Job ID = 2640828 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 9,781,564 reads read : 9,781,564 reads written : 9,781,564 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR6322055.sra.cache’: 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: 00:01:58 9781564 reads; of these: 9781564 (100.00%) were unpaired; of these: 410986 (4.20%) aligned 0 times 8189570 (83.72%) aligned exactly 1 time 1181008 (12.07%) aligned >1 times 95.80% overall alignment rate Time searching: 00:01:58 Overall time: 00:01:58 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_rmdupse_core] 2206224 / 9370578 = 0.2354 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:26:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.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 19:26:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:26:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:26:16: 1000000 INFO @ Sat, 24 Aug 2019 19:26:24: 2000000 INFO @ Sat, 24 Aug 2019 19:26:32: 3000000 INFO @ Sat, 24 Aug 2019 19:26:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.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 19:26:37: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:26:37: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:26:39: 4000000 INFO @ Sat, 24 Aug 2019 19:26:44: 1000000 INFO @ Sat, 24 Aug 2019 19:26:47: 5000000 INFO @ Sat, 24 Aug 2019 19:26:52: 2000000 INFO @ Sat, 24 Aug 2019 19:26:55: 6000000 INFO @ Sat, 24 Aug 2019 19:26:59: 3000000 INFO @ Sat, 24 Aug 2019 19:27:02: 7000000 INFO @ Sat, 24 Aug 2019 19:27:04: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:27:04: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:27:04: #1 total tags in treatment: 7164354 INFO @ Sat, 24 Aug 2019 19:27:04: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:27:04: #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 19:27:04: #1 tags after filtering in treatment: 7164354 INFO @ Sat, 24 Aug 2019 19:27:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:27:04: #1 finished! INFO @ Sat, 24 Aug 2019 19:27:04: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:27:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:27:04: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:27:04: 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 19:27:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.05_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/SRX3421878/SRX3421878.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:27:06: 4000000 INFO @ Sat, 24 Aug 2019 19:27:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.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 19:27:07: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:27:07: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:27:13: 5000000 INFO @ Sat, 24 Aug 2019 19:27:15: 1000000 INFO @ Sat, 24 Aug 2019 19:27:20: 6000000 INFO @ Sat, 24 Aug 2019 19:27:23: 2000000 INFO @ Sat, 24 Aug 2019 19:27:27: 7000000 INFO @ Sat, 24 Aug 2019 19:27:29: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:27:29: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:27:29: #1 total tags in treatment: 7164354 INFO @ Sat, 24 Aug 2019 19:27:29: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:27:29: #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 19:27:29: #1 tags after filtering in treatment: 7164354 INFO @ Sat, 24 Aug 2019 19:27:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:27:29: #1 finished! INFO @ Sat, 24 Aug 2019 19:27:29: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:27:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:27:29: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:27:29: 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 @ Sat, 24 Aug 2019 19:27:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.10_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/SRX3421878/SRX3421878.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:27:31: 3000000 INFO @ Sat, 24 Aug 2019 19:27:39: 4000000 INFO @ Sat, 24 Aug 2019 19:27:46: 5000000 INFO @ Sat, 24 Aug 2019 19:27:54: 6000000 INFO @ Sat, 24 Aug 2019 19:28:01: 7000000 INFO @ Sat, 24 Aug 2019 19:28:03: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:28:03: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:28:03: #1 total tags in treatment: 7164354 INFO @ Sat, 24 Aug 2019 19:28:03: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:28:03: #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 19:28:03: #1 tags after filtering in treatment: 7164354 INFO @ Sat, 24 Aug 2019 19:28:03: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:28:03: #1 finished! INFO @ Sat, 24 Aug 2019 19:28:03: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:28:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:28:03: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:28:03: 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 19:28:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.20_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/SRX3421878/SRX3421878.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421878/SRX3421878.20_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。