Job ID = 2010577 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,366,184 reads read : 24,732,368 reads written : 24,732,368 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: 00:10:42 12366184 reads; of these: 12366184 (100.00%) were paired; of these: 1355082 (10.96%) aligned concordantly 0 times 8631543 (69.80%) aligned concordantly exactly 1 time 2379559 (19.24%) aligned concordantly >1 times ---- 1355082 pairs aligned concordantly 0 times; of these: 560722 (41.38%) aligned discordantly 1 time ---- 794360 pairs aligned 0 times concordantly or discordantly; of these: 1588720 mates make up the pairs; of these: 920846 (57.96%) aligned 0 times 317090 (19.96%) aligned exactly 1 time 350784 (22.08%) aligned >1 times 96.28% overall alignment rate Time searching: 00:10:42 Overall time: 00:10:42 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 12 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] 417343 / 11284046 = 0.0370 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 23:46:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.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 23:46:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:46:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:46:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.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 23:46:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:46:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:46:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.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 23:46:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:46:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:47:05: 1000000 INFO @ Fri, 05 Jul 2019 23:47:06: 1000000 INFO @ Fri, 05 Jul 2019 23:47:07: 1000000 INFO @ Fri, 05 Jul 2019 23:47:13: 2000000 INFO @ Fri, 05 Jul 2019 23:47:15: 2000000 INFO @ Fri, 05 Jul 2019 23:47:16: 2000000 INFO @ Fri, 05 Jul 2019 23:47:21: 3000000 INFO @ Fri, 05 Jul 2019 23:47:24: 3000000 INFO @ Fri, 05 Jul 2019 23:47:25: 3000000 INFO @ Fri, 05 Jul 2019 23:47:29: 4000000 INFO @ Fri, 05 Jul 2019 23:47:33: 4000000 INFO @ Fri, 05 Jul 2019 23:47:34: 4000000 INFO @ Fri, 05 Jul 2019 23:47:38: 5000000 INFO @ Fri, 05 Jul 2019 23:47:43: 5000000 INFO @ Fri, 05 Jul 2019 23:47:44: 5000000 INFO @ Fri, 05 Jul 2019 23:47:46: 6000000 INFO @ Fri, 05 Jul 2019 23:47:51: 6000000 INFO @ Fri, 05 Jul 2019 23:47:52: 6000000 INFO @ Fri, 05 Jul 2019 23:47:55: 7000000 INFO @ Fri, 05 Jul 2019 23:48:00: 7000000 INFO @ Fri, 05 Jul 2019 23:48:01: 7000000 INFO @ Fri, 05 Jul 2019 23:48:03: 8000000 INFO @ Fri, 05 Jul 2019 23:48:09: 8000000 INFO @ Fri, 05 Jul 2019 23:48:10: 8000000 INFO @ Fri, 05 Jul 2019 23:48:11: 9000000 INFO @ Fri, 05 Jul 2019 23:48:18: 9000000 INFO @ Fri, 05 Jul 2019 23:48:18: 10000000 INFO @ Fri, 05 Jul 2019 23:48:19: 9000000 INFO @ Fri, 05 Jul 2019 23:48:26: 11000000 INFO @ Fri, 05 Jul 2019 23:48:27: 10000000 INFO @ Fri, 05 Jul 2019 23:48:28: 10000000 INFO @ Fri, 05 Jul 2019 23:48:34: 12000000 INFO @ Fri, 05 Jul 2019 23:48:36: 11000000 INFO @ Fri, 05 Jul 2019 23:48:37: 11000000 INFO @ Fri, 05 Jul 2019 23:48:42: 13000000 INFO @ Fri, 05 Jul 2019 23:48:45: 12000000 INFO @ Fri, 05 Jul 2019 23:48:46: 12000000 INFO @ Fri, 05 Jul 2019 23:48:50: 14000000 INFO @ Fri, 05 Jul 2019 23:48:54: 13000000 INFO @ Fri, 05 Jul 2019 23:48:55: 13000000 INFO @ Fri, 05 Jul 2019 23:48:58: 15000000 INFO @ Fri, 05 Jul 2019 23:49:03: 14000000 INFO @ Fri, 05 Jul 2019 23:49:03: 14000000 INFO @ Fri, 05 Jul 2019 23:49:06: 16000000 INFO @ Fri, 05 Jul 2019 23:49:11: 15000000 INFO @ Fri, 05 Jul 2019 23:49:12: 15000000 INFO @ Fri, 05 Jul 2019 23:49:14: 17000000 INFO @ Fri, 05 Jul 2019 23:49:20: 16000000 INFO @ Fri, 05 Jul 2019 23:49:20: 16000000 INFO @ Fri, 05 Jul 2019 23:49:22: 18000000 INFO @ Fri, 05 Jul 2019 23:49:28: 17000000 INFO @ Fri, 05 Jul 2019 23:49:29: 17000000 INFO @ Fri, 05 Jul 2019 23:49:30: 19000000 INFO @ Fri, 05 Jul 2019 23:49:37: 18000000 INFO @ Fri, 05 Jul 2019 23:49:38: 20000000 INFO @ Fri, 05 Jul 2019 23:49:38: 18000000 INFO @ Fri, 05 Jul 2019 23:49:46: 21000000 INFO @ Fri, 05 Jul 2019 23:49:46: 19000000 INFO @ Fri, 05 Jul 2019 23:49:47: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:49:54: 22000000 INFO @ Fri, 05 Jul 2019 23:49:55: 20000000 INFO @ Fri, 05 Jul 2019 23:49:56: 20000000 INFO @ Fri, 05 Jul 2019 23:50:02: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:50:02: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:50:02: #1 total tags in treatment: 10594397 INFO @ Fri, 05 Jul 2019 23:50:02: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:50:02: #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 23:50:02: #1 tags after filtering in treatment: 7227766 INFO @ Fri, 05 Jul 2019 23:50:02: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:50:02: #1 finished! INFO @ Fri, 05 Jul 2019 23:50:02: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:50:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:50:03: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:50:03: 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 23:50:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.05_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/SRX381278/SRX381278.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:50:04: 21000000 INFO @ Fri, 05 Jul 2019 23:50:04: 21000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 23:50:12: 22000000 INFO @ Fri, 05 Jul 2019 23:50:13: 22000000 INFO @ Fri, 05 Jul 2019 23:50:21: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:50:21: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:50:21: #1 total tags in treatment: 10594397 INFO @ Fri, 05 Jul 2019 23:50:21: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:50:21: #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 23:50:21: #1 tags after filtering in treatment: 7227766 INFO @ Fri, 05 Jul 2019 23:50:21: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:50:21: #1 finished! INFO @ Fri, 05 Jul 2019 23:50:21: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:50:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:50:22: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:50:22: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:50:22: #1 total tags in treatment: 10594397 INFO @ Fri, 05 Jul 2019 23:50:22: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:50:22: #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 23:50:22: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:50:22: 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 @ Fri, 05 Jul 2019 23:50:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.10_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/SRX381278/SRX381278.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:50:22: #1 tags after filtering in treatment: 7227766 INFO @ Fri, 05 Jul 2019 23:50:22: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 23:50:22: #1 finished! INFO @ Fri, 05 Jul 2019 23:50:22: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:50:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:50:22: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:50:22: 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 @ Fri, 05 Jul 2019 23:50:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.20_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/SRX381278/SRX381278.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381278/SRX381278.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling