Job ID = 2010710 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,218,787 reads read : 16,437,574 reads written : 16,437,574 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: 00:08:22 8218787 reads; of these: 8218787 (100.00%) were paired; of these: 1301140 (15.83%) aligned concordantly 0 times 6115827 (74.41%) aligned concordantly exactly 1 time 801820 (9.76%) aligned concordantly >1 times ---- 1301140 pairs aligned concordantly 0 times; of these: 125540 (9.65%) aligned discordantly 1 time ---- 1175600 pairs aligned 0 times concordantly or discordantly; of these: 2351200 mates make up the pairs; of these: 2094520 (89.08%) aligned 0 times 169547 (7.21%) aligned exactly 1 time 87133 (3.71%) aligned >1 times 87.26% overall alignment rate Time searching: 00:08:22 Overall time: 00:08:22 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] 111555 / 7019809 = 0.0159 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 00:26:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.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 00:26:45: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:26:45: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:26:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.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 00:26:46: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:26:46: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:26:55: 1000000 INFO @ Sat, 06 Jul 2019 00:26:56: 1000000 INFO @ Sat, 06 Jul 2019 00:26:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.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 00:26:58: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:26:58: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:27:07: 2000000 INFO @ Sat, 06 Jul 2019 00:27:08: 2000000 INFO @ Sat, 06 Jul 2019 00:27:08: 1000000 INFO @ Sat, 06 Jul 2019 00:27:17: 2000000 INFO @ Sat, 06 Jul 2019 00:27:19: 3000000 INFO @ Sat, 06 Jul 2019 00:27:19: 3000000 INFO @ Sat, 06 Jul 2019 00:27:27: 3000000 INFO @ Sat, 06 Jul 2019 00:27:30: 4000000 INFO @ Sat, 06 Jul 2019 00:27:31: 4000000 INFO @ Sat, 06 Jul 2019 00:27:36: 4000000 INFO @ Sat, 06 Jul 2019 00:27:41: 5000000 INFO @ Sat, 06 Jul 2019 00:27:42: 5000000 INFO @ Sat, 06 Jul 2019 00:27:45: 5000000 INFO @ Sat, 06 Jul 2019 00:27:53: 6000000 INFO @ Sat, 06 Jul 2019 00:27:53: 6000000 INFO @ Sat, 06 Jul 2019 00:27:54: 6000000 INFO @ Sat, 06 Jul 2019 00:28:04: 7000000 INFO @ Sat, 06 Jul 2019 00:28:04: 7000000 INFO @ Sat, 06 Jul 2019 00:28:04: 7000000 INFO @ Sat, 06 Jul 2019 00:28:13: 8000000 INFO @ Sat, 06 Jul 2019 00:28:15: 8000000 INFO @ Sat, 06 Jul 2019 00:28:15: 8000000 INFO @ Sat, 06 Jul 2019 00:28:22: 9000000 INFO @ Sat, 06 Jul 2019 00:28:26: 9000000 INFO @ Sat, 06 Jul 2019 00:28:26: 9000000 INFO @ Sat, 06 Jul 2019 00:28:31: 10000000 INFO @ Sat, 06 Jul 2019 00:28:37: 10000000 INFO @ Sat, 06 Jul 2019 00:28:37: 10000000 INFO @ Sat, 06 Jul 2019 00:28:40: 11000000 INFO @ Sat, 06 Jul 2019 00:28:48: 11000000 INFO @ Sat, 06 Jul 2019 00:28:48: 11000000 INFO @ Sat, 06 Jul 2019 00:28:49: 12000000 INFO @ Sat, 06 Jul 2019 00:28:58: 13000000 INFO @ Sat, 06 Jul 2019 00:28:59: 12000000 INFO @ Sat, 06 Jul 2019 00:28:59: 12000000 INFO @ Sat, 06 Jul 2019 00:29:07: 14000000 INFO @ Sat, 06 Jul 2019 00:29:08: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:29:08: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:29:08: #1 total tags in treatment: 6807148 INFO @ Sat, 06 Jul 2019 00:29:08: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:29:08: #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 00:29:09: #1 tags after filtering in treatment: 5449722 INFO @ Sat, 06 Jul 2019 00:29:09: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 06 Jul 2019 00:29:09: #1 finished! INFO @ Sat, 06 Jul 2019 00:29:09: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:29:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:29:09: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:29:09: 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 @ Sat, 06 Jul 2019 00:29:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.20_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/SRX386891/SRX386891.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:29:10: 13000000 INFO @ Sat, 06 Jul 2019 00:29:10: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:29:21: 14000000 INFO @ Sat, 06 Jul 2019 00:29:21: 14000000 INFO @ Sat, 06 Jul 2019 00:29:22: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:29:22: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:29:22: #1 total tags in treatment: 6807148 INFO @ Sat, 06 Jul 2019 00:29:22: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:29:22: #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 00:29:22: #1 tags after filtering in treatment: 5449722 INFO @ Sat, 06 Jul 2019 00:29:22: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 06 Jul 2019 00:29:22: #1 finished! INFO @ Sat, 06 Jul 2019 00:29:22: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:29:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:29:22: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:29:22: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:29:22: #1 total tags in treatment: 6807148 INFO @ Sat, 06 Jul 2019 00:29:22: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:29:22: #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 00:29:22: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:29:22: 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 @ Sat, 06 Jul 2019 00:29:22: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 00:29:22: #1 tags after filtering in treatment: 5449722 INFO @ Sat, 06 Jul 2019 00:29:22: #1 Redundant rate of treatment: 0.20 INFO @ Sat, 06 Jul 2019 00:29:22: #1 finished! INFO @ Sat, 06 Jul 2019 00:29:22: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:29:22: #2 looking for paired plus/minus strand peaks... cut: /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.05_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/SRX386891/SRX386891.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:29:23: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:29:23: 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 @ Sat, 06 Jul 2019 00:29:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.10_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/SRX386891/SRX386891.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386891/SRX386891.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。