Job ID = 2010307 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 56,111,258 reads read : 112,222,516 reads written : 56,111,258 reads 0-length : 56,111,258 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: 00:10:23 56111258 reads; of these: 56111258 (100.00%) were unpaired; of these: 1930671 (3.44%) aligned 0 times 43480472 (77.49%) aligned exactly 1 time 10700115 (19.07%) aligned >1 times 96.56% overall alignment rate Time searching: 00:10:24 Overall time: 00:10:24 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 24 files... [bam_rmdupse_core] 36350505 / 54180587 = 0.6709 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 @ Fri, 05 Jul 2019 22:44:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.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 @ Fri, 05 Jul 2019 22:44:42: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:44:42: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:44:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.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 @ Fri, 05 Jul 2019 22:44:43: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:44:43: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:44:50: 1000000 INFO @ Fri, 05 Jul 2019 22:44:51: 1000000 INFO @ Fri, 05 Jul 2019 22:44:57: 2000000 INFO @ Fri, 05 Jul 2019 22:44:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.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 @ Fri, 05 Jul 2019 22:44:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:44:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:44:59: 2000000 INFO @ Fri, 05 Jul 2019 22:45:05: 3000000 INFO @ Fri, 05 Jul 2019 22:45:06: 1000000 INFO @ Fri, 05 Jul 2019 22:45:07: 3000000 INFO @ Fri, 05 Jul 2019 22:45:12: 4000000 INFO @ Fri, 05 Jul 2019 22:45:13: 2000000 INFO @ Fri, 05 Jul 2019 22:45:14: 4000000 INFO @ Fri, 05 Jul 2019 22:45:19: 5000000 INFO @ Fri, 05 Jul 2019 22:45:21: 5000000 INFO @ Fri, 05 Jul 2019 22:45:21: 3000000 INFO @ Fri, 05 Jul 2019 22:45:26: 6000000 INFO @ Fri, 05 Jul 2019 22:45:28: 4000000 INFO @ Fri, 05 Jul 2019 22:45:29: 6000000 INFO @ Fri, 05 Jul 2019 22:45:33: 7000000 INFO @ Fri, 05 Jul 2019 22:45:35: 5000000 INFO @ Fri, 05 Jul 2019 22:45:36: 7000000 INFO @ Fri, 05 Jul 2019 22:45:41: 8000000 INFO @ Fri, 05 Jul 2019 22:45:42: 6000000 INFO @ Fri, 05 Jul 2019 22:45:44: 8000000 INFO @ Fri, 05 Jul 2019 22:45:48: 9000000 INFO @ Fri, 05 Jul 2019 22:45:50: 7000000 INFO @ Fri, 05 Jul 2019 22:45:52: 9000000 INFO @ Fri, 05 Jul 2019 22:45:55: 10000000 INFO @ Fri, 05 Jul 2019 22:45:58: 8000000 INFO @ Fri, 05 Jul 2019 22:45:59: 10000000 INFO @ Fri, 05 Jul 2019 22:46:03: 11000000 INFO @ Fri, 05 Jul 2019 22:46:06: 9000000 INFO @ Fri, 05 Jul 2019 22:46:07: 11000000 INFO @ Fri, 05 Jul 2019 22:46:10: 12000000 INFO @ Fri, 05 Jul 2019 22:46:13: 10000000 INFO @ Fri, 05 Jul 2019 22:46:15: 12000000 INFO @ Fri, 05 Jul 2019 22:46:17: 13000000 INFO @ Fri, 05 Jul 2019 22:46:21: 11000000 INFO @ Fri, 05 Jul 2019 22:46:22: 13000000 INFO @ Fri, 05 Jul 2019 22:46:24: 14000000 INFO @ Fri, 05 Jul 2019 22:46:28: 12000000 INFO @ Fri, 05 Jul 2019 22:46:29: 14000000 INFO @ Fri, 05 Jul 2019 22:46:31: 15000000 INFO @ Fri, 05 Jul 2019 22:46:36: 13000000 INFO @ Fri, 05 Jul 2019 22:46:36: 15000000 INFO @ Fri, 05 Jul 2019 22:46:38: 16000000 INFO @ Fri, 05 Jul 2019 22:46:43: 14000000 INFO @ Fri, 05 Jul 2019 22:46:44: 16000000 INFO @ Fri, 05 Jul 2019 22:46:45: 17000000 INFO @ Fri, 05 Jul 2019 22:46:51: 15000000 INFO @ Fri, 05 Jul 2019 22:46:51: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:46:51: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:46:51: #1 total tags in treatment: 17830082 INFO @ Fri, 05 Jul 2019 22:46:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:46:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:46:51: 17000000 INFO @ Fri, 05 Jul 2019 22:46:51: #1 tags after filtering in treatment: 17830082 INFO @ Fri, 05 Jul 2019 22:46:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:46:51: #1 finished! INFO @ Fri, 05 Jul 2019 22:46:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:46:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:46:53: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:46:53: 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 @ Fri, 05 Jul 2019 22:46:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.05_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/SRX3334032/SRX3334032.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:46:57: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:46:57: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:46:57: #1 total tags in treatment: 17830082 INFO @ Fri, 05 Jul 2019 22:46:57: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:46:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:46:58: #1 tags after filtering in treatment: 17830082 INFO @ Fri, 05 Jul 2019 22:46:58: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:46:58: #1 finished! INFO @ Fri, 05 Jul 2019 22:46:58: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:46:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:46:58: 16000000 INFO @ Fri, 05 Jul 2019 22:46:59: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:46:59: 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 @ Fri, 05 Jul 2019 22:46:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.10_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/SRX3334032/SRX3334032.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:47:05: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 22:47:11: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:47:11: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:47:11: #1 total tags in treatment: 17830082 INFO @ Fri, 05 Jul 2019 22:47:11: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:47:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:47:12: #1 tags after filtering in treatment: 17830082 INFO @ Fri, 05 Jul 2019 22:47:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:47:12: #1 finished! INFO @ Fri, 05 Jul 2019 22:47:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:47:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:47:13: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:47:13: 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 @ Fri, 05 Jul 2019 22:47:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.20_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/SRX3334032/SRX3334032.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3334032/SRX3334032.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。