Job ID = 2009746 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 25,630,058 reads read : 51,260,116 reads written : 51,260,116 rm: cannot remove ‘[DSE]RR*’: 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: 00:16:55 25630058 reads; of these: 25630058 (100.00%) were paired; of these: 7417758 (28.94%) aligned concordantly 0 times 16203678 (63.22%) aligned concordantly exactly 1 time 2008622 (7.84%) aligned concordantly >1 times ---- 7417758 pairs aligned concordantly 0 times; of these: 310620 (4.19%) aligned discordantly 1 time ---- 7107138 pairs aligned 0 times concordantly or discordantly; of these: 14214276 mates make up the pairs; of these: 13796728 (97.06%) aligned 0 times 278819 (1.96%) aligned exactly 1 time 138729 (0.98%) aligned >1 times 73.08% overall alignment rate Time searching: 00:16:55 Overall time: 00:16:55 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 16 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] 9340678 / 18387466 = 0.5080 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 20:23:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.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 20:23:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:23:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:23:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.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 20:23:16: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:23:16: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:23:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.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 20:23:17: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:23:17: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:23:23: 1000000 INFO @ Fri, 05 Jul 2019 20:23:24: 1000000 INFO @ Fri, 05 Jul 2019 20:23:25: 1000000 INFO @ Fri, 05 Jul 2019 20:23:30: 2000000 INFO @ Fri, 05 Jul 2019 20:23:32: 2000000 INFO @ Fri, 05 Jul 2019 20:23:33: 2000000 INFO @ Fri, 05 Jul 2019 20:23:37: 3000000 INFO @ Fri, 05 Jul 2019 20:23:38: 3000000 INFO @ Fri, 05 Jul 2019 20:23:42: 3000000 INFO @ Fri, 05 Jul 2019 20:23:43: 4000000 INFO @ Fri, 05 Jul 2019 20:23:45: 4000000 INFO @ Fri, 05 Jul 2019 20:23:50: 4000000 INFO @ Fri, 05 Jul 2019 20:23:51: 5000000 INFO @ Fri, 05 Jul 2019 20:23:52: 5000000 INFO @ Fri, 05 Jul 2019 20:23:57: 6000000 INFO @ Fri, 05 Jul 2019 20:23:58: 5000000 INFO @ Fri, 05 Jul 2019 20:23:58: 6000000 INFO @ Fri, 05 Jul 2019 20:24:04: 7000000 INFO @ Fri, 05 Jul 2019 20:24:05: 7000000 INFO @ Fri, 05 Jul 2019 20:24:06: 6000000 INFO @ Fri, 05 Jul 2019 20:24:12: 8000000 INFO @ Fri, 05 Jul 2019 20:24:12: 8000000 INFO @ Fri, 05 Jul 2019 20:24:15: 7000000 INFO @ Fri, 05 Jul 2019 20:24:18: 9000000 INFO @ Fri, 05 Jul 2019 20:24:22: 9000000 INFO @ Fri, 05 Jul 2019 20:24:24: 8000000 INFO @ Fri, 05 Jul 2019 20:24:25: 10000000 INFO @ Fri, 05 Jul 2019 20:24:28: 10000000 INFO @ Fri, 05 Jul 2019 20:24:31: 11000000 INFO @ Fri, 05 Jul 2019 20:24:32: 9000000 INFO @ Fri, 05 Jul 2019 20:24:35: 11000000 INFO @ Fri, 05 Jul 2019 20:24:38: 12000000 INFO @ Fri, 05 Jul 2019 20:24:40: 10000000 INFO @ Fri, 05 Jul 2019 20:24:41: 12000000 INFO @ Fri, 05 Jul 2019 20:24:45: 13000000 INFO @ Fri, 05 Jul 2019 20:24:48: 13000000 INFO @ Fri, 05 Jul 2019 20:24:48: 11000000 INFO @ Fri, 05 Jul 2019 20:24:51: 14000000 INFO @ Fri, 05 Jul 2019 20:24:54: 14000000 INFO @ Fri, 05 Jul 2019 20:24:56: 12000000 INFO @ Fri, 05 Jul 2019 20:24:58: 15000000 INFO @ Fri, 05 Jul 2019 20:25:01: 15000000 INFO @ Fri, 05 Jul 2019 20:25:03: 13000000 INFO @ Fri, 05 Jul 2019 20:25:04: 16000000 INFO @ Fri, 05 Jul 2019 20:25:07: 16000000 INFO @ Fri, 05 Jul 2019 20:25:11: 17000000 INFO @ Fri, 05 Jul 2019 20:25:11: 14000000 INFO @ Fri, 05 Jul 2019 20:25:14: 17000000 INFO @ Fri, 05 Jul 2019 20:25:17: 18000000 INFO @ Fri, 05 Jul 2019 20:25:19: 15000000 INFO @ Fri, 05 Jul 2019 20:25:20: 18000000 INFO @ Fri, 05 Jul 2019 20:25:23: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:25:23: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:25:23: #1 total tags in treatment: 8942667 INFO @ Fri, 05 Jul 2019 20:25:23: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:25:23: #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 20:25:23: #1 tags after filtering in treatment: 6534456 INFO @ Fri, 05 Jul 2019 20:25:23: #1 Redundant rate of treatment: 0.27 INFO @ Fri, 05 Jul 2019 20:25:23: #1 finished! INFO @ Fri, 05 Jul 2019 20:25:23: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:25:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:25:23: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:25:23: 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 20:25:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.20_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/SRX1462595/SRX1462595.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:25:25: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:25:25: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:25:25: #1 total tags in treatment: 8942667 INFO @ Fri, 05 Jul 2019 20:25:25: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:25:25: #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 20:25:26: #1 tags after filtering in treatment: 6534456 INFO @ Fri, 05 Jul 2019 20:25:26: #1 Redundant rate of treatment: 0.27 INFO @ Fri, 05 Jul 2019 20:25:26: #1 finished! INFO @ Fri, 05 Jul 2019 20:25:26: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:25:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:25:26: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:25:26: 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 20:25:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.05_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/SRX1462595/SRX1462595.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:25:27: 16000000 INFO @ Fri, 05 Jul 2019 20:25:34: 17000000 INFO @ Fri, 05 Jul 2019 20:25:42: 18000000 INFO @ Fri, 05 Jul 2019 20:25:47: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:25:47: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:25:47: #1 total tags in treatment: 8942667 INFO @ Fri, 05 Jul 2019 20:25:47: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:25:47: #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 20:25:48: #1 tags after filtering in treatment: 6534456 INFO @ Fri, 05 Jul 2019 20:25:48: #1 Redundant rate of treatment: 0.27 INFO @ Fri, 05 Jul 2019 20:25:48: #1 finished! INFO @ Fri, 05 Jul 2019 20:25:48: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:25:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:25:48: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:25:48: 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 20:25:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.10_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/SRX1462595/SRX1462595.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462595/SRX1462595.10_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。