Job ID = 2640851 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 20,173,174 reads read : 40,346,348 reads written : 20,173,174 reads 0-length : 20,173,174 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: 00:03:34 20173174 reads; of these: 20173174 (100.00%) were unpaired; of these: 3585051 (17.77%) aligned 0 times 15455212 (76.61%) aligned exactly 1 time 1132911 (5.62%) aligned >1 times 82.23% overall alignment rate Time searching: 00:03:34 Overall time: 00:03:34 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] 6864132 / 16588123 = 0.4138 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:41:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.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 19:41:15: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:41:15: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:41:21: 1000000 INFO @ Sat, 24 Aug 2019 19:41:27: 2000000 INFO @ Sat, 24 Aug 2019 19:41:33: 3000000 INFO @ Sat, 24 Aug 2019 19:41:39: 4000000 INFO @ Sat, 24 Aug 2019 19:41:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.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 19:41:44: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:41:44: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:41:45: 5000000 INFO @ Sat, 24 Aug 2019 19:41:50: 1000000 INFO @ Sat, 24 Aug 2019 19:41:51: 6000000 INFO @ Sat, 24 Aug 2019 19:41:56: 2000000 INFO @ Sat, 24 Aug 2019 19:41:57: 7000000 INFO @ Sat, 24 Aug 2019 19:42:02: 3000000 INFO @ Sat, 24 Aug 2019 19:42:03: 8000000 INFO @ Sat, 24 Aug 2019 19:42:09: 4000000 INFO @ Sat, 24 Aug 2019 19:42:09: 9000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:42:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.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 19:42:14: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:42:14: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:42:14: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:42:14: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:42:14: #1 total tags in treatment: 9723991 INFO @ Sat, 24 Aug 2019 19:42:14: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:42:14: #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 19:42:14: #1 tags after filtering in treatment: 9723991 INFO @ Sat, 24 Aug 2019 19:42:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:42:14: #1 finished! INFO @ Sat, 24 Aug 2019 19:42:14: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:42:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:42:15: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:42:15: 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 19:42:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.05_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/SRX3944348/SRX3944348.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:42:15: 5000000 INFO @ Sat, 24 Aug 2019 19:42:22: 6000000 INFO @ Sat, 24 Aug 2019 19:42:22: 1000000 INFO @ Sat, 24 Aug 2019 19:42:28: 7000000 INFO @ Sat, 24 Aug 2019 19:42:30: 2000000 INFO @ Sat, 24 Aug 2019 19:42:34: 8000000 INFO @ Sat, 24 Aug 2019 19:42:38: 3000000 INFO @ Sat, 24 Aug 2019 19:42:40: 9000000 INFO @ Sat, 24 Aug 2019 19:42:44: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:42:44: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:42:44: #1 total tags in treatment: 9723991 INFO @ Sat, 24 Aug 2019 19:42:44: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:42:44: #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 19:42:44: #1 tags after filtering in treatment: 9723991 INFO @ Sat, 24 Aug 2019 19:42:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:42:44: #1 finished! INFO @ Sat, 24 Aug 2019 19:42:44: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:42:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:42:45: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:42:45: 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 19:42:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.10_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/SRX3944348/SRX3944348.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:42:45: 4000000 INFO @ Sat, 24 Aug 2019 19:42:53: 5000000 INFO @ Sat, 24 Aug 2019 19:43:00: 6000000 INFO @ Sat, 24 Aug 2019 19:43:08: 7000000 INFO @ Sat, 24 Aug 2019 19:43:15: 8000000 INFO @ Sat, 24 Aug 2019 19:43:23: 9000000 INFO @ Sat, 24 Aug 2019 19:43:28: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:43:28: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:43:28: #1 total tags in treatment: 9723991 INFO @ Sat, 24 Aug 2019 19:43:28: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:43:28: #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 19:43:29: #1 tags after filtering in treatment: 9723991 INFO @ Sat, 24 Aug 2019 19:43:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:43:29: #1 finished! INFO @ Sat, 24 Aug 2019 19:43:29: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:43:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:43:29: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:43:29: 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 19:43:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.20_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/SRX3944348/SRX3944348.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944348/SRX3944348.20_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。