Job ID = 2008206 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,920,565 reads read : 13,841,130 reads written : 13,841,130 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628948.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: 00:08:01 6920565 reads; of these: 6920565 (100.00%) were paired; of these: 1062869 (15.36%) aligned concordantly 0 times 5307997 (76.70%) aligned concordantly exactly 1 time 549699 (7.94%) aligned concordantly >1 times ---- 1062869 pairs aligned concordantly 0 times; of these: 235681 (22.17%) aligned discordantly 1 time ---- 827188 pairs aligned 0 times concordantly or discordantly; of these: 1654376 mates make up the pairs; of these: 1385301 (83.74%) aligned 0 times 184394 (11.15%) aligned exactly 1 time 84681 (5.12%) aligned >1 times 89.99% overall alignment rate Time searching: 00:08:01 Overall time: 00:08:01 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] 647993 / 6065873 = 0.1068 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 17:56:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.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 17:56:12: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:56:12: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:56:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.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 17:56:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:56:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:56:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.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 17:56:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:56:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:56:20: 1000000 INFO @ Fri, 05 Jul 2019 17:56:22: 1000000 INFO @ Fri, 05 Jul 2019 17:56:22: 1000000 INFO @ Fri, 05 Jul 2019 17:56:28: 2000000 INFO @ Fri, 05 Jul 2019 17:56:31: 2000000 INFO @ Fri, 05 Jul 2019 17:56:33: 2000000 INFO @ Fri, 05 Jul 2019 17:56:35: 3000000 INFO @ Fri, 05 Jul 2019 17:56:40: 3000000 INFO @ Fri, 05 Jul 2019 17:56:43: 4000000 INFO @ Fri, 05 Jul 2019 17:56:44: 3000000 INFO @ Fri, 05 Jul 2019 17:56:48: 4000000 INFO @ Fri, 05 Jul 2019 17:56:50: 5000000 INFO @ Fri, 05 Jul 2019 17:56:54: 4000000 INFO @ Fri, 05 Jul 2019 17:56:57: 5000000 INFO @ Fri, 05 Jul 2019 17:56:58: 6000000 INFO @ Fri, 05 Jul 2019 17:57:04: 5000000 INFO @ Fri, 05 Jul 2019 17:57:05: 7000000 INFO @ Fri, 05 Jul 2019 17:57:05: 6000000 INFO @ Fri, 05 Jul 2019 17:57:13: 8000000 INFO @ Fri, 05 Jul 2019 17:57:14: 7000000 INFO @ Fri, 05 Jul 2019 17:57:14: 6000000 INFO @ Fri, 05 Jul 2019 17:57:20: 9000000 INFO @ Fri, 05 Jul 2019 17:57:22: 8000000 INFO @ Fri, 05 Jul 2019 17:57:24: 7000000 INFO @ Fri, 05 Jul 2019 17:57:27: 10000000 INFO @ Fri, 05 Jul 2019 17:57:31: 9000000 INFO @ Fri, 05 Jul 2019 17:57:34: 8000000 INFO @ Fri, 05 Jul 2019 17:57:35: 11000000 INFO @ Fri, 05 Jul 2019 17:57:36: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 17:57:36: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 17:57:36: #1 total tags in treatment: 5215881 INFO @ Fri, 05 Jul 2019 17:57:36: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 17:57:36: #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 17:57:36: #1 tags after filtering in treatment: 3366241 INFO @ Fri, 05 Jul 2019 17:57:36: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 05 Jul 2019 17:57:36: #1 finished! INFO @ Fri, 05 Jul 2019 17:57:36: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 17:57:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 17:57:37: #2 number of paired peaks: 1 WARNING @ Fri, 05 Jul 2019 17:57:37: Too few paired peaks (1) 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 17:57:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.10_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/ERX585739/ERX585739.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 17:57:39: 10000000 INFO @ Fri, 05 Jul 2019 17:57:43: 9000000 INFO @ Fri, 05 Jul 2019 17:57:48: 11000000 INFO @ Fri, 05 Jul 2019 17:57:49: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 17:57:49: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 17:57:49: #1 total tags in treatment: 5215881 INFO @ Fri, 05 Jul 2019 17:57:49: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 17:57:49: #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 17:57:49: #1 tags after filtering in treatment: 3366241 INFO @ Fri, 05 Jul 2019 17:57:49: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 05 Jul 2019 17:57:49: #1 finished! INFO @ Fri, 05 Jul 2019 17:57:49: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 17:57:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 17:57:49: #2 number of paired peaks: 1 WARNING @ Fri, 05 Jul 2019 17:57:49: Too few paired peaks (1) 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 17:57:49: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 17:57:53: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.20_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/ERX585739/ERX585739.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 17:58:03: 11000000 INFO @ Fri, 05 Jul 2019 17:58:04: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 17:58:04: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 17:58:04: #1 total tags in treatment: 5215881 INFO @ Fri, 05 Jul 2019 17:58:04: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 17:58:04: #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 17:58:04: #1 tags after filtering in treatment: 3366241 INFO @ Fri, 05 Jul 2019 17:58:04: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 05 Jul 2019 17:58:04: #1 finished! INFO @ Fri, 05 Jul 2019 17:58:04: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 17:58:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 17:58:05: #2 number of paired peaks: 1 WARNING @ Fri, 05 Jul 2019 17:58:05: Too few paired peaks (1) 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 17:58:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.05_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/ERX585739/ERX585739.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585739/ERX585739.05_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。