Job ID = 2008230 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 4,724,736 reads read : 9,449,472 reads written : 9,449,472 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628975.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: 00:06:00 4724736 reads; of these: 4724736 (100.00%) were paired; of these: 798826 (16.91%) aligned concordantly 0 times 3627287 (76.77%) aligned concordantly exactly 1 time 298623 (6.32%) aligned concordantly >1 times ---- 798826 pairs aligned concordantly 0 times; of these: 138378 (17.32%) aligned discordantly 1 time ---- 660448 pairs aligned 0 times concordantly or discordantly; of these: 1320896 mates make up the pairs; of these: 1221520 (92.48%) aligned 0 times 74315 (5.63%) aligned exactly 1 time 25061 (1.90%) aligned >1 times 87.07% overall alignment rate Time searching: 00:06:00 Overall time: 00:06:00 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_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] 928828 / 4046691 = 0.2295 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 18:01:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.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 18:01:31: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:01:31: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:01:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.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 18:01:31: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:01:31: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:01:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.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 18:01:32: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:01:32: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:01:42: 1000000 INFO @ Fri, 05 Jul 2019 18:01:43: 1000000 INFO @ Fri, 05 Jul 2019 18:01:43: 1000000 INFO @ Fri, 05 Jul 2019 18:01:54: 2000000 INFO @ Fri, 05 Jul 2019 18:01:55: 2000000 INFO @ Fri, 05 Jul 2019 18:01:55: 2000000 INFO @ Fri, 05 Jul 2019 18:02:05: 3000000 INFO @ Fri, 05 Jul 2019 18:02:06: 3000000 INFO @ Fri, 05 Jul 2019 18:02:07: 3000000 INFO @ Fri, 05 Jul 2019 18:02:18: 4000000 INFO @ Fri, 05 Jul 2019 18:02:19: 4000000 INFO @ Fri, 05 Jul 2019 18:02:20: 4000000 INFO @ Fri, 05 Jul 2019 18:02:33: 5000000 INFO @ Fri, 05 Jul 2019 18:02:34: 5000000 INFO @ Fri, 05 Jul 2019 18:02:37: 5000000 INFO @ Fri, 05 Jul 2019 18:02:51: 6000000 INFO @ Fri, 05 Jul 2019 18:02:52: 6000000 INFO @ Fri, 05 Jul 2019 18:02:56: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:02:56: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:02:56: #1 total tags in treatment: 3012273 INFO @ Fri, 05 Jul 2019 18:02:56: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:02:56: #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 18:02:56: #1 tags after filtering in treatment: 2028843 INFO @ Fri, 05 Jul 2019 18:02:56: #1 Redundant rate of treatment: 0.33 INFO @ Fri, 05 Jul 2019 18:02:56: #1 finished! INFO @ Fri, 05 Jul 2019 18:02:56: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:02:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:02:56: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:02:56: 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 18:02:56: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:02:56: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:02:56: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:02:56: #1 total tags in treatment: 3012273 INFO @ Fri, 05 Jul 2019 18:02:56: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:02:56: #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 18:02:56: #1 tags after filtering in treatment: 2028843 INFO @ Fri, 05 Jul 2019 18:02:56: #1 Redundant rate of treatment: 0.33 INFO @ Fri, 05 Jul 2019 18:02:56: #1 finished! INFO @ Fri, 05 Jul 2019 18:02:56: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:02:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:02:57: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:02:57: 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 18:02:57: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:02:59: 6000000 INFO @ Fri, 05 Jul 2019 18:03:05: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:03:05: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:03:05: #1 total tags in treatment: 3012273 INFO @ Fri, 05 Jul 2019 18:03:05: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:03:05: #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 18:03:05: #1 tags after filtering in treatment: 2028843 INFO @ Fri, 05 Jul 2019 18:03:05: #1 Redundant rate of treatment: 0.33 INFO @ Fri, 05 Jul 2019 18:03:05: #1 finished! INFO @ Fri, 05 Jul 2019 18:03:05: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:03:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:03:05: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:03:05: 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 18:03:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms)pass1 - making usageList (0 chroms): 1 millis : 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184)needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.10_model.r’pass1 - making usageList (0 chroms): No such file or directory: 1 millis rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.05_*.xls’: No such file or directory needLargeMem: trying to allocate 0 bytes (limit: 17179869184)rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.10_*.xls’: No such file or directoryrm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585754/ERX585754.20_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。