Job ID = 2640902 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 6,418,005 reads read : 6,418,005 reads written : 6,418,005 spots read : 5,846,208 reads read : 5,846,208 reads written : 5,846,208 spots read : 4,523,909 reads read : 4,523,909 reads written : 4,523,909 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: 00:03:11 16788122 reads; of these: 16788122 (100.00%) were unpaired; of these: 967799 (5.76%) aligned 0 times 11741811 (69.94%) aligned exactly 1 time 4078512 (24.29%) aligned >1 times 94.24% overall alignment rate Time searching: 00:03:11 Overall time: 00:03:11 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_rmdupse_core] 7522296 / 15820323 = 0.4755 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:04:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.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, 24 Aug 2019 20:04:12: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:04:12: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:04:20: 1000000 INFO @ Sat, 24 Aug 2019 20:04:29: 2000000 INFO @ Sat, 24 Aug 2019 20:04:37: 3000000 INFO @ Sat, 24 Aug 2019 20:04:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.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, 24 Aug 2019 20:04:42: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:04:42: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:04:44: 4000000 INFO @ Sat, 24 Aug 2019 20:04:49: 1000000 INFO @ Sat, 24 Aug 2019 20:04:52: 5000000 INFO @ Sat, 24 Aug 2019 20:04:56: 2000000 INFO @ Sat, 24 Aug 2019 20:05:00: 6000000 INFO @ Sat, 24 Aug 2019 20:05:02: 3000000 INFO @ Sat, 24 Aug 2019 20:05:08: 7000000 INFO @ Sat, 24 Aug 2019 20:05:09: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:05:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.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, 24 Aug 2019 20:05:12: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:05:12: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:05:15: 8000000 INFO @ Sat, 24 Aug 2019 20:05:16: 5000000 INFO @ Sat, 24 Aug 2019 20:05:18: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 20:05:18: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 20:05:18: #1 total tags in treatment: 8298027 INFO @ Sat, 24 Aug 2019 20:05:18: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:05:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 20:05:18: #1 tags after filtering in treatment: 8298027 INFO @ Sat, 24 Aug 2019 20:05:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:05:18: #1 finished! INFO @ Sat, 24 Aug 2019 20:05:18: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:05:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:05:19: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:05:19: 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, 24 Aug 2019 20:05:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.05_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/SRX4292269/SRX4292269.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:05:21: 1000000 INFO @ Sat, 24 Aug 2019 20:05:22: 6000000 INFO @ Sat, 24 Aug 2019 20:05:29: 2000000 INFO @ Sat, 24 Aug 2019 20:05:29: 7000000 INFO @ Sat, 24 Aug 2019 20:05:36: 8000000 INFO @ Sat, 24 Aug 2019 20:05:37: 3000000 INFO @ Sat, 24 Aug 2019 20:05:38: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 20:05:38: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 20:05:38: #1 total tags in treatment: 8298027 INFO @ Sat, 24 Aug 2019 20:05:38: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:05:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 20:05:38: #1 tags after filtering in treatment: 8298027 INFO @ Sat, 24 Aug 2019 20:05:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:05:38: #1 finished! INFO @ Sat, 24 Aug 2019 20:05:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:05:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:05:38: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:05:38: 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, 24 Aug 2019 20:05:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.10_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/SRX4292269/SRX4292269.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:05:44: 4000000 INFO @ Sat, 24 Aug 2019 20:05:51: 5000000 INFO @ Sat, 24 Aug 2019 20:05:59: 6000000 INFO @ Sat, 24 Aug 2019 20:06:06: 7000000 INFO @ Sat, 24 Aug 2019 20:06:14: 8000000 INFO @ Sat, 24 Aug 2019 20:06:16: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 20:06:16: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 20:06:16: #1 total tags in treatment: 8298027 INFO @ Sat, 24 Aug 2019 20:06:16: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 20:06:16: #1 tags after filtering in treatment: 8298027 INFO @ Sat, 24 Aug 2019 20:06:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:06:16: #1 finished! INFO @ Sat, 24 Aug 2019 20:06:16: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:06:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:06:17: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:06:17: 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, 24 Aug 2019 20:06:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.20_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/SRX4292269/SRX4292269.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4292269/SRX4292269.20_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。