Job ID = 2010924 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 12,292,686 reads read : 24,585,372 reads written : 24,585,372 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1106079.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: 00:15:33 12292686 reads; of these: 12292686 (100.00%) were paired; of these: 1402345 (11.41%) aligned concordantly 0 times 8888575 (72.31%) aligned concordantly exactly 1 time 2001766 (16.28%) aligned concordantly >1 times ---- 1402345 pairs aligned concordantly 0 times; of these: 109982 (7.84%) aligned discordantly 1 time ---- 1292363 pairs aligned 0 times concordantly or discordantly; of these: 2584726 mates make up the pairs; of these: 2081489 (80.53%) aligned 0 times 355736 (13.76%) aligned exactly 1 time 147501 (5.71%) aligned >1 times 91.53% overall alignment rate Time searching: 00:15:33 Overall time: 00:15:33 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] 927432 / 10973091 = 0.0845 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 01:46:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.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 01:46:59: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:46:59: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:47:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.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 01:47:00: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:47:00: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:47:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.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 01:47:01: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:47:01: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:47:09: 1000000 INFO @ Sat, 06 Jul 2019 01:47:11: 1000000 INFO @ Sat, 06 Jul 2019 01:47:12: 1000000 INFO @ Sat, 06 Jul 2019 01:47:18: 2000000 INFO @ Sat, 06 Jul 2019 01:47:23: 2000000 INFO @ Sat, 06 Jul 2019 01:47:23: 2000000 INFO @ Sat, 06 Jul 2019 01:47:28: 3000000 INFO @ Sat, 06 Jul 2019 01:47:34: 3000000 INFO @ Sat, 06 Jul 2019 01:47:34: 3000000 INFO @ Sat, 06 Jul 2019 01:47:37: 4000000 INFO @ Sat, 06 Jul 2019 01:47:44: 4000000 INFO @ Sat, 06 Jul 2019 01:47:45: 4000000 INFO @ Sat, 06 Jul 2019 01:47:47: 5000000 INFO @ Sat, 06 Jul 2019 01:47:55: 5000000 INFO @ Sat, 06 Jul 2019 01:47:56: 6000000 INFO @ Sat, 06 Jul 2019 01:47:57: 5000000 INFO @ Sat, 06 Jul 2019 01:48:06: 6000000 INFO @ Sat, 06 Jul 2019 01:48:06: 7000000 INFO @ Sat, 06 Jul 2019 01:48:07: 6000000 INFO @ Sat, 06 Jul 2019 01:48:15: 8000000 INFO @ Sat, 06 Jul 2019 01:48:16: 7000000 INFO @ Sat, 06 Jul 2019 01:48:18: 7000000 INFO @ Sat, 06 Jul 2019 01:48:25: 9000000 INFO @ Sat, 06 Jul 2019 01:48:26: 8000000 INFO @ Sat, 06 Jul 2019 01:48:30: 8000000 INFO @ Sat, 06 Jul 2019 01:48:34: 10000000 INFO @ Sat, 06 Jul 2019 01:48:37: 9000000 INFO @ Sat, 06 Jul 2019 01:48:41: 9000000 INFO @ Sat, 06 Jul 2019 01:48:44: 11000000 INFO @ Sat, 06 Jul 2019 01:48:49: 10000000 INFO @ Sat, 06 Jul 2019 01:48:52: 10000000 INFO @ Sat, 06 Jul 2019 01:48:54: 12000000 INFO @ Sat, 06 Jul 2019 01:49:01: 11000000 INFO @ Sat, 06 Jul 2019 01:49:03: 13000000 INFO @ Sat, 06 Jul 2019 01:49:03: 11000000 INFO @ Sat, 06 Jul 2019 01:49:13: 12000000 INFO @ Sat, 06 Jul 2019 01:49:13: 14000000 INFO @ Sat, 06 Jul 2019 01:49:15: 12000000 INFO @ Sat, 06 Jul 2019 01:49:22: 15000000 INFO @ Sat, 06 Jul 2019 01:49:25: 13000000 INFO @ Sat, 06 Jul 2019 01:49:26: 13000000 INFO @ Sat, 06 Jul 2019 01:49:32: 16000000 INFO @ Sat, 06 Jul 2019 01:49:36: 14000000 INFO @ Sat, 06 Jul 2019 01:49:37: 14000000 INFO @ Sat, 06 Jul 2019 01:49:42: 17000000 INFO @ Sat, 06 Jul 2019 01:49:48: 15000000 INFO @ Sat, 06 Jul 2019 01:49:49: 15000000 INFO @ Sat, 06 Jul 2019 01:49:52: 18000000 INFO @ Sat, 06 Jul 2019 01:50:00: 16000000 INFO @ Sat, 06 Jul 2019 01:50:01: 16000000 INFO @ Sat, 06 Jul 2019 01:50:02: 19000000 INFO @ Sat, 06 Jul 2019 01:50:11: 20000000 INFO @ Sat, 06 Jul 2019 01:50:13: 17000000 INFO @ Sat, 06 Jul 2019 01:50:13: 17000000 INFO @ Sat, 06 Jul 2019 01:50:17: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:50:17: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:50:17: #1 total tags in treatment: 9963937 INFO @ Sat, 06 Jul 2019 01:50:17: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:50:17: #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 01:50:18: #1 tags after filtering in treatment: 6381976 INFO @ Sat, 06 Jul 2019 01:50:18: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 01:50:18: #1 finished! INFO @ Sat, 06 Jul 2019 01:50:18: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:50:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:50:18: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:50:18: 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 01:50:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.05_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/SRX424821/SRX424821.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 01:50:25: 18000000 INFO @ Sat, 06 Jul 2019 01:50:25: 18000000 INFO @ Sat, 06 Jul 2019 01:50:36: 19000000 INFO @ Sat, 06 Jul 2019 01:50:36: 19000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 01:50:48: 20000000 INFO @ Sat, 06 Jul 2019 01:50:48: 20000000 INFO @ Sat, 06 Jul 2019 01:50:55: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:50:55: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:50:55: #1 total tags in treatment: 9963937 INFO @ Sat, 06 Jul 2019 01:50:55: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:50:55: #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 01:50:55: #1 tags after filtering in treatment: 6381976 INFO @ Sat, 06 Jul 2019 01:50:55: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 01:50:55: #1 finished! INFO @ Sat, 06 Jul 2019 01:50:55: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:50:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:50:56: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:50:56: 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 01:50:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.10_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/SRX424821/SRX424821.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:50:56: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:50:56: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:50:56: #1 total tags in treatment: 9963937 INFO @ Sat, 06 Jul 2019 01:50:56: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:50:56: #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 01:50:56: #1 tags after filtering in treatment: 6381976 INFO @ Sat, 06 Jul 2019 01:50:56: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 01:50:56: #1 finished! INFO @ Sat, 06 Jul 2019 01:50:56: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:50:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:50:57: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:50:57: 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 01:50:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.20_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/SRX424821/SRX424821.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424821/SRX424821.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling