Job ID = 2009913 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,799,639 reads read : 17,599,278 reads written : 17,599,278 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: 00:07:11 8799639 reads; of these: 8799639 (100.00%) were paired; of these: 1540550 (17.51%) aligned concordantly 0 times 6223375 (70.72%) aligned concordantly exactly 1 time 1035714 (11.77%) aligned concordantly >1 times ---- 1540550 pairs aligned concordantly 0 times; of these: 315738 (20.50%) aligned discordantly 1 time ---- 1224812 pairs aligned 0 times concordantly or discordantly; of these: 2449624 mates make up the pairs; of these: 2022862 (82.58%) aligned 0 times 267865 (10.93%) aligned exactly 1 time 158897 (6.49%) aligned >1 times 88.51% overall alignment rate Time searching: 00:07:11 Overall time: 00:07:11 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_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] 231921 / 7567363 = 0.0306 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 @ Fri, 05 Jul 2019 20:58:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.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 @ Fri, 05 Jul 2019 20:58:25: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:58:25: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:58:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.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 @ Fri, 05 Jul 2019 20:58:26: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:58:26: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:58:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.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 @ Fri, 05 Jul 2019 20:58:27: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:58:27: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:58:34: 1000000 INFO @ Fri, 05 Jul 2019 20:58:34: 1000000 INFO @ Fri, 05 Jul 2019 20:58:36: 1000000 INFO @ Fri, 05 Jul 2019 20:58:42: 2000000 INFO @ Fri, 05 Jul 2019 20:58:43: 2000000 INFO @ Fri, 05 Jul 2019 20:58:43: 2000000 INFO @ Fri, 05 Jul 2019 20:58:51: 3000000 INFO @ Fri, 05 Jul 2019 20:58:52: 3000000 INFO @ Fri, 05 Jul 2019 20:58:52: 3000000 INFO @ Fri, 05 Jul 2019 20:58:59: 4000000 INFO @ Fri, 05 Jul 2019 20:59:01: 4000000 INFO @ Fri, 05 Jul 2019 20:59:01: 4000000 INFO @ Fri, 05 Jul 2019 20:59:07: 5000000 INFO @ Fri, 05 Jul 2019 20:59:10: 5000000 INFO @ Fri, 05 Jul 2019 20:59:11: 5000000 INFO @ Fri, 05 Jul 2019 20:59:15: 6000000 INFO @ Fri, 05 Jul 2019 20:59:19: 6000000 INFO @ Fri, 05 Jul 2019 20:59:20: 6000000 INFO @ Fri, 05 Jul 2019 20:59:23: 7000000 INFO @ Fri, 05 Jul 2019 20:59:28: 7000000 INFO @ Fri, 05 Jul 2019 20:59:29: 7000000 INFO @ Fri, 05 Jul 2019 20:59:31: 8000000 INFO @ Fri, 05 Jul 2019 20:59:37: 8000000 INFO @ Fri, 05 Jul 2019 20:59:38: 8000000 INFO @ Fri, 05 Jul 2019 20:59:39: 9000000 INFO @ Fri, 05 Jul 2019 20:59:46: 9000000 INFO @ Fri, 05 Jul 2019 20:59:47: 9000000 INFO @ Fri, 05 Jul 2019 20:59:47: 10000000 INFO @ Fri, 05 Jul 2019 20:59:56: 11000000 INFO @ Fri, 05 Jul 2019 20:59:56: 10000000 INFO @ Fri, 05 Jul 2019 20:59:57: 10000000 INFO @ Fri, 05 Jul 2019 21:00:04: 12000000 INFO @ Fri, 05 Jul 2019 21:00:05: 11000000 INFO @ Fri, 05 Jul 2019 21:00:06: 11000000 INFO @ Fri, 05 Jul 2019 21:00:13: 13000000 INFO @ Fri, 05 Jul 2019 21:00:15: 12000000 INFO @ Fri, 05 Jul 2019 21:00:16: 12000000 INFO @ Fri, 05 Jul 2019 21:00:21: 14000000 INFO @ Fri, 05 Jul 2019 21:00:24: 13000000 INFO @ Fri, 05 Jul 2019 21:00:25: 13000000 INFO @ Fri, 05 Jul 2019 21:00:29: 15000000 INFO @ Fri, 05 Jul 2019 21:00:30: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:00:30: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:00:30: #1 total tags in treatment: 7033954 INFO @ Fri, 05 Jul 2019 21:00:30: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:00:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:00:30: #1 tags after filtering in treatment: 4946341 INFO @ Fri, 05 Jul 2019 21:00:30: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 05 Jul 2019 21:00:30: #1 finished! INFO @ Fri, 05 Jul 2019 21:00:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:00:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:00:31: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:00:31: 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 @ Fri, 05 Jul 2019 21:00:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.10_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/SRX2339849/SRX2339849.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:00:34: 14000000 INFO @ Fri, 05 Jul 2019 21:00:34: 14000000 INFO @ Fri, 05 Jul 2019 21:00:43: 15000000 INFO @ Fri, 05 Jul 2019 21:00:44: 15000000 INFO @ Fri, 05 Jul 2019 21:00:44: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:00:44: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:00:44: #1 total tags in treatment: 7033954 INFO @ Fri, 05 Jul 2019 21:00:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:00:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:00:44: #1 tags after filtering in treatment: 4946341 INFO @ Fri, 05 Jul 2019 21:00:44: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 05 Jul 2019 21:00:44: #1 finished! INFO @ Fri, 05 Jul 2019 21:00:44: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:00:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:00:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:00:45: 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 @ Fri, 05 Jul 2019 21:00:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.05_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/SRX2339849/SRX2339849.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:00:45: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:00:45: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:00:45: #1 total tags in treatment: 7033954 INFO @ Fri, 05 Jul 2019 21:00:45: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:00:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:00:45: #1 tags after filtering in treatment: 4946341 INFO @ Fri, 05 Jul 2019 21:00:45: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 05 Jul 2019 21:00:45: #1 finished! INFO @ Fri, 05 Jul 2019 21:00:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:00:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:00:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:00:45: 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 @ Fri, 05 Jul 2019 21:00:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.20_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/SRX2339849/SRX2339849.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2339849/SRX2339849.20_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。