Job ID = 2011659 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,740,160 reads read : 17,480,320 reads written : 17,480,320 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146727.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: 00:06:44 8740160 reads; of these: 8740160 (100.00%) were paired; of these: 1413544 (16.17%) aligned concordantly 0 times 6087960 (69.66%) aligned concordantly exactly 1 time 1238656 (14.17%) aligned concordantly >1 times ---- 1413544 pairs aligned concordantly 0 times; of these: 281821 (19.94%) aligned discordantly 1 time ---- 1131723 pairs aligned 0 times concordantly or discordantly; of these: 2263446 mates make up the pairs; of these: 1891272 (83.56%) aligned 0 times 198291 (8.76%) aligned exactly 1 time 173883 (7.68%) aligned >1 times 89.18% overall alignment rate Time searching: 00:06:44 Overall time: 00:06:44 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] 1543604 / 7440556 = 0.2075 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 02:03:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.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 02:03:47: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:03:47: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:03:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.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 02:03:48: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:03:48: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:03:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.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 02:03:49: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:03:49: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:03:55: 1000000 INFO @ Sat, 06 Jul 2019 02:03:56: 1000000 INFO @ Sat, 06 Jul 2019 02:03:57: 1000000 INFO @ Sat, 06 Jul 2019 02:04:03: 2000000 INFO @ Sat, 06 Jul 2019 02:04:03: 2000000 INFO @ Sat, 06 Jul 2019 02:04:06: 2000000 INFO @ Sat, 06 Jul 2019 02:04:11: 3000000 INFO @ Sat, 06 Jul 2019 02:04:11: 3000000 INFO @ Sat, 06 Jul 2019 02:04:14: 3000000 INFO @ Sat, 06 Jul 2019 02:04:18: 4000000 INFO @ Sat, 06 Jul 2019 02:04:19: 4000000 INFO @ Sat, 06 Jul 2019 02:04:22: 4000000 INFO @ Sat, 06 Jul 2019 02:04:26: 5000000 INFO @ Sat, 06 Jul 2019 02:04:27: 5000000 INFO @ Sat, 06 Jul 2019 02:04:30: 5000000 INFO @ Sat, 06 Jul 2019 02:04:33: 6000000 INFO @ Sat, 06 Jul 2019 02:04:35: 6000000 INFO @ Sat, 06 Jul 2019 02:04:38: 6000000 INFO @ Sat, 06 Jul 2019 02:04:40: 7000000 INFO @ Sat, 06 Jul 2019 02:04:42: 7000000 INFO @ Sat, 06 Jul 2019 02:04:47: 7000000 INFO @ Sat, 06 Jul 2019 02:04:48: 8000000 INFO @ Sat, 06 Jul 2019 02:04:50: 8000000 INFO @ Sat, 06 Jul 2019 02:04:55: 8000000 INFO @ Sat, 06 Jul 2019 02:04:56: 9000000 INFO @ Sat, 06 Jul 2019 02:04:59: 9000000 INFO @ Sat, 06 Jul 2019 02:05:03: 9000000 INFO @ Sat, 06 Jul 2019 02:05:05: 10000000 INFO @ Sat, 06 Jul 2019 02:05:08: 10000000 INFO @ Sat, 06 Jul 2019 02:05:12: 10000000 INFO @ Sat, 06 Jul 2019 02:05:14: 11000000 INFO @ Sat, 06 Jul 2019 02:05:17: 11000000 INFO @ Sat, 06 Jul 2019 02:05:20: 11000000 INFO @ Sat, 06 Jul 2019 02:05:23: 12000000 INFO @ Sat, 06 Jul 2019 02:05:25: 12000000 INFO @ Sat, 06 Jul 2019 02:05:28: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:05:28: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:05:28: #1 total tags in treatment: 5807741 INFO @ Sat, 06 Jul 2019 02:05:28: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:05:28: #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 02:05:28: #1 tags after filtering in treatment: 4455091 INFO @ Sat, 06 Jul 2019 02:05:28: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:05:28: #1 finished! INFO @ Sat, 06 Jul 2019 02:05:28: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:05:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:05:28: #2 number of paired peaks: 33 WARNING @ Sat, 06 Jul 2019 02:05:28: Too few paired peaks (33) 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 02:05:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.10_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/SRX455437/SRX455437.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:05:29: 12000000 INFO @ Sat, 06 Jul 2019 02:05:30: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:05:30: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:05:30: #1 total tags in treatment: 5807741 INFO @ Sat, 06 Jul 2019 02:05:30: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:05:30: #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 02:05:30: #1 tags after filtering in treatment: 4455091 INFO @ Sat, 06 Jul 2019 02:05:30: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:05:30: #1 finished! INFO @ Sat, 06 Jul 2019 02:05:30: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:05:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:05:30: #2 number of paired peaks: 33 WARNING @ Sat, 06 Jul 2019 02:05:30: Too few paired peaks (33) 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 02:05:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.05_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/SRX455437/SRX455437.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:05:33: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:05:33: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:05:33: #1 total tags in treatment: 5807741 INFO @ Sat, 06 Jul 2019 02:05:33: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:05:33: #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 02:05:33: #1 tags after filtering in treatment: 4455091 INFO @ Sat, 06 Jul 2019 02:05:33: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:05:33: #1 finished! INFO @ Sat, 06 Jul 2019 02:05:33: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:05:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:05:33: #2 number of paired peaks: 33 WARNING @ Sat, 06 Jul 2019 02:05:33: Too few paired peaks (33) 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 02:05:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.20_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/SRX455437/SRX455437.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455437/SRX455437.20_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。