Job ID = 2010902 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 17,385,052 reads read : 34,770,104 reads written : 17,385,052 reads 0-length : 17,385,052 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: 00:03:00 17385052 reads; of these: 17385052 (100.00%) were unpaired; of these: 814364 (4.68%) aligned 0 times 15820561 (91.00%) aligned exactly 1 time 750127 (4.31%) aligned >1 times 95.32% overall alignment rate Time searching: 00:03:00 Overall time: 00:03:00 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] 8022292 / 16570688 = 0.4841 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 01:24:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.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 01:24:06: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:24:06: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:24:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.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 01:24:07: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:24:07: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:24:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.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 01:24:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:24:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:24:15: 1000000 INFO @ Sat, 06 Jul 2019 01:24:15: 1000000 INFO @ Sat, 06 Jul 2019 01:24:16: 1000000 INFO @ Sat, 06 Jul 2019 01:24:22: 2000000 INFO @ Sat, 06 Jul 2019 01:24:24: 2000000 INFO @ Sat, 06 Jul 2019 01:24:26: 2000000 INFO @ Sat, 06 Jul 2019 01:24:29: 3000000 INFO @ Sat, 06 Jul 2019 01:24:33: 3000000 INFO @ Sat, 06 Jul 2019 01:24:35: 3000000 INFO @ Sat, 06 Jul 2019 01:24:35: 4000000 INFO @ Sat, 06 Jul 2019 01:24:41: 5000000 INFO @ Sat, 06 Jul 2019 01:24:42: 4000000 INFO @ Sat, 06 Jul 2019 01:24:44: 4000000 INFO @ Sat, 06 Jul 2019 01:24:48: 6000000 INFO @ Sat, 06 Jul 2019 01:24:52: 5000000 INFO @ Sat, 06 Jul 2019 01:24:54: 5000000 INFO @ Sat, 06 Jul 2019 01:24:54: 7000000 INFO @ Sat, 06 Jul 2019 01:25:00: 8000000 INFO @ Sat, 06 Jul 2019 01:25:02: 6000000 INFO @ Sat, 06 Jul 2019 01:25:03: 6000000 INFO @ Sat, 06 Jul 2019 01:25:04: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 01:25:04: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 01:25:04: #1 total tags in treatment: 8548396 INFO @ Sat, 06 Jul 2019 01:25:04: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:25:04: #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 01:25:04: #1 tags after filtering in treatment: 8548396 INFO @ Sat, 06 Jul 2019 01:25:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:25:04: #1 finished! INFO @ Sat, 06 Jul 2019 01:25:04: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:25:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:25:05: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:25:05: 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 01:25:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.20_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/SRX4225341/SRX4225341.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:25:11: 7000000 INFO @ Sat, 06 Jul 2019 01:25:13: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 01:25:21: 8000000 INFO @ Sat, 06 Jul 2019 01:25:22: 8000000 INFO @ Sat, 06 Jul 2019 01:25:26: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 01:25:26: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 01:25:26: #1 total tags in treatment: 8548396 INFO @ Sat, 06 Jul 2019 01:25:26: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:25:26: #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 01:25:26: #1 tags after filtering in treatment: 8548396 INFO @ Sat, 06 Jul 2019 01:25:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:25:26: #1 finished! INFO @ Sat, 06 Jul 2019 01:25:26: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:25:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:25:27: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:25:27: 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 01:25:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.05_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/SRX4225341/SRX4225341.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:25:27: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 01:25:27: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 01:25:27: #1 total tags in treatment: 8548396 INFO @ Sat, 06 Jul 2019 01:25:27: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:25:27: #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 01:25:27: #1 tags after filtering in treatment: 8548396 INFO @ Sat, 06 Jul 2019 01:25:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:25:27: #1 finished! INFO @ Sat, 06 Jul 2019 01:25:27: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:25:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:25:28: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:25:28: 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 01:25:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.10_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/SRX4225341/SRX4225341.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4225341/SRX4225341.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。