Job ID = 2010735 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,190,189 reads read : 12,380,378 reads written : 12,380,378 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: 00:05:58 6190189 reads; of these: 6190189 (100.00%) were paired; of these: 823917 (13.31%) aligned concordantly 0 times 4736613 (76.52%) aligned concordantly exactly 1 time 629659 (10.17%) aligned concordantly >1 times ---- 823917 pairs aligned concordantly 0 times; of these: 92201 (11.19%) aligned discordantly 1 time ---- 731716 pairs aligned 0 times concordantly or discordantly; of these: 1463432 mates make up the pairs; of these: 1263814 (86.36%) aligned 0 times 132824 (9.08%) aligned exactly 1 time 66794 (4.56%) aligned >1 times 89.79% overall alignment rate Time searching: 00:05:58 Overall time: 00:05:58 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] 67651 / 5439742 = 0.0124 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 00:27:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.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 00:27:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:27:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:27:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.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 00:27:09: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:27:09: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:27:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.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 00:27:09: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:27:09: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:27:17: 1000000 INFO @ Sat, 06 Jul 2019 00:27:19: 1000000 INFO @ Sat, 06 Jul 2019 00:27:21: 1000000 INFO @ Sat, 06 Jul 2019 00:27:26: 2000000 INFO @ Sat, 06 Jul 2019 00:27:27: 2000000 INFO @ Sat, 06 Jul 2019 00:27:33: 2000000 INFO @ Sat, 06 Jul 2019 00:27:34: 3000000 INFO @ Sat, 06 Jul 2019 00:27:36: 3000000 INFO @ Sat, 06 Jul 2019 00:27:43: 4000000 INFO @ Sat, 06 Jul 2019 00:27:44: 4000000 INFO @ Sat, 06 Jul 2019 00:27:45: 3000000 INFO @ Sat, 06 Jul 2019 00:27:51: 5000000 INFO @ Sat, 06 Jul 2019 00:27:53: 5000000 INFO @ Sat, 06 Jul 2019 00:27:56: 4000000 INFO @ Sat, 06 Jul 2019 00:28:00: 6000000 INFO @ Sat, 06 Jul 2019 00:28:01: 6000000 INFO @ Sat, 06 Jul 2019 00:28:08: 7000000 INFO @ Sat, 06 Jul 2019 00:28:08: 5000000 INFO @ Sat, 06 Jul 2019 00:28:09: 7000000 INFO @ Sat, 06 Jul 2019 00:28:16: 8000000 INFO @ Sat, 06 Jul 2019 00:28:18: 8000000 INFO @ Sat, 06 Jul 2019 00:28:20: 6000000 INFO @ Sat, 06 Jul 2019 00:28:25: 9000000 INFO @ Sat, 06 Jul 2019 00:28:26: 9000000 INFO @ Sat, 06 Jul 2019 00:28:31: 7000000 INFO @ Sat, 06 Jul 2019 00:28:33: 10000000 INFO @ Sat, 06 Jul 2019 00:28:34: 10000000 INFO @ Sat, 06 Jul 2019 00:28:41: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:28:41: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:28:41: #1 total tags in treatment: 5299225 INFO @ Sat, 06 Jul 2019 00:28:41: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:28:41: #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 00:28:41: #1 tags after filtering in treatment: 4400375 INFO @ Sat, 06 Jul 2019 00:28:41: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 06 Jul 2019 00:28:41: #1 finished! INFO @ Sat, 06 Jul 2019 00:28:41: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:28:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:28:42: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 00:28:42: Too few paired peaks (28) 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 00:28:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.05_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/SRX386916/SRX386916.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:28:42: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:28:42: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:28:42: #1 total tags in treatment: 5299225 INFO @ Sat, 06 Jul 2019 00:28:42: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:28:42: #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 00:28:42: #1 tags after filtering in treatment: 4400375 INFO @ Sat, 06 Jul 2019 00:28:42: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 06 Jul 2019 00:28:42: #1 finished! INFO @ Sat, 06 Jul 2019 00:28:42: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:28:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:28:43: 8000000 INFO @ Sat, 06 Jul 2019 00:28:43: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 00:28:43: Too few paired peaks (28) 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 00:28:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.10_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/SRX386916/SRX386916.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:28:54: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:29:05: 10000000 INFO @ Sat, 06 Jul 2019 00:29:15: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:29:15: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:29:15: #1 total tags in treatment: 5299225 INFO @ Sat, 06 Jul 2019 00:29:15: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:29:15: #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 00:29:16: #1 tags after filtering in treatment: 4400375 INFO @ Sat, 06 Jul 2019 00:29:16: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 06 Jul 2019 00:29:16: #1 finished! INFO @ Sat, 06 Jul 2019 00:29:16: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:29:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:29:16: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 00:29:16: Too few paired peaks (28) 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 00:29:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.20_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/SRX386916/SRX386916.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386916/SRX386916.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。