul 2019 00:40:04: 8000000 INFO @ Sat, 06 Jul 2019 00:40:06: 8000000 INFO @ Sat, 06 Jul 2019 00:40:10: 8000000 INFO @ Sat, 06 Jul 2019 00:40:16: 9000000 INFO @ Sat, 06 Jul 2019 00:40:18: 9000000 INFO @ Sat, 06 Jul 2019 00:40:19: 9000000 INFO @ Sat, 06 Jul 2019 00:40:27: 10000000 INFO @ Sat, 06 Jul 2019 00:40:29: 10000000 INFO @ Sat, 06 Jul 2019 00:40:30: 10000000 INFO @ Sat, 06 Jul 2019 00:40:38: 11000000 INFO @ Sat, 06 Jul 2019 00:40:38: 11000000 INFO @ Sat, 06 Jul 2019 00:40:42: 11000000 INFO @ Sat, 06 Jul 2019 00:40:48: 12000000 INFO @ Sat, 06 Jul 2019 00:40:50: 12000000 INFO @ Sat, 06 Jul 2019 00:40:54: 12000000 INFO @ Sat, 06 Jul 2019 00:40:57: 13000000 INFO @ Sat, 06 Jul 2019 00:41:01: 13000000 INFO @ Sat, 06 Jul 2019 00:41:06: 13000000 INFO @ Sat, 06 Jul 2019 00:41:07: 14000000 INFO @ Sat, 06 Jul 2019 00:41:12: 14000000 INFO @ Sat, 06 Jul 2019 00:41:16: 15000000 INFO @ Sat, 06 Jul 2019 00:41:17: 14000000 INFO @ Sat, 06 Jul 2019 00:41:23: 15000000 INFO @ Sat, 06 Jul 2019 00:41:26: 16000000 INFO @ Sat, 06 Jul 2019 00:41:29: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:41:35: 16000000 INFO @ Sat, 06 Jul 2019 00:41:35: 17000000 INFO @ Sat, 06 Jul 2019 00:41:41: 16000000 INFO @ Sat, 06 Jul 2019 00:41:45: 18000000 INFO @ Sat, 06 Jul 2019 00:41:46: 17000000 INFO @ Sat, 06 Jul 2019 00:41:48: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:41:48: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:41:48: #1 total tags in treatment: 8810616 INFO @ Sat, 06 Jul 2019 00:41:48: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:41:48: #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 00:41:48: #1 tags after filtering in treatment: 6740874 INFO @ Sat, 06 Jul 2019 00:41:48: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 00:41:48: #1 finished! INFO @ Sat, 06 Jul 2019 00:41:48: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:41:48: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 00:41:48: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:41:48: 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 @ Sat, 06 Jul 2019 00:41:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.20_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/SRX386906/SRX386906.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:41:53: 17000000 INFO @ Sat, 06 Jul 2019 00:41:57: 18000000 INFO @ Sat, 06 Jul 2019 00:42:01: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:42:01: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:42:01: #1 total tags in treatment: 8810616 INFO @ Sat, 06 Jul 2019 00:42:01: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:42:01: #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 00:42:01: #1 tags after filtering in treatment: 6740874 INFO @ Sat, 06 Jul 2019 00:42:01: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 00:42:01: #1 finished! INFO @ Sat, 06 Jul 2019 00:42:01: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:42:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:42:02: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:42:02: 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 @ Sat, 06 Jul 2019 00:42:02: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 00:42:05: 18000000 INFO @ Sat, 06 Jul 2019 00:42:08: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:42:08: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:42:08: #1 total tags in treatment: 8810616 INFO @ Sat, 06 Jul 2019 00:42:08: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:42:08: #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 00:42:09: #1 tags after filtering in treatment: 6740874 INFO @ Sat, 06 Jul 2019 00:42:09: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 00:42:09: #1 finished! INFO @ Sat, 06 Jul 2019 00:42:09: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:42:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:42:09: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:42:09: 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 @ Sat, 06 Jul 2019 00:42:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis pass1 - making usageList (0 chroms)needLargeMem: trying to allocate 0 bytes (limit: 17179869184): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386906/SRX386906.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling