Job ID = 2011658 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,920,351 reads read : 21,840,702 reads written : 21,840,702 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146726.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: 00:07:30 10920351 reads; of these: 10920351 (100.00%) were paired; of these: 2178174 (19.95%) aligned concordantly 0 times 7394041 (67.71%) aligned concordantly exactly 1 time 1348136 (12.35%) aligned concordantly >1 times ---- 2178174 pairs aligned concordantly 0 times; of these: 286498 (13.15%) aligned discordantly 1 time ---- 1891676 pairs aligned 0 times concordantly or discordantly; of these: 3783352 mates make up the pairs; of these: 3436885 (90.84%) aligned 0 times 195359 (5.16%) aligned exactly 1 time 151108 (3.99%) aligned >1 times 84.26% overall alignment rate Time searching: 00:07:30 Overall time: 00:07:30 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] 2962598 / 8899637 = 0.3329 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 @ Sat, 06 Jul 2019 02:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.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 @ Sat, 06 Jul 2019 02:05:18: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:05:18: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:05:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.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 @ Sat, 06 Jul 2019 02:05:19: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:05:19: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:05:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.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 @ Sat, 06 Jul 2019 02:05:20: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:05:20: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:05:26: 1000000 INFO @ Sat, 06 Jul 2019 02:05:31: 1000000 INFO @ Sat, 06 Jul 2019 02:05:32: 1000000 INFO @ Sat, 06 Jul 2019 02:05:34: 2000000 INFO @ Sat, 06 Jul 2019 02:05:41: 3000000 INFO @ Sat, 06 Jul 2019 02:05:43: 2000000 INFO @ Sat, 06 Jul 2019 02:05:43: 2000000 INFO @ Sat, 06 Jul 2019 02:05:50: 4000000 INFO @ Sat, 06 Jul 2019 02:05:55: 3000000 INFO @ Sat, 06 Jul 2019 02:05:55: 3000000 INFO @ Sat, 06 Jul 2019 02:05:58: 5000000 INFO @ Sat, 06 Jul 2019 02:06:06: 6000000 INFO @ Sat, 06 Jul 2019 02:06:07: 4000000 INFO @ Sat, 06 Jul 2019 02:06:07: 4000000 INFO @ Sat, 06 Jul 2019 02:06:14: 7000000 INFO @ Sat, 06 Jul 2019 02:06:18: 5000000 INFO @ Sat, 06 Jul 2019 02:06:18: 5000000 INFO @ Sat, 06 Jul 2019 02:06:23: 8000000 INFO @ Sat, 06 Jul 2019 02:06:30: 6000000 INFO @ Sat, 06 Jul 2019 02:06:30: 6000000 INFO @ Sat, 06 Jul 2019 02:06:31: 9000000 INFO @ Sat, 06 Jul 2019 02:06:39: 10000000 INFO @ Sat, 06 Jul 2019 02:06:42: 7000000 INFO @ Sat, 06 Jul 2019 02:06:42: 7000000 INFO @ Sat, 06 Jul 2019 02:06:47: 11000000 INFO @ Sat, 06 Jul 2019 02:06:53: 8000000 INFO @ Sat, 06 Jul 2019 02:06:53: 8000000 INFO @ Sat, 06 Jul 2019 02:06:54: 12000000 INFO @ Sat, 06 Jul 2019 02:06:57: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:06:57: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:06:57: #1 total tags in treatment: 5823449 INFO @ Sat, 06 Jul 2019 02:06:57: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:06:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:06:57: #1 tags after filtering in treatment: 4567524 INFO @ Sat, 06 Jul 2019 02:06:57: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 06 Jul 2019 02:06:57: #1 finished! INFO @ Sat, 06 Jul 2019 02:06:57: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:06:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:06:58: #2 number of paired peaks: 27 WARNING @ Sat, 06 Jul 2019 02:06:58: Too few paired peaks (27) 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 @ Sat, 06 Jul 2019 02:06:58: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 02:07:04: 9000000 INFO @ Sat, 06 Jul 2019 02:07:05: 9000000 INFO @ Sat, 06 Jul 2019 02:07:15: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.05_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/SRX455436/SRX455436.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:07:16: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:07:25: 11000000 INFO @ Sat, 06 Jul 2019 02:07:26: 11000000 INFO @ Sat, 06 Jul 2019 02:07:35: 12000000 INFO @ Sat, 06 Jul 2019 02:07:37: 12000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 02:07:40: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:07:40: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:07:40: #1 total tags in treatment: 5823449 INFO @ Sat, 06 Jul 2019 02:07:40: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:07:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:07:40: #1 tags after filtering in treatment: 4567524 INFO @ Sat, 06 Jul 2019 02:07:40: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 06 Jul 2019 02:07:40: #1 finished! INFO @ Sat, 06 Jul 2019 02:07:40: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:07:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:07:41: #2 number of paired peaks: 27 WARNING @ Sat, 06 Jul 2019 02:07:41: Too few paired peaks (27) 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 @ Sat, 06 Jul 2019 02:07:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.10_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/SRX455436/SRX455436.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:07:42: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:07:42: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:07:42: #1 total tags in treatment: 5823449 INFO @ Sat, 06 Jul 2019 02:07:42: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:07:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:07:42: #1 tags after filtering in treatment: 4567524 INFO @ Sat, 06 Jul 2019 02:07:42: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 06 Jul 2019 02:07:42: #1 finished! INFO @ Sat, 06 Jul 2019 02:07:42: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:07:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:07:42: #2 number of paired peaks: 27 WARNING @ Sat, 06 Jul 2019 02:07:42: Too few paired peaks (27) 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 @ Sat, 06 Jul 2019 02:07:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.20_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/SRX455436/SRX455436.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455436/SRX455436.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling