Job ID = 2011750 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 20,050,008 reads read : 40,100,016 reads written : 20,050,008 reads 0-length : 20,050,008 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: 00:03:18 20050008 reads; of these: 20050008 (100.00%) were unpaired; of these: 1449420 (7.23%) aligned 0 times 13981193 (69.73%) aligned exactly 1 time 4619395 (23.04%) aligned >1 times 92.77% overall alignment rate Time searching: 00:03:18 Overall time: 00:03:18 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] 10108758 / 18600588 = 0.5435 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 02:33:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.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 02:33:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:33:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:33:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.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 02:33:09: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:33:09: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:33:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.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 02:33:10: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:33:10: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:33:17: 1000000 INFO @ Sat, 06 Jul 2019 02:33:19: 1000000 INFO @ Sat, 06 Jul 2019 02:33:21: 1000000 INFO @ Sat, 06 Jul 2019 02:33:28: 2000000 INFO @ Sat, 06 Jul 2019 02:33:31: 2000000 INFO @ Sat, 06 Jul 2019 02:33:32: 2000000 INFO @ Sat, 06 Jul 2019 02:33:38: 3000000 INFO @ Sat, 06 Jul 2019 02:33:42: 3000000 INFO @ Sat, 06 Jul 2019 02:33:44: 3000000 INFO @ Sat, 06 Jul 2019 02:33:49: 4000000 INFO @ Sat, 06 Jul 2019 02:33:54: 4000000 INFO @ Sat, 06 Jul 2019 02:33:56: 4000000 INFO @ Sat, 06 Jul 2019 02:34:01: 5000000 INFO @ Sat, 06 Jul 2019 02:34:06: 5000000 INFO @ Sat, 06 Jul 2019 02:34:08: 5000000 INFO @ Sat, 06 Jul 2019 02:34:13: 6000000 INFO @ Sat, 06 Jul 2019 02:34:17: 6000000 INFO @ Sat, 06 Jul 2019 02:34:19: 6000000 INFO @ Sat, 06 Jul 2019 02:34:25: 7000000 INFO @ Sat, 06 Jul 2019 02:34:29: 7000000 INFO @ Sat, 06 Jul 2019 02:34:31: 7000000 INFO @ Sat, 06 Jul 2019 02:34:37: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:34:41: 8000000 INFO @ Sat, 06 Jul 2019 02:34:42: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:34:42: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:34:42: #1 total tags in treatment: 8491830 INFO @ Sat, 06 Jul 2019 02:34:42: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:34:42: #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 02:34:42: #1 tags after filtering in treatment: 8491830 INFO @ Sat, 06 Jul 2019 02:34:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:34:42: #1 finished! INFO @ Sat, 06 Jul 2019 02:34:42: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:34:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:34:43: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:34:43: 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 02:34:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.05_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/SRX4967959/SRX4967959.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:34:43: 8000000 INFO @ Sat, 06 Jul 2019 02:34:46: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:34:46: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:34:46: #1 total tags in treatment: 8491830 INFO @ Sat, 06 Jul 2019 02:34:46: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:34:46: #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 02:34:46: #1 tags after filtering in treatment: 8491830 INFO @ Sat, 06 Jul 2019 02:34:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:34:46: #1 finished! INFO @ Sat, 06 Jul 2019 02:34:46: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:34:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:34:47: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:34:47: 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 02:34:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.10_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/SRX4967959/SRX4967959.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:34:47: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:34:47: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:34:47: #1 total tags in treatment: 8491830 INFO @ Sat, 06 Jul 2019 02:34:47: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:34:47: #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 02:34:48: #1 tags after filtering in treatment: 8491830 INFO @ Sat, 06 Jul 2019 02:34:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:34:48: #1 finished! INFO @ Sat, 06 Jul 2019 02:34:48: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:34:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:34:48: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:34:48: 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 02:34:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4967959/SRX4967959.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。