Job ID = 2008185 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 14,647,058 reads read : 29,294,116 reads written : 29,294,116 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629078.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: 00:10:15 14647058 reads; of these: 14647058 (100.00%) were paired; of these: 1654101 (11.29%) aligned concordantly 0 times 11251446 (76.82%) aligned concordantly exactly 1 time 1741511 (11.89%) aligned concordantly >1 times ---- 1654101 pairs aligned concordantly 0 times; of these: 114158 (6.90%) aligned discordantly 1 time ---- 1539943 pairs aligned 0 times concordantly or discordantly; of these: 3079886 mates make up the pairs; of these: 2942504 (95.54%) aligned 0 times 68750 (2.23%) aligned exactly 1 time 68632 (2.23%) aligned >1 times 89.96% overall alignment rate Time searching: 00:10:15 Overall time: 00:10:15 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] 8381161 / 13056676 = 0.6419 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 17:59:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.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 17:59:31: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:59:31: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:59:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.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 17:59:32: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:59:32: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:59:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.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 17:59:33: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:59:33: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:59:38: 1000000 INFO @ Fri, 05 Jul 2019 17:59:39: 1000000 INFO @ Fri, 05 Jul 2019 17:59:40: 1000000 INFO @ Fri, 05 Jul 2019 17:59:45: 2000000 INFO @ Fri, 05 Jul 2019 17:59:46: 2000000 INFO @ Fri, 05 Jul 2019 17:59:47: 2000000 INFO @ Fri, 05 Jul 2019 17:59:52: 3000000 INFO @ Fri, 05 Jul 2019 17:59:52: 3000000 INFO @ Fri, 05 Jul 2019 17:59:54: 3000000 INFO @ Fri, 05 Jul 2019 17:59:59: 4000000 INFO @ Fri, 05 Jul 2019 17:59:59: 4000000 INFO @ Fri, 05 Jul 2019 18:00:01: 4000000 INFO @ Fri, 05 Jul 2019 18:00:05: 5000000 INFO @ Fri, 05 Jul 2019 18:00:06: 5000000 INFO @ Fri, 05 Jul 2019 18:00:08: 5000000 INFO @ Fri, 05 Jul 2019 18:00:11: 6000000 INFO @ Fri, 05 Jul 2019 18:00:13: 6000000 INFO @ Fri, 05 Jul 2019 18:00:15: 6000000 INFO @ Fri, 05 Jul 2019 18:00:17: 7000000 INFO @ Fri, 05 Jul 2019 18:00:19: 7000000 INFO @ Fri, 05 Jul 2019 18:00:21: 7000000 INFO @ Fri, 05 Jul 2019 18:00:23: 8000000 INFO @ Fri, 05 Jul 2019 18:00:26: 8000000 INFO @ Fri, 05 Jul 2019 18:00:28: 8000000 INFO @ Fri, 05 Jul 2019 18:00:29: 9000000 INFO @ Fri, 05 Jul 2019 18:00:32: #1 tag size is determined as 44 bps INFO @ Fri, 05 Jul 2019 18:00:32: #1 tag size = 44 INFO @ Fri, 05 Jul 2019 18:00:32: #1 total tags in treatment: 4635161 INFO @ Fri, 05 Jul 2019 18:00:32: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:00:32: #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 18:00:32: #1 tags after filtering in treatment: 2671975 INFO @ Fri, 05 Jul 2019 18:00:32: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:00:32: #1 finished! INFO @ Fri, 05 Jul 2019 18:00:32: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:00:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:00:32: #2 number of paired peaks: 42 WARNING @ Fri, 05 Jul 2019 18:00:32: Too few paired peaks (42) 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 18:00:32: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:00:32: 9000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.20_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/ERX585720/ERX585720.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:00:34: 9000000 INFO @ Fri, 05 Jul 2019 18:00:36: #1 tag size is determined as 44 bps INFO @ Fri, 05 Jul 2019 18:00:36: #1 tag size = 44 INFO @ Fri, 05 Jul 2019 18:00:36: #1 total tags in treatment: 4635161 INFO @ Fri, 05 Jul 2019 18:00:36: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:00:36: #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 18:00:36: #1 tags after filtering in treatment: 2671975 INFO @ Fri, 05 Jul 2019 18:00:36: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:00:36: #1 finished! INFO @ Fri, 05 Jul 2019 18:00:36: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:00:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:00:37: #2 number of paired peaks: 42 WARNING @ Fri, 05 Jul 2019 18:00:37: Too few paired peaks (42) 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 18:00:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.05_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/ERX585720/ERX585720.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:00:38: #1 tag size is determined as 44 bps INFO @ Fri, 05 Jul 2019 18:00:38: #1 tag size = 44 INFO @ Fri, 05 Jul 2019 18:00:38: #1 total tags in treatment: 4635161 INFO @ Fri, 05 Jul 2019 18:00:38: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:00:38: #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 18:00:38: #1 tags after filtering in treatment: 2671975 INFO @ Fri, 05 Jul 2019 18:00:38: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:00:38: #1 finished! INFO @ Fri, 05 Jul 2019 18:00:38: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:00:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:00:38: #2 number of paired peaks: 42 WARNING @ Fri, 05 Jul 2019 18:00:38: Too few paired peaks (42) 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 18:00:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.10_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/ERX585720/ERX585720.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585720/ERX585720.10_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。