Job ID = 4289307 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 38,355,798 reads read : 76,711,596 reads written : 38,355,798 reads 0-length : 38,355,798 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: 00:07:52 38355798 reads; of these: 38355798 (100.00%) were unpaired; of these: 674636 (1.76%) aligned 0 times 31759364 (82.80%) aligned exactly 1 time 5921798 (15.44%) aligned >1 times 98.24% overall alignment rate Time searching: 00:07:52 Overall time: 00:07:53 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 16 files... [bam_rmdupse_core] 25387221 / 37681162 = 0.6737 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:27:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.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 @ Tue, 10 Dec 2019 14:27:43: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:27:43: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:27:52: 1000000 INFO @ Tue, 10 Dec 2019 14:28:01: 2000000 INFO @ Tue, 10 Dec 2019 14:28:10: 3000000 INFO @ Tue, 10 Dec 2019 14:28:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.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 @ Tue, 10 Dec 2019 14:28:12: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:28:12: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:28:19: 4000000 INFO @ Tue, 10 Dec 2019 14:28:20: 1000000 INFO @ Tue, 10 Dec 2019 14:28:28: 5000000 INFO @ Tue, 10 Dec 2019 14:28:28: 2000000 INFO @ Tue, 10 Dec 2019 14:28:36: 3000000 INFO @ Tue, 10 Dec 2019 14:28:36: 6000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:28:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.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 @ Tue, 10 Dec 2019 14:28:42: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:28:42: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:28:44: 4000000 INFO @ Tue, 10 Dec 2019 14:28:45: 7000000 INFO @ Tue, 10 Dec 2019 14:28:51: 1000000 INFO @ Tue, 10 Dec 2019 14:28:53: 5000000 INFO @ Tue, 10 Dec 2019 14:28:54: 8000000 INFO @ Tue, 10 Dec 2019 14:29:01: 2000000 INFO @ Tue, 10 Dec 2019 14:29:02: 6000000 INFO @ Tue, 10 Dec 2019 14:29:03: 9000000 INFO @ Tue, 10 Dec 2019 14:29:10: 3000000 INFO @ Tue, 10 Dec 2019 14:29:12: 7000000 INFO @ Tue, 10 Dec 2019 14:29:12: 10000000 INFO @ Tue, 10 Dec 2019 14:29:18: 4000000 INFO @ Tue, 10 Dec 2019 14:29:21: 8000000 INFO @ Tue, 10 Dec 2019 14:29:21: 11000000 INFO @ Tue, 10 Dec 2019 14:29:27: 5000000 INFO @ Tue, 10 Dec 2019 14:29:30: 12000000 INFO @ Tue, 10 Dec 2019 14:29:30: 9000000 INFO @ Tue, 10 Dec 2019 14:29:32: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:29:32: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:29:32: #1 total tags in treatment: 12293941 INFO @ Tue, 10 Dec 2019 14:29:32: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:29:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:29:32: #1 tags after filtering in treatment: 12293941 INFO @ Tue, 10 Dec 2019 14:29:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:29:32: #1 finished! INFO @ Tue, 10 Dec 2019 14:29:32: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:29:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:29:33: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:29:33: 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 @ Tue, 10 Dec 2019 14:29:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.05_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/SRX6635444/SRX6635444.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:29:36: 6000000 INFO @ Tue, 10 Dec 2019 14:29:39: 10000000 INFO @ Tue, 10 Dec 2019 14:29:45: 7000000 INFO @ Tue, 10 Dec 2019 14:29:47: 11000000 INFO @ Tue, 10 Dec 2019 14:29:53: 8000000 INFO @ Tue, 10 Dec 2019 14:29:55: 12000000 INFO @ Tue, 10 Dec 2019 14:29:57: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:29:57: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:29:57: #1 total tags in treatment: 12293941 INFO @ Tue, 10 Dec 2019 14:29:57: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:29:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:29:57: #1 tags after filtering in treatment: 12293941 INFO @ Tue, 10 Dec 2019 14:29:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:29:57: #1 finished! INFO @ Tue, 10 Dec 2019 14:29:57: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:29:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:29:58: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:29:58: 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 @ Tue, 10 Dec 2019 14:29:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.10_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/SRX6635444/SRX6635444.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:30:01: 9000000 INFO @ Tue, 10 Dec 2019 14:30:09: 10000000 INFO @ Tue, 10 Dec 2019 14:30:17: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:30:25: 12000000 INFO @ Tue, 10 Dec 2019 14:30:27: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:30:27: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:30:27: #1 total tags in treatment: 12293941 INFO @ Tue, 10 Dec 2019 14:30:27: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:30:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:30:28: #1 tags after filtering in treatment: 12293941 INFO @ Tue, 10 Dec 2019 14:30:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:30:28: #1 finished! INFO @ Tue, 10 Dec 2019 14:30:28: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:30:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:30:29: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:30:29: 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 @ Tue, 10 Dec 2019 14:30:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.20_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/SRX6635444/SRX6635444.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635444/SRX6635444.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。