Job ID = 2640936 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 25,004,301 reads read : 25,004,301 reads written : 25,004,301 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: 00:08:51 25004301 reads; of these: 25004301 (100.00%) were unpaired; of these: 1666187 (6.66%) aligned 0 times 21166779 (84.65%) aligned exactly 1 time 2171335 (8.68%) aligned >1 times 93.34% overall alignment rate Time searching: 00:08:52 Overall time: 00:08:52 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] 13382771 / 23338114 = 0.5734 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:31:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.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 20:31:47: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:31:47: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:31:58: 1000000 INFO @ Sat, 24 Aug 2019 20:32:08: 2000000 INFO @ Sat, 24 Aug 2019 20:32:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.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 20:32:16: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:32:16: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:32:19: 3000000 INFO @ Sat, 24 Aug 2019 20:32:27: 1000000 INFO @ Sat, 24 Aug 2019 20:32:30: 4000000 INFO @ Sat, 24 Aug 2019 20:32:38: 2000000 INFO @ Sat, 24 Aug 2019 20:32:40: 5000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:32:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.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 20:32:46: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:32:46: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:32:48: 3000000 INFO @ Sat, 24 Aug 2019 20:32:51: 6000000 INFO @ Sat, 24 Aug 2019 20:32:57: 1000000 INFO @ Sat, 24 Aug 2019 20:32:59: 4000000 INFO @ Sat, 24 Aug 2019 20:33:02: 7000000 INFO @ Sat, 24 Aug 2019 20:33:07: 2000000 INFO @ Sat, 24 Aug 2019 20:33:10: 5000000 INFO @ Sat, 24 Aug 2019 20:33:13: 8000000 INFO @ Sat, 24 Aug 2019 20:33:18: 3000000 INFO @ Sat, 24 Aug 2019 20:33:21: 6000000 INFO @ Sat, 24 Aug 2019 20:33:24: 9000000 INFO @ Sat, 24 Aug 2019 20:33:28: 4000000 INFO @ Sat, 24 Aug 2019 20:33:31: 7000000 INFO @ Sat, 24 Aug 2019 20:33:34: #1 tag size is determined as 101 bps INFO @ Sat, 24 Aug 2019 20:33:34: #1 tag size = 101 INFO @ Sat, 24 Aug 2019 20:33:34: #1 total tags in treatment: 9955343 INFO @ Sat, 24 Aug 2019 20:33:34: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:33:34: #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 20:33:34: #1 tags after filtering in treatment: 9955343 INFO @ Sat, 24 Aug 2019 20:33:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:33:34: #1 finished! INFO @ Sat, 24 Aug 2019 20:33:34: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:33:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:33:35: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:33:35: 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 20:33:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.05_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/SRX4703457/SRX4703457.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:33:39: 5000000 INFO @ Sat, 24 Aug 2019 20:33:42: 8000000 INFO @ Sat, 24 Aug 2019 20:33:49: 6000000 INFO @ Sat, 24 Aug 2019 20:33:53: 9000000 INFO @ Sat, 24 Aug 2019 20:33:59: 7000000 INFO @ Sat, 24 Aug 2019 20:34:03: #1 tag size is determined as 101 bps INFO @ Sat, 24 Aug 2019 20:34:03: #1 tag size = 101 INFO @ Sat, 24 Aug 2019 20:34:03: #1 total tags in treatment: 9955343 INFO @ Sat, 24 Aug 2019 20:34:03: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:34:03: #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 20:34:03: #1 tags after filtering in treatment: 9955343 INFO @ Sat, 24 Aug 2019 20:34:03: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:34:03: #1 finished! INFO @ Sat, 24 Aug 2019 20:34:03: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:34:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:34:04: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:34:04: 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 20:34:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.10_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/SRX4703457/SRX4703457.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:34:09: 8000000 INFO @ Sat, 24 Aug 2019 20:34:19: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 20:34:29: #1 tag size is determined as 101 bps INFO @ Sat, 24 Aug 2019 20:34:29: #1 tag size = 101 INFO @ Sat, 24 Aug 2019 20:34:29: #1 total tags in treatment: 9955343 INFO @ Sat, 24 Aug 2019 20:34:29: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:34:29: #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 20:34:29: #1 tags after filtering in treatment: 9955343 INFO @ Sat, 24 Aug 2019 20:34:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:34:29: #1 finished! INFO @ Sat, 24 Aug 2019 20:34:29: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:34:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:34:30: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:34:30: 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 20:34:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.20_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/SRX4703457/SRX4703457.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4703457/SRX4703457.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。