Job ID = 2010691 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,008,372 reads read : 18,016,744 reads written : 18,016,744 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: 00:04:59 9008372 reads; of these: 9008372 (100.00%) were paired; of these: 3756568 (41.70%) aligned concordantly 0 times 4512463 (50.09%) aligned concordantly exactly 1 time 739341 (8.21%) aligned concordantly >1 times ---- 3756568 pairs aligned concordantly 0 times; of these: 12056 (0.32%) aligned discordantly 1 time ---- 3744512 pairs aligned 0 times concordantly or discordantly; of these: 7489024 mates make up the pairs; of these: 5331103 (71.19%) aligned 0 times 1832113 (24.46%) aligned exactly 1 time 325808 (4.35%) aligned >1 times 70.41% overall alignment rate Time searching: 00:04:59 Overall time: 00:04:59 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_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 384889 / 5262969 = 0.0731 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 00:06:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.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 00:06:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:06:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:06:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.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 00:06:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:06:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:06:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.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 00:06:09: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:06:09: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:06:15: 1000000 INFO @ Sat, 06 Jul 2019 00:06:16: 1000000 INFO @ Sat, 06 Jul 2019 00:06:17: 1000000 INFO @ Sat, 06 Jul 2019 00:06:21: 2000000 INFO @ Sat, 06 Jul 2019 00:06:24: 2000000 INFO @ Sat, 06 Jul 2019 00:06:26: 2000000 INFO @ Sat, 06 Jul 2019 00:06:28: 3000000 INFO @ Sat, 06 Jul 2019 00:06:31: 3000000 INFO @ Sat, 06 Jul 2019 00:06:34: 4000000 INFO @ Sat, 06 Jul 2019 00:06:35: 3000000 INFO @ Sat, 06 Jul 2019 00:06:39: 4000000 INFO @ Sat, 06 Jul 2019 00:06:40: 5000000 INFO @ Sat, 06 Jul 2019 00:06:44: 4000000 INFO @ Sat, 06 Jul 2019 00:06:46: 6000000 INFO @ Sat, 06 Jul 2019 00:06:47: 5000000 INFO @ Sat, 06 Jul 2019 00:06:52: 7000000 INFO @ Sat, 06 Jul 2019 00:06:53: 5000000 INFO @ Sat, 06 Jul 2019 00:06:54: 6000000 INFO @ Sat, 06 Jul 2019 00:06:58: 8000000 INFO @ Sat, 06 Jul 2019 00:07:01: 7000000 INFO @ Sat, 06 Jul 2019 00:07:02: 6000000 INFO @ Sat, 06 Jul 2019 00:07:04: 9000000 INFO @ Sat, 06 Jul 2019 00:07:09: 8000000 INFO @ Sat, 06 Jul 2019 00:07:10: 10000000 INFO @ Sat, 06 Jul 2019 00:07:11: 7000000 INFO @ Sat, 06 Jul 2019 00:07:16: 9000000 INFO @ Sat, 06 Jul 2019 00:07:16: 11000000 INFO @ Sat, 06 Jul 2019 00:07:19: 8000000 INFO @ Sat, 06 Jul 2019 00:07:22: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 00:07:22: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 00:07:22: #1 total tags in treatment: 4867050 INFO @ Sat, 06 Jul 2019 00:07:22: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:07:22: #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 00:07:22: #1 tags after filtering in treatment: 3104290 INFO @ Sat, 06 Jul 2019 00:07:22: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 00:07:22: #1 finished! INFO @ Sat, 06 Jul 2019 00:07:22: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:07:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:07:22: #2 number of paired peaks: 14 WARNING @ Sat, 06 Jul 2019 00:07:22: Too few paired peaks (14) 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 00:07:22: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 00:07:23: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.20_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/SRX3865918/SRX3865918.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:07:28: 9000000 INFO @ Sat, 06 Jul 2019 00:07:30: 11000000 INFO @ Sat, 06 Jul 2019 00:07:36: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 00:07:36: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 00:07:36: #1 total tags in treatment: 4867050 INFO @ Sat, 06 Jul 2019 00:07:36: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:07:36: #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 00:07:36: #1 tags after filtering in treatment: 3104290 INFO @ Sat, 06 Jul 2019 00:07:36: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 00:07:36: #1 finished! INFO @ Sat, 06 Jul 2019 00:07:36: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:07:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:07:36: #2 number of paired peaks: 14 WARNING @ Sat, 06 Jul 2019 00:07:36: Too few paired peaks (14) 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 00:07:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.10_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/SRX3865918/SRX3865918.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:07:37: 10000000 INFO @ Sat, 06 Jul 2019 00:07:46: 11000000 INFO @ Sat, 06 Jul 2019 00:07:53: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 00:07:53: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 00:07:53: #1 total tags in treatment: 4867050 INFO @ Sat, 06 Jul 2019 00:07:53: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:07:53: #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 00:07:54: #1 tags after filtering in treatment: 3104290 INFO @ Sat, 06 Jul 2019 00:07:54: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 06 Jul 2019 00:07:54: #1 finished! INFO @ Sat, 06 Jul 2019 00:07:54: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:07:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:07:54: #2 number of paired peaks: 14 WARNING @ Sat, 06 Jul 2019 00:07:54: Too few paired peaks (14) 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 00:07:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.05_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/SRX3865918/SRX3865918.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3865918/SRX3865918.05_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。