Job ID = 4289204 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 17,125,353 reads read : 34,250,706 reads written : 17,125,353 reads 0-length : 17,125,353 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: 00:03:02 17125353 reads; of these: 17125353 (100.00%) were unpaired; of these: 847019 (4.95%) aligned 0 times 12902367 (75.34%) aligned exactly 1 time 3375967 (19.71%) aligned >1 times 95.05% overall alignment rate Time searching: 00:03:02 Overall time: 00:03:02 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] 8256765 / 16278334 = 0.5072 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 13:56:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.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 13:56:19: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:56:19: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:56:26: 1000000 INFO @ Tue, 10 Dec 2019 13:56:34: 2000000 INFO @ Tue, 10 Dec 2019 13:56:42: 3000000 INFO @ Tue, 10 Dec 2019 13:56:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.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 13:56:48: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:56:48: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:56:49: 4000000 INFO @ Tue, 10 Dec 2019 13:56:56: 1000000 INFO @ Tue, 10 Dec 2019 13:56:57: 5000000 INFO @ Tue, 10 Dec 2019 13:57:04: 2000000 INFO @ Tue, 10 Dec 2019 13:57:05: 6000000 INFO @ Tue, 10 Dec 2019 13:57:12: 3000000 INFO @ Tue, 10 Dec 2019 13:57:13: 7000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 13:57:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.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 13:57:19: #1 read tag files... INFO @ Tue, 10 Dec 2019 13:57:19: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 13:57:20: 4000000 INFO @ Tue, 10 Dec 2019 13:57:21: 8000000 INFO @ Tue, 10 Dec 2019 13:57:21: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:57:21: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:57:21: #1 total tags in treatment: 8021569 INFO @ Tue, 10 Dec 2019 13:57:21: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:57:21: #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 13:57:21: #1 tags after filtering in treatment: 8021569 INFO @ Tue, 10 Dec 2019 13:57:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:57:21: #1 finished! INFO @ Tue, 10 Dec 2019 13:57:21: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:57:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:57:22: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:57:22: 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 @ Tue, 10 Dec 2019 13:57:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.05_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/SRX6635417/SRX6635417.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:57:28: 5000000 INFO @ Tue, 10 Dec 2019 13:57:30: 1000000 INFO @ Tue, 10 Dec 2019 13:57:35: 6000000 INFO @ Tue, 10 Dec 2019 13:57:42: 2000000 INFO @ Tue, 10 Dec 2019 13:57:43: 7000000 INFO @ Tue, 10 Dec 2019 13:57:51: 8000000 INFO @ Tue, 10 Dec 2019 13:57:51: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:57:51: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:57:51: #1 total tags in treatment: 8021569 INFO @ Tue, 10 Dec 2019 13:57:51: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:57:51: #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 13:57:51: #1 tags after filtering in treatment: 8021569 INFO @ Tue, 10 Dec 2019 13:57:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:57:51: #1 finished! INFO @ Tue, 10 Dec 2019 13:57:51: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:57:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:57:52: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:57:52: 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 13:57:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.10_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/SRX6635417/SRX6635417.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:57:53: 3000000 INFO @ Tue, 10 Dec 2019 13:58:05: 4000000 INFO @ Tue, 10 Dec 2019 13:58:15: 5000000 INFO @ Tue, 10 Dec 2019 13:58:26: 6000000 INFO @ Tue, 10 Dec 2019 13:58:37: 7000000 INFO @ Tue, 10 Dec 2019 13:58:47: 8000000 INFO @ Tue, 10 Dec 2019 13:58:47: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:58:47: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:58:47: #1 total tags in treatment: 8021569 INFO @ Tue, 10 Dec 2019 13:58:47: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:58:47: #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 13:58:48: #1 tags after filtering in treatment: 8021569 INFO @ Tue, 10 Dec 2019 13:58:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:58:48: #1 finished! INFO @ Tue, 10 Dec 2019 13:58:48: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:58:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:58:48: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 13:58:48: 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 @ Tue, 10 Dec 2019 13:58:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.20_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/SRX6635417/SRX6635417.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635417/SRX6635417.20_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。