Job ID = 2008175 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,333,937 reads read : 22,667,874 reads written : 22,667,874 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629037.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: 00:13:25 11333937 reads; of these: 11333937 (100.00%) were paired; of these: 525265 (4.63%) aligned concordantly 0 times 10227971 (90.24%) aligned concordantly exactly 1 time 580701 (5.12%) aligned concordantly >1 times ---- 525265 pairs aligned concordantly 0 times; of these: 185786 (35.37%) aligned discordantly 1 time ---- 339479 pairs aligned 0 times concordantly or discordantly; of these: 678958 mates make up the pairs; of these: 594179 (87.51%) aligned 0 times 60353 (8.89%) aligned exactly 1 time 24426 (3.60%) aligned >1 times 97.38% overall alignment rate Time searching: 00:13:25 Overall time: 00:13:25 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] 2570305 / 10960510 = 0.2345 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 18:02:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.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 18:02:37: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:02:37: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:02:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.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 18:02:38: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:02:38: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:02:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.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 18:02:39: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:02:39: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:02:51: 1000000 INFO @ Fri, 05 Jul 2019 18:02:51: 1000000 INFO @ Fri, 05 Jul 2019 18:02:55: 1000000 INFO @ Fri, 05 Jul 2019 18:03:04: 2000000 INFO @ Fri, 05 Jul 2019 18:03:05: 2000000 INFO @ Fri, 05 Jul 2019 18:03:11: 2000000 INFO @ Fri, 05 Jul 2019 18:03:16: 3000000 INFO @ Fri, 05 Jul 2019 18:03:18: 3000000 INFO @ Fri, 05 Jul 2019 18:03:27: 3000000 INFO @ Fri, 05 Jul 2019 18:03:28: 4000000 INFO @ Fri, 05 Jul 2019 18:03:32: 4000000 INFO @ Fri, 05 Jul 2019 18:03:40: 5000000 INFO @ Fri, 05 Jul 2019 18:03:43: 4000000 INFO @ Fri, 05 Jul 2019 18:03:45: 5000000 INFO @ Fri, 05 Jul 2019 18:03:52: 6000000 INFO @ Fri, 05 Jul 2019 18:03:58: 6000000 INFO @ Fri, 05 Jul 2019 18:03:59: 5000000 INFO @ Fri, 05 Jul 2019 18:04:04: 7000000 INFO @ Fri, 05 Jul 2019 18:04:12: 7000000 INFO @ Fri, 05 Jul 2019 18:04:15: 6000000 INFO @ Fri, 05 Jul 2019 18:04:15: 8000000 INFO @ Fri, 05 Jul 2019 18:04:25: 8000000 INFO @ Fri, 05 Jul 2019 18:04:27: 9000000 INFO @ Fri, 05 Jul 2019 18:04:31: 7000000 INFO @ Fri, 05 Jul 2019 18:04:38: 9000000 INFO @ Fri, 05 Jul 2019 18:04:39: 10000000 INFO @ Fri, 05 Jul 2019 18:04:42: 8000000 INFO @ Fri, 05 Jul 2019 18:04:50: 11000000 INFO @ Fri, 05 Jul 2019 18:04:51: 10000000 INFO @ Fri, 05 Jul 2019 18:04:52: 9000000 INFO @ Fri, 05 Jul 2019 18:05:02: 12000000 INFO @ Fri, 05 Jul 2019 18:05:04: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 18:05:06: 10000000 INFO @ Fri, 05 Jul 2019 18:05:14: 13000000 INFO @ Fri, 05 Jul 2019 18:05:18: 12000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 18:05:22: 11000000 INFO @ Fri, 05 Jul 2019 18:05:26: 14000000 INFO @ Fri, 05 Jul 2019 18:05:31: 13000000 INFO @ Fri, 05 Jul 2019 18:05:38: 12000000 INFO @ Fri, 05 Jul 2019 18:05:39: 15000000 INFO @ Fri, 05 Jul 2019 18:05:44: 14000000 INFO @ Fri, 05 Jul 2019 18:05:50: 16000000 INFO @ Fri, 05 Jul 2019 18:05:54: 13000000 INFO @ Fri, 05 Jul 2019 18:05:58: 15000000 INFO @ Fri, 05 Jul 2019 18:06:01: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:06:01: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:06:01: #1 total tags in treatment: 8246257 INFO @ Fri, 05 Jul 2019 18:06:01: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:06:01: #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 18:06:01: #1 tags after filtering in treatment: 4095196 INFO @ Fri, 05 Jul 2019 18:06:01: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 05 Jul 2019 18:06:01: #1 finished! INFO @ Fri, 05 Jul 2019 18:06:01: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:06:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:06:02: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:06:02: 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 @ Fri, 05 Jul 2019 18:06:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.20_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/ERX585711/ERX585711.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:06:09: 14000000 INFO @ Fri, 05 Jul 2019 18:06:10: 16000000 INFO @ Fri, 05 Jul 2019 18:06:22: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:06:22: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:06:22: #1 total tags in treatment: 8246257 INFO @ Fri, 05 Jul 2019 18:06:22: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:06:22: #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 18:06:22: #1 tags after filtering in treatment: 4095196 INFO @ Fri, 05 Jul 2019 18:06:22: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 05 Jul 2019 18:06:22: #1 finished! INFO @ Fri, 05 Jul 2019 18:06:22: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:06:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:06:22: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:06:22: 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 18:06:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.05_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/ERX585711/ERX585711.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:06:25: 15000000 INFO @ Fri, 05 Jul 2019 18:06:38: 16000000 INFO @ Fri, 05 Jul 2019 18:06:51: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:06:51: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:06:51: #1 total tags in treatment: 8246257 INFO @ Fri, 05 Jul 2019 18:06:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:06:51: #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 18:06:51: #1 tags after filtering in treatment: 4095196 INFO @ Fri, 05 Jul 2019 18:06:51: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 05 Jul 2019 18:06:51: #1 finished! INFO @ Fri, 05 Jul 2019 18:06:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:06:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:06:52: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:06:52: 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 18:06:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.10_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/ERX585711/ERX585711.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585711/ERX585711.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling