Job ID = 2008189 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,391,870 reads read : 18,783,740 reads written : 18,783,740 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: 00:13:11 9391870 reads; of these: 9391870 (100.00%) were paired; of these: 1880799 (20.03%) aligned concordantly 0 times 6873381 (73.18%) aligned concordantly exactly 1 time 637690 (6.79%) aligned concordantly >1 times ---- 1880799 pairs aligned concordantly 0 times; of these: 503542 (26.77%) aligned discordantly 1 time ---- 1377257 pairs aligned 0 times concordantly or discordantly; of these: 2754514 mates make up the pairs; of these: 2440757 (88.61%) aligned 0 times 212083 (7.70%) aligned exactly 1 time 101674 (3.69%) aligned >1 times 87.01% overall alignment rate Time searching: 00:13:11 Overall time: 00:13:11 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] 1016565 / 7957102 = 0.1278 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 18:42:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.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 18:42:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:42:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:42:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.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 18:42:57: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:42:57: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:42:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.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 18:42:59: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:42:59: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:43:06: 1000000 INFO @ Fri, 05 Jul 2019 18:43:08: 1000000 INFO @ Fri, 05 Jul 2019 18:43:09: 1000000 INFO @ Fri, 05 Jul 2019 18:43:15: 2000000 INFO @ Fri, 05 Jul 2019 18:43:18: 2000000 INFO @ Fri, 05 Jul 2019 18:43:19: 2000000 INFO @ Fri, 05 Jul 2019 18:43:24: 3000000 INFO @ Fri, 05 Jul 2019 18:43:27: 3000000 INFO @ Fri, 05 Jul 2019 18:43:30: 3000000 INFO @ Fri, 05 Jul 2019 18:43:33: 4000000 INFO @ Fri, 05 Jul 2019 18:43:35: 4000000 INFO @ Fri, 05 Jul 2019 18:43:41: 4000000 INFO @ Fri, 05 Jul 2019 18:43:41: 5000000 INFO @ Fri, 05 Jul 2019 18:43:44: 5000000 INFO @ Fri, 05 Jul 2019 18:43:50: 6000000 INFO @ Fri, 05 Jul 2019 18:43:52: 5000000 INFO @ Fri, 05 Jul 2019 18:43:53: 6000000 INFO @ Fri, 05 Jul 2019 18:43:59: 7000000 INFO @ Fri, 05 Jul 2019 18:44:02: 7000000 INFO @ Fri, 05 Jul 2019 18:44:03: 6000000 INFO @ Fri, 05 Jul 2019 18:44:08: 8000000 INFO @ Fri, 05 Jul 2019 18:44:11: 8000000 INFO @ Fri, 05 Jul 2019 18:44:14: 7000000 INFO @ Fri, 05 Jul 2019 18:44:16: 9000000 INFO @ Fri, 05 Jul 2019 18:44:19: 9000000 INFO @ Fri, 05 Jul 2019 18:44:24: 8000000 INFO @ Fri, 05 Jul 2019 18:44:25: 10000000 INFO @ Fri, 05 Jul 2019 18:44:28: 10000000 INFO @ Fri, 05 Jul 2019 18:44:34: 11000000 INFO @ Fri, 05 Jul 2019 18:44:35: 9000000 INFO @ Fri, 05 Jul 2019 18:44:37: 11000000 INFO @ Fri, 05 Jul 2019 18:44:42: 12000000 INFO @ Fri, 05 Jul 2019 18:44:46: 12000000 INFO @ Fri, 05 Jul 2019 18:44:46: 10000000 INFO @ Fri, 05 Jul 2019 18:44:51: 13000000 INFO @ Fri, 05 Jul 2019 18:44:54: 13000000 INFO @ Fri, 05 Jul 2019 18:44:57: 11000000 INFO @ Fri, 05 Jul 2019 18:45:00: 14000000 INFO @ Fri, 05 Jul 2019 18:45:03: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:45:03: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:45:03: #1 total tags in treatment: 6519636 INFO @ Fri, 05 Jul 2019 18:45:03: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:45:03: #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 18:45:03: #1 tags after filtering in treatment: 3886794 INFO @ Fri, 05 Jul 2019 18:45:03: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 18:45:03: #1 finished! INFO @ Fri, 05 Jul 2019 18:45:03: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:45:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:45:03: 14000000 INFO @ Fri, 05 Jul 2019 18:45:03: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:45:03: 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 18:45:03: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:45:06: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:45:06: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:45:06: #1 total tags in treatment: 6519636 INFO @ Fri, 05 Jul 2019 18:45:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:45:06: #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 18:45:06: #1 tags after filtering in treatment: 3886794 INFO @ Fri, 05 Jul 2019 18:45:06: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 18:45:06: #1 finished! INFO @ Fri, 05 Jul 2019 18:45:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:45:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:45:06: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:45:06: 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 18:45:06: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:45:08: 12000000 INFO @ Fri, 05 Jul 2019 18:45:19: 13000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184)needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:45:29: 14000000 INFO @ Fri, 05 Jul 2019 18:45:32: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:45:32: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:45:32: #1 total tags in treatment: 6519636 INFO @ Fri, 05 Jul 2019 18:45:32: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:45:32: #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 18:45:33: #1 tags after filtering in treatment: 3886794 INFO @ Fri, 05 Jul 2019 18:45:33: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 18:45:33: #1 finished! INFO @ Fri, 05 Jul 2019 18:45:33: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:45:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:45:33: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:45:33: 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 18:45:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.05_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/ERX585724/ERX585724.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585724/ERX585724.05_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。