Job ID = 2008171 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 15,625,378 reads read : 31,250,756 reads written : 31,250,756 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628944.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: 00:17:02 15625378 reads; of these: 15625378 (100.00%) were paired; of these: 5079023 (32.50%) aligned concordantly 0 times 9487230 (60.72%) aligned concordantly exactly 1 time 1059125 (6.78%) aligned concordantly >1 times ---- 5079023 pairs aligned concordantly 0 times; of these: 350878 (6.91%) aligned discordantly 1 time ---- 4728145 pairs aligned 0 times concordantly or discordantly; of these: 9456290 mates make up the pairs; of these: 9160939 (96.88%) aligned 0 times 176389 (1.87%) aligned exactly 1 time 118962 (1.26%) aligned >1 times 70.69% overall alignment rate Time searching: 00:17:02 Overall time: 00:17:02 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] 2652974 / 10838494 = 0.2448 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 18:16:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.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 18:16:38: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:16:38: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:16:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.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 18:16:38: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:16:38: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:16:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.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 18:16:39: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:16:39: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:16:51: 1000000 INFO @ Fri, 05 Jul 2019 18:16:52: 1000000 INFO @ Fri, 05 Jul 2019 18:16:52: 1000000 INFO @ Fri, 05 Jul 2019 18:17:04: 2000000 INFO @ Fri, 05 Jul 2019 18:17:06: 2000000 INFO @ Fri, 05 Jul 2019 18:17:06: 2000000 INFO @ Fri, 05 Jul 2019 18:17:16: 3000000 INFO @ Fri, 05 Jul 2019 18:17:20: 3000000 INFO @ Fri, 05 Jul 2019 18:17:20: 3000000 INFO @ Fri, 05 Jul 2019 18:17:29: 4000000 INFO @ Fri, 05 Jul 2019 18:17:33: 4000000 INFO @ Fri, 05 Jul 2019 18:17:33: 4000000 INFO @ Fri, 05 Jul 2019 18:17:41: 5000000 INFO @ Fri, 05 Jul 2019 18:17:46: 5000000 INFO @ Fri, 05 Jul 2019 18:17:47: 5000000 INFO @ Fri, 05 Jul 2019 18:17:54: 6000000 INFO @ Fri, 05 Jul 2019 18:18:00: 6000000 INFO @ Fri, 05 Jul 2019 18:18:01: 6000000 INFO @ Fri, 05 Jul 2019 18:18:07: 7000000 INFO @ Fri, 05 Jul 2019 18:18:14: 7000000 INFO @ Fri, 05 Jul 2019 18:18:14: 7000000 INFO @ Fri, 05 Jul 2019 18:18:19: 8000000 INFO @ Fri, 05 Jul 2019 18:18:27: 8000000 INFO @ Fri, 05 Jul 2019 18:18:27: 8000000 INFO @ Fri, 05 Jul 2019 18:18:31: 9000000 INFO @ Fri, 05 Jul 2019 18:18:40: 9000000 INFO @ Fri, 05 Jul 2019 18:18:41: 9000000 INFO @ Fri, 05 Jul 2019 18:18:44: 10000000 INFO @ Fri, 05 Jul 2019 18:18:54: 10000000 INFO @ Fri, 05 Jul 2019 18:18:54: 10000000 INFO @ Fri, 05 Jul 2019 18:18:57: 11000000 INFO @ Fri, 05 Jul 2019 18:19:08: 11000000 INFO @ Fri, 05 Jul 2019 18:19:08: 11000000 INFO @ Fri, 05 Jul 2019 18:19:09: 12000000 INFO @ Fri, 05 Jul 2019 18:19:20: 13000000 INFO @ Fri, 05 Jul 2019 18:19:21: 12000000 INFO @ Fri, 05 Jul 2019 18:19:21: 12000000 INFO @ Fri, 05 Jul 2019 18:19:31: 14000000 INFO @ Fri, 05 Jul 2019 18:19:32: 13000000 INFO @ Fri, 05 Jul 2019 18:19:34: 13000000 INFO @ Fri, 05 Jul 2019 18:19:41: 15000000 INFO @ Fri, 05 Jul 2019 18:19:46: 14000000 INFO @ Fri, 05 Jul 2019 18:19:48: 14000000 INFO @ Fri, 05 Jul 2019 18:19:52: 16000000 INFO @ Fri, 05 Jul 2019 18:20:00: 15000000 INFO @ Fri, 05 Jul 2019 18:20:01: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:20:01: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:20:01: #1 total tags in treatment: 7919496 INFO @ Fri, 05 Jul 2019 18:20:01: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:20:01: #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 18:20:01: #1 tags after filtering in treatment: 4151824 INFO @ Fri, 05 Jul 2019 18:20:01: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 18:20:01: #1 finished! INFO @ Fri, 05 Jul 2019 18:20:01: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:20:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:20:01: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:20:01: 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 18:20:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.05_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 18:20:02: 15000000 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:20:13: 16000000 INFO @ Fri, 05 Jul 2019 18:20:15: 16000000 INFO @ Fri, 05 Jul 2019 18:20:22: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:20:22: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:20:22: #1 total tags in treatment: 7919496 INFO @ Fri, 05 Jul 2019 18:20:22: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:20:22: #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 18:20:22: #1 tags after filtering in treatment: 4151824 INFO @ Fri, 05 Jul 2019 18:20:22: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 18:20:22: #1 finished! INFO @ Fri, 05 Jul 2019 18:20:22: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:20:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:20:23: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:20:23: 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 18:20:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.20_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/ERX585708/ERX585708.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:20:25: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:20:25: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:20:25: #1 total tags in treatment: 7919496 INFO @ Fri, 05 Jul 2019 18:20:25: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:20:25: #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 18:20:25: #1 tags after filtering in treatment: 4151824 INFO @ Fri, 05 Jul 2019 18:20:25: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 18:20:25: #1 finished! INFO @ Fri, 05 Jul 2019 18:20:25: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:20:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:20:26: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:20:26: 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 18:20:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.10_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/ERX585708/ERX585708.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585708/ERX585708.10_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。