Job ID = 2008276 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 16,237,772 reads read : 32,475,544 reads written : 32,475,544 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629036.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: 00:21:14 16237772 reads; of these: 16237772 (100.00%) were paired; of these: 958485 (5.90%) aligned concordantly 0 times 14059917 (86.59%) aligned concordantly exactly 1 time 1219370 (7.51%) aligned concordantly >1 times ---- 958485 pairs aligned concordantly 0 times; of these: 304433 (31.76%) aligned discordantly 1 time ---- 654052 pairs aligned 0 times concordantly or discordantly; of these: 1308104 mates make up the pairs; of these: 1189097 (90.90%) aligned 0 times 63917 (4.89%) aligned exactly 1 time 55090 (4.21%) aligned >1 times 96.34% overall alignment rate Time searching: 00:21:14 Overall time: 00:21:14 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 16 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] 3651981 / 15531541 = 0.2351 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 19:10:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.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 19:10:28: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:10:28: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:10:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.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 19:10:29: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:10:29: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:10:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.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 19:10:30: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:10:30: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:10:40: 1000000 INFO @ Fri, 05 Jul 2019 19:10:41: 1000000 INFO @ Fri, 05 Jul 2019 19:10:41: 1000000 INFO @ Fri, 05 Jul 2019 19:10:50: 2000000 INFO @ Fri, 05 Jul 2019 19:10:54: 2000000 INFO @ Fri, 05 Jul 2019 19:10:57: 2000000 INFO @ Fri, 05 Jul 2019 19:11:00: 3000000 INFO @ Fri, 05 Jul 2019 19:11:05: 3000000 INFO @ Fri, 05 Jul 2019 19:11:09: 4000000 INFO @ Fri, 05 Jul 2019 19:11:10: 3000000 INFO @ Fri, 05 Jul 2019 19:11:15: 4000000 INFO @ Fri, 05 Jul 2019 19:11:18: 5000000 INFO @ Fri, 05 Jul 2019 19:11:22: 4000000 INFO @ Fri, 05 Jul 2019 19:11:26: 5000000 INFO @ Fri, 05 Jul 2019 19:11:27: 6000000 INFO @ Fri, 05 Jul 2019 19:11:35: 5000000 INFO @ Fri, 05 Jul 2019 19:11:36: 7000000 INFO @ Fri, 05 Jul 2019 19:11:38: 6000000 INFO @ Fri, 05 Jul 2019 19:11:44: 8000000 INFO @ Fri, 05 Jul 2019 19:11:48: 6000000 INFO @ Fri, 05 Jul 2019 19:11:49: 7000000 INFO @ Fri, 05 Jul 2019 19:11:53: 9000000 INFO @ Fri, 05 Jul 2019 19:12:00: 7000000 INFO @ Fri, 05 Jul 2019 19:12:00: 8000000 INFO @ Fri, 05 Jul 2019 19:12:02: 10000000 INFO @ Fri, 05 Jul 2019 19:12:11: 11000000 INFO @ Fri, 05 Jul 2019 19:12:11: 9000000 INFO @ Fri, 05 Jul 2019 19:12:13: 8000000 INFO @ Fri, 05 Jul 2019 19:12:20: 12000000 INFO @ Fri, 05 Jul 2019 19:12:23: 10000000 INFO @ Fri, 05 Jul 2019 19:12:25: 9000000 INFO @ Fri, 05 Jul 2019 19:12:29: 13000000 INFO @ Fri, 05 Jul 2019 19:12:35: 11000000 INFO @ Fri, 05 Jul 2019 19:12:38: 14000000 INFO @ Fri, 05 Jul 2019 19:12:38: 10000000 INFO @ Fri, 05 Jul 2019 19:12:47: 12000000 INFO @ Fri, 05 Jul 2019 19:12:47: 15000000 INFO @ Fri, 05 Jul 2019 19:12:53: 11000000 INFO @ Fri, 05 Jul 2019 19:12:57: 16000000 INFO @ Fri, 05 Jul 2019 19:12:59: 13000000 INFO @ Fri, 05 Jul 2019 19:13:05: 17000000 INFO @ Fri, 05 Jul 2019 19:13:07: 12000000 INFO @ Fri, 05 Jul 2019 19:13:11: 14000000 INFO @ Fri, 05 Jul 2019 19:13:14: 18000000 INFO @ Fri, 05 Jul 2019 19:13:19: 13000000 INFO @ Fri, 05 Jul 2019 19:13:21: 15000000 INFO @ Fri, 05 Jul 2019 19:13:23: 19000000 INFO @ Fri, 05 Jul 2019 19:13:31: 16000000 INFO @ Fri, 05 Jul 2019 19:13:32: 20000000 INFO @ Fri, 05 Jul 2019 19:13:33: 14000000 INFO @ Fri, 05 Jul 2019 19:13:40: 21000000 INFO @ Fri, 05 Jul 2019 19:13:41: 17000000 INFO @ Fri, 05 Jul 2019 19:13:45: 15000000 INFO @ Fri, 05 Jul 2019 19:13:49: 22000000 INFO @ Fri, 05 Jul 2019 19:13:50: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 19:13:57: 16000000 INFO @ Fri, 05 Jul 2019 19:13:57: 23000000 INFO @ Fri, 05 Jul 2019 19:14:01: 19000000 INFO @ Fri, 05 Jul 2019 19:14:06: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:14:06: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:14:06: #1 total tags in treatment: 11644811 INFO @ Fri, 05 Jul 2019 19:14:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:14:06: #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 19:14:06: #1 tags after filtering in treatment: 5394060 INFO @ Fri, 05 Jul 2019 19:14:06: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 05 Jul 2019 19:14:06: #1 finished! INFO @ Fri, 05 Jul 2019 19:14:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:14:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:14:07: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:14:07: 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 19:14:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.20_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/ERX585797/ERX585797.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:14:09: 17000000 INFO @ Fri, 05 Jul 2019 19:14:11: 20000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 19:14:20: 21000000 INFO @ Fri, 05 Jul 2019 19:14:20: 18000000 INFO @ Fri, 05 Jul 2019 19:14:30: 22000000 INFO @ Fri, 05 Jul 2019 19:14:33: 19000000 INFO @ Fri, 05 Jul 2019 19:14:40: 23000000 INFO @ Fri, 05 Jul 2019 19:14:47: 20000000 INFO @ Fri, 05 Jul 2019 19:14:51: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:14:51: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:14:51: #1 total tags in treatment: 11644811 INFO @ Fri, 05 Jul 2019 19:14:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:14:51: #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 19:14:51: #1 tags after filtering in treatment: 5394060 INFO @ Fri, 05 Jul 2019 19:14:51: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 05 Jul 2019 19:14:51: #1 finished! INFO @ Fri, 05 Jul 2019 19:14:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:14:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:14:52: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:14:52: 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 19:14:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.10_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/ERX585797/ERX585797.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:14:58: 21000000 INFO @ Fri, 05 Jul 2019 19:15:08: 22000000 INFO @ Fri, 05 Jul 2019 19:15:19: 23000000 INFO @ Fri, 05 Jul 2019 19:15:31: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:15:31: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:15:31: #1 total tags in treatment: 11644811 INFO @ Fri, 05 Jul 2019 19:15:31: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:15:31: #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 19:15:31: #1 tags after filtering in treatment: 5394060 INFO @ Fri, 05 Jul 2019 19:15:31: #1 Redundant rate of treatment: 0.54 INFO @ Fri, 05 Jul 2019 19:15:31: #1 finished! INFO @ Fri, 05 Jul 2019 19:15:31: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:15:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:15:31: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:15:31: 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 19:15:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.05_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/ERX585797/ERX585797.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585797/ERX585797.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling