Job ID = 2010321 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,701,652 reads read : 21,403,304 reads written : 21,403,304 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1009111.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: 00:00:01 Multiseed full-index search: 00:09:14 10701652 reads; of these: 10701652 (100.00%) were paired; of these: 3355756 (31.36%) aligned concordantly 0 times 4370912 (40.84%) aligned concordantly exactly 1 time 2974984 (27.80%) aligned concordantly >1 times ---- 3355756 pairs aligned concordantly 0 times; of these: 2935 (0.09%) aligned discordantly 1 time ---- 3352821 pairs aligned 0 times concordantly or discordantly; of these: 6705642 mates make up the pairs; of these: 6054055 (90.28%) aligned 0 times 151773 (2.26%) aligned exactly 1 time 499814 (7.45%) aligned >1 times 71.71% overall alignment rate Time searching: 00:09:15 Overall time: 00:09:15 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] 1445496 / 7343279 = 0.1968 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 22:19:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.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 22:19:14: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:19:14: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:19:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.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 22:19:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:19:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:19:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.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 22:19:16: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:19:16: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:19:22: 1000000 INFO @ Fri, 05 Jul 2019 22:19:24: 1000000 INFO @ Fri, 05 Jul 2019 22:19:27: 1000000 INFO @ Fri, 05 Jul 2019 22:19:29: 2000000 INFO @ Fri, 05 Jul 2019 22:19:33: 2000000 INFO @ Fri, 05 Jul 2019 22:19:37: 2000000 INFO @ Fri, 05 Jul 2019 22:19:37: 3000000 INFO @ Fri, 05 Jul 2019 22:19:42: 3000000 INFO @ Fri, 05 Jul 2019 22:19:45: 4000000 INFO @ Fri, 05 Jul 2019 22:19:46: 3000000 INFO @ Fri, 05 Jul 2019 22:19:51: 4000000 INFO @ Fri, 05 Jul 2019 22:19:52: 5000000 INFO @ Fri, 05 Jul 2019 22:19:56: 4000000 INFO @ Fri, 05 Jul 2019 22:20:00: 5000000 INFO @ Fri, 05 Jul 2019 22:20:00: 6000000 INFO @ Fri, 05 Jul 2019 22:20:05: 5000000 INFO @ Fri, 05 Jul 2019 22:20:08: 7000000 INFO @ Fri, 05 Jul 2019 22:20:09: 6000000 INFO @ Fri, 05 Jul 2019 22:20:15: 6000000 INFO @ Fri, 05 Jul 2019 22:20:15: 8000000 INFO @ Fri, 05 Jul 2019 22:20:17: 7000000 INFO @ Fri, 05 Jul 2019 22:20:23: 9000000 INFO @ Fri, 05 Jul 2019 22:20:23: 7000000 INFO @ Fri, 05 Jul 2019 22:20:25: 8000000 INFO @ Fri, 05 Jul 2019 22:20:30: 10000000 INFO @ Fri, 05 Jul 2019 22:20:32: 8000000 INFO @ Fri, 05 Jul 2019 22:20:34: 9000000 INFO @ Fri, 05 Jul 2019 22:20:38: 11000000 INFO @ Fri, 05 Jul 2019 22:20:41: 9000000 INFO @ Fri, 05 Jul 2019 22:20:42: 10000000 INFO @ Fri, 05 Jul 2019 22:20:46: 12000000 INFO @ Fri, 05 Jul 2019 22:20:49: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 22:20:49: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 22:20:49: #1 total tags in treatment: 5900664 INFO @ Fri, 05 Jul 2019 22:20:49: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:20:49: #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 22:20:50: #1 tags after filtering in treatment: 3641361 INFO @ Fri, 05 Jul 2019 22:20:50: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 05 Jul 2019 22:20:50: #1 finished! INFO @ Fri, 05 Jul 2019 22:20:50: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:20:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:20:50: #2 number of paired peaks: 68 WARNING @ Fri, 05 Jul 2019 22:20:50: Too few paired peaks (68) 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 22:20:50: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 22:20:50: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.05_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 22:20:50: 11000000 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:20:58: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 22:20:59: 11000000 INFO @ Fri, 05 Jul 2019 22:21:02: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 22:21:02: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 22:21:02: #1 total tags in treatment: 5900664 INFO @ Fri, 05 Jul 2019 22:21:02: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:21:02: #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 22:21:02: #1 tags after filtering in treatment: 3641361 INFO @ Fri, 05 Jul 2019 22:21:02: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 05 Jul 2019 22:21:02: #1 finished! INFO @ Fri, 05 Jul 2019 22:21:02: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:21:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:21:03: #2 number of paired peaks: 68 WARNING @ Fri, 05 Jul 2019 22:21:03: Too few paired peaks (68) 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 22:21:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.10_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/SRX363261/SRX363261.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:21:09: 12000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 22:21:13: #1 tag size is determined as 45 bps INFO @ Fri, 05 Jul 2019 22:21:13: #1 tag size = 45 INFO @ Fri, 05 Jul 2019 22:21:13: #1 total tags in treatment: 5900664 INFO @ Fri, 05 Jul 2019 22:21:13: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:21:13: #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 22:21:13: #1 tags after filtering in treatment: 3641361 INFO @ Fri, 05 Jul 2019 22:21:13: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 05 Jul 2019 22:21:13: #1 finished! INFO @ Fri, 05 Jul 2019 22:21:13: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:21:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:21:13: #2 number of paired peaks: 68 WARNING @ Fri, 05 Jul 2019 22:21:13: Too few paired peaks (68) 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 22:21:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.20_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/SRX363261/SRX363261.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363261/SRX363261.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling