Job ID = 2640859 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 29,146,647 reads read : 58,293,294 reads written : 29,146,647 reads 0-length : 29,146,647 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: 00:04:18 29146647 reads; of these: 29146647 (100.00%) were unpaired; of these: 6713117 (23.03%) aligned 0 times 20224292 (69.39%) aligned exactly 1 time 2209238 (7.58%) aligned >1 times 76.97% overall alignment rate Time searching: 00:04:18 Overall time: 00:04:18 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 12 files... [bam_rmdupse_core] 12005809 / 22433530 = 0.5352 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:48:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.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 19:48:05: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:48:05: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:48:13: 1000000 INFO @ Sat, 24 Aug 2019 19:48:20: 2000000 INFO @ Sat, 24 Aug 2019 19:48:27: 3000000 INFO @ Sat, 24 Aug 2019 19:48:34: 4000000 INFO @ Sat, 24 Aug 2019 19:48:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.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 19:48:35: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:48:35: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:48:42: 5000000 INFO @ Sat, 24 Aug 2019 19:48:46: 1000000 INFO @ Sat, 24 Aug 2019 19:48:49: 6000000 INFO @ Sat, 24 Aug 2019 19:48:57: 7000000 INFO @ Sat, 24 Aug 2019 19:48:58: 2000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:49:04: 8000000 INFO @ Sat, 24 Aug 2019 19:49:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.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 19:49:05: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:05: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:49:09: 3000000 INFO @ Sat, 24 Aug 2019 19:49:12: 9000000 INFO @ Sat, 24 Aug 2019 19:49:17: 1000000 INFO @ Sat, 24 Aug 2019 19:49:19: 10000000 INFO @ Sat, 24 Aug 2019 19:49:21: 4000000 INFO @ Sat, 24 Aug 2019 19:49:22: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:49:22: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:49:22: #1 total tags in treatment: 10427721 INFO @ Sat, 24 Aug 2019 19:49:22: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:49:22: #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 19:49:22: #1 tags after filtering in treatment: 10427721 INFO @ Sat, 24 Aug 2019 19:49:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:49:22: #1 finished! INFO @ Sat, 24 Aug 2019 19:49:22: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:49:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:49:23: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:49:23: 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 19:49:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.05_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/SRX3944355/SRX3944355.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:49:30: 2000000 INFO @ Sat, 24 Aug 2019 19:49:33: 5000000 INFO @ Sat, 24 Aug 2019 19:49:42: 3000000 INFO @ Sat, 24 Aug 2019 19:49:45: 6000000 INFO @ Sat, 24 Aug 2019 19:49:54: 4000000 INFO @ Sat, 24 Aug 2019 19:49:57: 7000000 INFO @ Sat, 24 Aug 2019 19:50:05: 5000000 INFO @ Sat, 24 Aug 2019 19:50:09: 8000000 INFO @ Sat, 24 Aug 2019 19:50:17: 6000000 INFO @ Sat, 24 Aug 2019 19:50:21: 9000000 INFO @ Sat, 24 Aug 2019 19:50:29: 7000000 INFO @ Sat, 24 Aug 2019 19:50:32: 10000000 INFO @ Sat, 24 Aug 2019 19:50:36: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:50:36: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:50:36: #1 total tags in treatment: 10427721 INFO @ Sat, 24 Aug 2019 19:50:36: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:50:36: #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 19:50:37: #1 tags after filtering in treatment: 10427721 INFO @ Sat, 24 Aug 2019 19:50:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:50:37: #1 finished! INFO @ Sat, 24 Aug 2019 19:50:37: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:50:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:50:37: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:50:37: 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 19:50:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.10_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/SRX3944355/SRX3944355.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:50:40: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 19:50:51: 9000000 BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 19:51:01: 10000000 INFO @ Sat, 24 Aug 2019 19:51:05: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:51:05: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:51:05: #1 total tags in treatment: 10427721 INFO @ Sat, 24 Aug 2019 19:51:05: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:51:05: #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 19:51:05: #1 tags after filtering in treatment: 10427721 INFO @ Sat, 24 Aug 2019 19:51:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:51:05: #1 finished! INFO @ Sat, 24 Aug 2019 19:51:05: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:51:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:51:06: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:51:06: 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 19:51:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.20_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/SRX3944355/SRX3944355.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944355/SRX3944355.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling