Job ID = 2010722 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,251,750 reads read : 22,503,500 reads written : 22,503,500 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: 00:10:30 11251750 reads; of these: 11251750 (100.00%) were paired; of these: 1601631 (14.23%) aligned concordantly 0 times 8335668 (74.08%) aligned concordantly exactly 1 time 1314451 (11.68%) aligned concordantly >1 times ---- 1601631 pairs aligned concordantly 0 times; of these: 124174 (7.75%) aligned discordantly 1 time ---- 1477457 pairs aligned 0 times concordantly or discordantly; of these: 2954914 mates make up the pairs; of these: 2503893 (84.74%) aligned 0 times 325311 (11.01%) aligned exactly 1 time 125710 (4.25%) aligned >1 times 88.87% overall alignment rate Time searching: 00:10:30 Overall time: 00:10:30 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] 203353 / 9748513 = 0.0209 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 00:41:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.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 00:41:31: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:41:31: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:41:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.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 00:41:32: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:41:32: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:41:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.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 00:41:33: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:41:33: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:41:41: 1000000 INFO @ Sat, 06 Jul 2019 00:41:42: 1000000 INFO @ Sat, 06 Jul 2019 00:41:44: 1000000 INFO @ Sat, 06 Jul 2019 00:41:49: 2000000 INFO @ Sat, 06 Jul 2019 00:41:52: 2000000 INFO @ Sat, 06 Jul 2019 00:41:54: 2000000 INFO @ Sat, 06 Jul 2019 00:41:58: 3000000 INFO @ Sat, 06 Jul 2019 00:42:02: 3000000 INFO @ Sat, 06 Jul 2019 00:42:04: 3000000 INFO @ Sat, 06 Jul 2019 00:42:06: 4000000 INFO @ Sat, 06 Jul 2019 00:42:12: 4000000 INFO @ Sat, 06 Jul 2019 00:42:14: 4000000 INFO @ Sat, 06 Jul 2019 00:42:14: 5000000 INFO @ Sat, 06 Jul 2019 00:42:22: 5000000 INFO @ Sat, 06 Jul 2019 00:42:23: 6000000 INFO @ Sat, 06 Jul 2019 00:42:25: 5000000 INFO @ Sat, 06 Jul 2019 00:42:31: 7000000 INFO @ Sat, 06 Jul 2019 00:42:32: 6000000 INFO @ Sat, 06 Jul 2019 00:42:35: 6000000 INFO @ Sat, 06 Jul 2019 00:42:40: 8000000 INFO @ Sat, 06 Jul 2019 00:42:43: 7000000 INFO @ Sat, 06 Jul 2019 00:42:45: 7000000 INFO @ Sat, 06 Jul 2019 00:42:48: 9000000 INFO @ Sat, 06 Jul 2019 00:42:53: 8000000 INFO @ Sat, 06 Jul 2019 00:42:55: 8000000 INFO @ Sat, 06 Jul 2019 00:42:57: 10000000 INFO @ Sat, 06 Jul 2019 00:43:03: 9000000 INFO @ Sat, 06 Jul 2019 00:43:05: 11000000 INFO @ Sat, 06 Jul 2019 00:43:05: 9000000 INFO @ Sat, 06 Jul 2019 00:43:13: 10000000 INFO @ Sat, 06 Jul 2019 00:43:13: 12000000 INFO @ Sat, 06 Jul 2019 00:43:15: 10000000 INFO @ Sat, 06 Jul 2019 00:43:22: 13000000 INFO @ Sat, 06 Jul 2019 00:43:23: 11000000 INFO @ Sat, 06 Jul 2019 00:43:25: 11000000 INFO @ Sat, 06 Jul 2019 00:43:30: 14000000 INFO @ Sat, 06 Jul 2019 00:43:33: 12000000 INFO @ Sat, 06 Jul 2019 00:43:36: 12000000 INFO @ Sat, 06 Jul 2019 00:43:38: 15000000 INFO @ Sat, 06 Jul 2019 00:43:44: 13000000 INFO @ Sat, 06 Jul 2019 00:43:46: 13000000 INFO @ Sat, 06 Jul 2019 00:43:46: 16000000 INFO @ Sat, 06 Jul 2019 00:43:54: 14000000 INFO @ Sat, 06 Jul 2019 00:43:55: 17000000 INFO @ Sat, 06 Jul 2019 00:43:56: 14000000 INFO @ Sat, 06 Jul 2019 00:44:03: 18000000 INFO @ Sat, 06 Jul 2019 00:44:04: 15000000 INFO @ Sat, 06 Jul 2019 00:44:06: 15000000 INFO @ Sat, 06 Jul 2019 00:44:12: 19000000 INFO @ Sat, 06 Jul 2019 00:44:14: 16000000 INFO @ Sat, 06 Jul 2019 00:44:16: 16000000 BedGraph に変換しました。 INFO @ Sat, 06 Jul 2019 00:44:17: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:44:17: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:44:17: #1 total tags in treatment: 9447663 INFO @ Sat, 06 Jul 2019 00:44:17: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:44:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:44:17: #1 tags after filtering in treatment: 7149788 INFO @ Sat, 06 Jul 2019 00:44:17: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 06 Jul 2019 00:44:17: #1 finished! INFO @ Sat, 06 Jul 2019 00:44:17: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:44:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:44:17: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:44:17: 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 00:44:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.10_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/SRX386905/SRX386905.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:44:24: 17000000 INFO @ Sat, 06 Jul 2019 00:44:27: 17000000 INFO @ Sat, 06 Jul 2019 00:44:34: 18000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 00:44:36: 18000000 INFO @ Sat, 06 Jul 2019 00:44:44: 19000000 INFO @ Sat, 06 Jul 2019 00:44:47: 19000000 INFO @ Sat, 06 Jul 2019 00:44:50: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:44:50: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:44:50: #1 total tags in treatment: 9447663 INFO @ Sat, 06 Jul 2019 00:44:50: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:44:50: #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 00:44:51: #1 tags after filtering in treatment: 7149788 INFO @ Sat, 06 Jul 2019 00:44:51: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 06 Jul 2019 00:44:51: #1 finished! INFO @ Sat, 06 Jul 2019 00:44:51: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:44:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:44:51: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:44:51: 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 00:44:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.05_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/SRX386905/SRX386905.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:44:52: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:44:52: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:44:52: #1 total tags in treatment: 9447663 INFO @ Sat, 06 Jul 2019 00:44:52: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:44:52: #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 00:44:53: #1 tags after filtering in treatment: 7149788 INFO @ Sat, 06 Jul 2019 00:44:53: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 06 Jul 2019 00:44:53: #1 finished! INFO @ Sat, 06 Jul 2019 00:44:53: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:44:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:44:53: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:44:53: 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 00:44:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.20_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/SRX386905/SRX386905.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386905/SRX386905.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling