Job ID = 2009744 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,136,591 reads read : 20,273,182 reads written : 20,273,182 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: 00:08:00 10136591 reads; of these: 10136591 (100.00%) were paired; of these: 1019950 (10.06%) aligned concordantly 0 times 7944338 (78.37%) aligned concordantly exactly 1 time 1172303 (11.57%) aligned concordantly >1 times ---- 1019950 pairs aligned concordantly 0 times; of these: 581657 (57.03%) aligned discordantly 1 time ---- 438293 pairs aligned 0 times concordantly or discordantly; of these: 876586 mates make up the pairs; of these: 337711 (38.53%) aligned 0 times 271464 (30.97%) aligned exactly 1 time 267411 (30.51%) aligned >1 times 98.33% overall alignment rate Time searching: 00:08:00 Overall time: 00:08:00 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 12 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] 458285 / 9247288 = 0.0496 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 20:03:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.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 20:03:24: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:03:24: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:03:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.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 20:03:24: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:03:24: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:03:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.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 20:03:25: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:03:25: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:03:31: 1000000 INFO @ Fri, 05 Jul 2019 20:03:32: 1000000 INFO @ Fri, 05 Jul 2019 20:03:34: 1000000 INFO @ Fri, 05 Jul 2019 20:03:39: 2000000 INFO @ Fri, 05 Jul 2019 20:03:39: 2000000 INFO @ Fri, 05 Jul 2019 20:03:43: 2000000 INFO @ Fri, 05 Jul 2019 20:03:46: 3000000 INFO @ Fri, 05 Jul 2019 20:03:47: 3000000 INFO @ Fri, 05 Jul 2019 20:03:52: 3000000 INFO @ Fri, 05 Jul 2019 20:03:53: 4000000 INFO @ Fri, 05 Jul 2019 20:03:54: 4000000 INFO @ Fri, 05 Jul 2019 20:04:00: 4000000 INFO @ Fri, 05 Jul 2019 20:04:01: 5000000 INFO @ Fri, 05 Jul 2019 20:04:02: 5000000 INFO @ Fri, 05 Jul 2019 20:04:08: 6000000 INFO @ Fri, 05 Jul 2019 20:04:09: 5000000 INFO @ Fri, 05 Jul 2019 20:04:09: 6000000 INFO @ Fri, 05 Jul 2019 20:04:14: 7000000 INFO @ Fri, 05 Jul 2019 20:04:16: 7000000 INFO @ Fri, 05 Jul 2019 20:04:17: 6000000 INFO @ Fri, 05 Jul 2019 20:04:22: 8000000 INFO @ Fri, 05 Jul 2019 20:04:24: 8000000 INFO @ Fri, 05 Jul 2019 20:04:26: 7000000 INFO @ Fri, 05 Jul 2019 20:04:29: 9000000 INFO @ Fri, 05 Jul 2019 20:04:31: 9000000 INFO @ Fri, 05 Jul 2019 20:04:34: 8000000 INFO @ Fri, 05 Jul 2019 20:04:36: 10000000 INFO @ Fri, 05 Jul 2019 20:04:38: 10000000 INFO @ Fri, 05 Jul 2019 20:04:43: 9000000 INFO @ Fri, 05 Jul 2019 20:04:43: 11000000 INFO @ Fri, 05 Jul 2019 20:04:45: 11000000 INFO @ Fri, 05 Jul 2019 20:04:51: 12000000 INFO @ Fri, 05 Jul 2019 20:04:52: 10000000 INFO @ Fri, 05 Jul 2019 20:04:53: 12000000 INFO @ Fri, 05 Jul 2019 20:04:58: 13000000 INFO @ Fri, 05 Jul 2019 20:05:00: 13000000 INFO @ Fri, 05 Jul 2019 20:05:01: 11000000 INFO @ Fri, 05 Jul 2019 20:05:06: 14000000 INFO @ Fri, 05 Jul 2019 20:05:07: 14000000 INFO @ Fri, 05 Jul 2019 20:05:09: 12000000 INFO @ Fri, 05 Jul 2019 20:05:13: 15000000 INFO @ Fri, 05 Jul 2019 20:05:14: 15000000 INFO @ Fri, 05 Jul 2019 20:05:18: 13000000 INFO @ Fri, 05 Jul 2019 20:05:20: 16000000 INFO @ Fri, 05 Jul 2019 20:05:22: 16000000 INFO @ Fri, 05 Jul 2019 20:05:27: 14000000 INFO @ Fri, 05 Jul 2019 20:05:28: 17000000 INFO @ Fri, 05 Jul 2019 20:05:29: 17000000 INFO @ Fri, 05 Jul 2019 20:05:35: 18000000 INFO @ Fri, 05 Jul 2019 20:05:35: 15000000 INFO @ Fri, 05 Jul 2019 20:05:36: 18000000 INFO @ Fri, 05 Jul 2019 20:05:42: 19000000 INFO @ Fri, 05 Jul 2019 20:05:42: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:05:42: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:05:42: #1 total tags in treatment: 8662501 INFO @ Fri, 05 Jul 2019 20:05:42: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:05:42: #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 20:05:43: #1 tags after filtering in treatment: 5944041 INFO @ Fri, 05 Jul 2019 20:05:43: #1 Redundant rate of treatment: 0.31 INFO @ Fri, 05 Jul 2019 20:05:43: #1 finished! INFO @ Fri, 05 Jul 2019 20:05:43: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:05:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:05:43: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:05:43: 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 20:05:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.05_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/SRX1462593/SRX1462593.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:05:44: 19000000 INFO @ Fri, 05 Jul 2019 20:05:44: 16000000 INFO @ Fri, 05 Jul 2019 20:05:44: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:05:44: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:05:44: #1 total tags in treatment: 8662501 INFO @ Fri, 05 Jul 2019 20:05:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:05:44: #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 20:05:44: #1 tags after filtering in treatment: 5944041 INFO @ Fri, 05 Jul 2019 20:05:44: #1 Redundant rate of treatment: 0.31 INFO @ Fri, 05 Jul 2019 20:05:44: #1 finished! INFO @ Fri, 05 Jul 2019 20:05:44: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:05:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:05:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:05:45: 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 20:05:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.10_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/SRX1462593/SRX1462593.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:05:52: 17000000 INFO @ Fri, 05 Jul 2019 20:06:00: 18000000 INFO @ Fri, 05 Jul 2019 20:06:08: 19000000 INFO @ Fri, 05 Jul 2019 20:06:09: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 20:06:09: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 20:06:09: #1 total tags in treatment: 8662501 INFO @ Fri, 05 Jul 2019 20:06:09: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:06:09: #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 20:06:09: #1 tags after filtering in treatment: 5944041 INFO @ Fri, 05 Jul 2019 20:06:09: #1 Redundant rate of treatment: 0.31 INFO @ Fri, 05 Jul 2019 20:06:09: #1 finished! INFO @ Fri, 05 Jul 2019 20:06:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:06:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:06:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:06:09: 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 20:06:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.20_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/SRX1462593/SRX1462593.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1462593/SRX1462593.20_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。