Job ID = 2010796 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 15,205,870 reads read : 30,411,740 reads written : 15,205,870 reads 0-length : 15,205,870 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: 00:05:27 15205870 reads; of these: 15205870 (100.00%) were unpaired; of these: 1491204 (9.81%) aligned 0 times 11969170 (78.71%) aligned exactly 1 time 1745496 (11.48%) aligned >1 times 90.19% overall alignment rate Time searching: 00:05:27 Overall time: 00:05:27 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] 5649408 / 13714666 = 0.4119 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 @ Sat, 06 Jul 2019 01:03:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.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, 06 Jul 2019 01:03:24: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:03:24: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:03:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.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, 06 Jul 2019 01:03:25: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:03:25: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:03:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.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, 06 Jul 2019 01:03:26: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:03:26: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:03:36: 1000000 INFO @ Sat, 06 Jul 2019 01:03:40: 1000000 INFO @ Sat, 06 Jul 2019 01:03:40: 1000000 INFO @ Sat, 06 Jul 2019 01:03:47: 2000000 INFO @ Sat, 06 Jul 2019 01:03:54: 2000000 INFO @ Sat, 06 Jul 2019 01:03:55: 2000000 INFO @ Sat, 06 Jul 2019 01:03:59: 3000000 INFO @ Sat, 06 Jul 2019 01:04:08: 3000000 INFO @ Sat, 06 Jul 2019 01:04:10: 4000000 INFO @ Sat, 06 Jul 2019 01:04:10: 3000000 INFO @ Sat, 06 Jul 2019 01:04:21: 5000000 INFO @ Sat, 06 Jul 2019 01:04:22: 4000000 INFO @ Sat, 06 Jul 2019 01:04:24: 4000000 INFO @ Sat, 06 Jul 2019 01:04:32: 6000000 INFO @ Sat, 06 Jul 2019 01:04:35: 5000000 INFO @ Sat, 06 Jul 2019 01:04:39: 5000000 INFO @ Sat, 06 Jul 2019 01:04:43: 7000000 INFO @ Sat, 06 Jul 2019 01:04:48: 6000000 INFO @ Sat, 06 Jul 2019 01:04:53: 6000000 INFO @ Sat, 06 Jul 2019 01:04:54: 8000000 INFO @ Sat, 06 Jul 2019 01:04:55: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 01:04:55: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 01:04:55: #1 total tags in treatment: 8065258 INFO @ Sat, 06 Jul 2019 01:04:55: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:04:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:04:55: #1 tags after filtering in treatment: 8065258 INFO @ Sat, 06 Jul 2019 01:04:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:04:55: #1 finished! INFO @ Sat, 06 Jul 2019 01:04:55: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:04:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:04:56: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:04:56: 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, 06 Jul 2019 01:04:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.10_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/SRX4140907/SRX4140907.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 01:05:01: 7000000 INFO @ Sat, 06 Jul 2019 01:05:06: 7000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 01:05:15: 8000000 INFO @ Sat, 06 Jul 2019 01:05:16: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 01:05:16: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 01:05:16: #1 total tags in treatment: 8065258 INFO @ Sat, 06 Jul 2019 01:05:16: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:05:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:05:16: #1 tags after filtering in treatment: 8065258 INFO @ Sat, 06 Jul 2019 01:05:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:05:16: #1 finished! INFO @ Sat, 06 Jul 2019 01:05:16: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:05:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:05:16: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:05:16: 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, 06 Jul 2019 01:05:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.20_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/SRX4140907/SRX4140907.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:05:20: 8000000 INFO @ Sat, 06 Jul 2019 01:05:21: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 01:05:21: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 01:05:21: #1 total tags in treatment: 8065258 INFO @ Sat, 06 Jul 2019 01:05:21: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:05:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:05:21: #1 tags after filtering in treatment: 8065258 INFO @ Sat, 06 Jul 2019 01:05:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:05:21: #1 finished! INFO @ Sat, 06 Jul 2019 01:05:21: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:05:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:05:22: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:05:22: 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 @ Sat, 06 Jul 2019 01:05:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.05_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/SRX4140907/SRX4140907.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140907/SRX4140907.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling