Job ID = 2008275 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,352,592 reads read : 24,705,184 reads written : 24,705,184 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629009.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: 00:17:16 12352592 reads; of these: 12352592 (100.00%) were paired; of these: 2706784 (21.91%) aligned concordantly 0 times 8450960 (68.41%) aligned concordantly exactly 1 time 1194848 (9.67%) aligned concordantly >1 times ---- 2706784 pairs aligned concordantly 0 times; of these: 98195 (3.63%) aligned discordantly 1 time ---- 2608589 pairs aligned 0 times concordantly or discordantly; of these: 5217178 mates make up the pairs; of these: 5091201 (97.59%) aligned 0 times 86479 (1.66%) aligned exactly 1 time 39498 (0.76%) aligned >1 times 79.39% overall alignment rate Time searching: 00:17:16 Overall time: 00:17:16 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 8 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] 2537412 / 9729310 = 0.2608 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 18:45:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.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 18:45:48: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:45:48: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:45:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.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 18:45:49: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:45:49: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:45:57: 1000000 INFO @ Fri, 05 Jul 2019 18:45:57: 1000000 INFO @ Fri, 05 Jul 2019 18:46:05: 2000000 INFO @ Fri, 05 Jul 2019 18:46:05: 2000000 INFO @ Fri, 05 Jul 2019 18:46:12: 3000000 INFO @ Fri, 05 Jul 2019 18:46:14: 3000000 INFO @ Fri, 05 Jul 2019 18:46:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.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 18:46:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:46:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:46:22: 4000000 INFO @ Fri, 05 Jul 2019 18:46:22: 1000000 INFO @ Fri, 05 Jul 2019 18:46:23: 4000000 INFO @ Fri, 05 Jul 2019 18:46:30: 5000000 INFO @ Fri, 05 Jul 2019 18:46:30: 2000000 INFO @ Fri, 05 Jul 2019 18:46:32: 5000000 INFO @ Fri, 05 Jul 2019 18:46:37: 6000000 INFO @ Fri, 05 Jul 2019 18:46:38: 3000000 INFO @ Fri, 05 Jul 2019 18:46:40: 6000000 INFO @ Fri, 05 Jul 2019 18:46:45: 7000000 INFO @ Fri, 05 Jul 2019 18:46:45: 4000000 INFO @ Fri, 05 Jul 2019 18:46:48: 7000000 INFO @ Fri, 05 Jul 2019 18:46:52: 8000000 INFO @ Fri, 05 Jul 2019 18:46:53: 5000000 INFO @ Fri, 05 Jul 2019 18:46:56: 8000000 INFO @ Fri, 05 Jul 2019 18:47:00: 9000000 INFO @ Fri, 05 Jul 2019 18:47:01: 6000000 INFO @ Fri, 05 Jul 2019 18:47:05: 9000000 INFO @ Fri, 05 Jul 2019 18:47:08: 10000000 INFO @ Fri, 05 Jul 2019 18:47:08: 7000000 INFO @ Fri, 05 Jul 2019 18:47:13: 10000000 INFO @ Fri, 05 Jul 2019 18:47:15: 11000000 INFO @ Fri, 05 Jul 2019 18:47:16: 8000000 INFO @ Fri, 05 Jul 2019 18:47:21: 11000000 INFO @ Fri, 05 Jul 2019 18:47:23: 12000000 INFO @ Fri, 05 Jul 2019 18:47:23: 9000000 INFO @ Fri, 05 Jul 2019 18:47:30: 12000000 INFO @ Fri, 05 Jul 2019 18:47:30: 13000000 INFO @ Fri, 05 Jul 2019 18:47:31: 10000000 INFO @ Fri, 05 Jul 2019 18:47:37: 14000000 INFO @ Fri, 05 Jul 2019 18:47:38: 13000000 INFO @ Fri, 05 Jul 2019 18:47:38: 11000000 INFO @ Fri, 05 Jul 2019 18:47:41: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:47:41: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:47:41: #1 total tags in treatment: 7111729 INFO @ Fri, 05 Jul 2019 18:47:41: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:47:41: #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 18:47:41: #1 tags after filtering in treatment: 3673833 INFO @ Fri, 05 Jul 2019 18:47:41: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 18:47:41: #1 finished! INFO @ Fri, 05 Jul 2019 18:47:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:47:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:47:42: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:47:42: 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 18:47:42: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:47:45: 14000000 INFO @ Fri, 05 Jul 2019 18:47:46: 12000000 INFO @ Fri, 05 Jul 2019 18:47:50: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:47:52: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:47:52: #1 total tags in treatment: 7111729 INFO @ Fri, 05 Jul 2019 18:47:52: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:47:52: #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 18:47:52: #1 tags after filtering in treatment: 3673833 INFO @ Fri, 05 Jul 2019 18:47:52: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 18:47:52: #1 finished! INFO @ Fri, 05 Jul 2019 18:47:52: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:47:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:47:52: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:47:52: 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 18:47:52: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:47:53: 13000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.10_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:48:00: 14000000 INFO @ Fri, 05 Jul 2019 18:48:04: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:48:04: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:48:04: #1 total tags in treatment: 7111729 INFO @ Fri, 05 Jul 2019 18:48:04: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:48:04: #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 18:48:04: #1 tags after filtering in treatment: 3673833 INFO @ Fri, 05 Jul 2019 18:48:04: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 18:48:04: #1 finished! INFO @ Fri, 05 Jul 2019 18:48:04: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:48:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:48:05: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:48:05: 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 18:48:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.20_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/ERX585796/ERX585796.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585796/ERX585796.20_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。