Job ID = 2008242 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 19,546,210 reads read : 39,092,420 reads written : 39,092,420 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: 00:22:38 19546210 reads; of these: 19546210 (100.00%) were paired; of these: 1499768 (7.67%) aligned concordantly 0 times 16857797 (86.25%) aligned concordantly exactly 1 time 1188645 (6.08%) aligned concordantly >1 times ---- 1499768 pairs aligned concordantly 0 times; of these: 536188 (35.75%) aligned discordantly 1 time ---- 963580 pairs aligned 0 times concordantly or discordantly; of these: 1927160 mates make up the pairs; of these: 1754682 (91.05%) aligned 0 times 93029 (4.83%) aligned exactly 1 time 79449 (4.12%) aligned >1 times 95.51% overall alignment rate Time searching: 00:22:38 Overall time: 00:22:38 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 16 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] 4333028 / 18510454 = 0.2341 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 19:33:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.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 19:33:38: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:33:38: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:33:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.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 19:33:38: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:33:38: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:33:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.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 19:33:39: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:33:39: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:33:48: 1000000 INFO @ Fri, 05 Jul 2019 19:33:48: 1000000 INFO @ Fri, 05 Jul 2019 19:33:50: 1000000 INFO @ Fri, 05 Jul 2019 19:33:57: 2000000 INFO @ Fri, 05 Jul 2019 19:33:59: 2000000 INFO @ Fri, 05 Jul 2019 19:34:03: 2000000 INFO @ Fri, 05 Jul 2019 19:34:06: 3000000 INFO @ Fri, 05 Jul 2019 19:34:09: 3000000 INFO @ Fri, 05 Jul 2019 19:34:15: 3000000 INFO @ Fri, 05 Jul 2019 19:34:15: 4000000 INFO @ Fri, 05 Jul 2019 19:34:19: 4000000 INFO @ Fri, 05 Jul 2019 19:34:23: 5000000 INFO @ Fri, 05 Jul 2019 19:34:27: 4000000 INFO @ Fri, 05 Jul 2019 19:34:30: 5000000 INFO @ Fri, 05 Jul 2019 19:34:33: 6000000 INFO @ Fri, 05 Jul 2019 19:34:39: 5000000 INFO @ Fri, 05 Jul 2019 19:34:40: 6000000 INFO @ Fri, 05 Jul 2019 19:34:41: 7000000 INFO @ Fri, 05 Jul 2019 19:34:50: 8000000 INFO @ Fri, 05 Jul 2019 19:34:51: 7000000 INFO @ Fri, 05 Jul 2019 19:34:52: 6000000 INFO @ Fri, 05 Jul 2019 19:34:59: 9000000 INFO @ Fri, 05 Jul 2019 19:35:00: 8000000 INFO @ Fri, 05 Jul 2019 19:35:04: 7000000 INFO @ Fri, 05 Jul 2019 19:35:07: 10000000 INFO @ Fri, 05 Jul 2019 19:35:10: 9000000 INFO @ Fri, 05 Jul 2019 19:35:16: 11000000 INFO @ Fri, 05 Jul 2019 19:35:16: 8000000 INFO @ Fri, 05 Jul 2019 19:35:20: 10000000 INFO @ Fri, 05 Jul 2019 19:35:25: 12000000 INFO @ Fri, 05 Jul 2019 19:35:28: 9000000 INFO @ Fri, 05 Jul 2019 19:35:30: 11000000 INFO @ Fri, 05 Jul 2019 19:35:34: 13000000 INFO @ Fri, 05 Jul 2019 19:35:40: 12000000 INFO @ Fri, 05 Jul 2019 19:35:40: 10000000 INFO @ Fri, 05 Jul 2019 19:35:42: 14000000 INFO @ Fri, 05 Jul 2019 19:35:50: 13000000 INFO @ Fri, 05 Jul 2019 19:35:51: 15000000 INFO @ Fri, 05 Jul 2019 19:35:53: 11000000 INFO @ Fri, 05 Jul 2019 19:35:59: 16000000 INFO @ Fri, 05 Jul 2019 19:35:59: 14000000 INFO @ Fri, 05 Jul 2019 19:36:05: 12000000 INFO @ Fri, 05 Jul 2019 19:36:08: 17000000 INFO @ Fri, 05 Jul 2019 19:36:09: 15000000 INFO @ Fri, 05 Jul 2019 19:36:16: 18000000 INFO @ Fri, 05 Jul 2019 19:36:17: 13000000 INFO @ Fri, 05 Jul 2019 19:36:18: 16000000 INFO @ Fri, 05 Jul 2019 19:36:24: 19000000 INFO @ Fri, 05 Jul 2019 19:36:28: 17000000 INFO @ Fri, 05 Jul 2019 19:36:30: 14000000 INFO @ Fri, 05 Jul 2019 19:36:32: 20000000 INFO @ Fri, 05 Jul 2019 19:36:38: 18000000 INFO @ Fri, 05 Jul 2019 19:36:41: 21000000 INFO @ Fri, 05 Jul 2019 19:36:42: 15000000 INFO @ Fri, 05 Jul 2019 19:36:47: 19000000 INFO @ Fri, 05 Jul 2019 19:36:49: 22000000 INFO @ Fri, 05 Jul 2019 19:36:54: 16000000 INFO @ Fri, 05 Jul 2019 19:36:56: 20000000 INFO @ Fri, 05 Jul 2019 19:36:57: 23000000 INFO @ Fri, 05 Jul 2019 19:37:06: 21000000 INFO @ Fri, 05 Jul 2019 19:37:06: 24000000 INFO @ Fri, 05 Jul 2019 19:37:06: 17000000 INFO @ Fri, 05 Jul 2019 19:37:14: 25000000 INFO @ Fri, 05 Jul 2019 19:37:15: 22000000 INFO @ Fri, 05 Jul 2019 19:37:15: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 19:37:22: 26000000 INFO @ Fri, 05 Jul 2019 19:37:24: 19000000 INFO @ Fri, 05 Jul 2019 19:37:24: 23000000 INFO @ Fri, 05 Jul 2019 19:37:30: 27000000 INFO @ Fri, 05 Jul 2019 19:37:32: 20000000 INFO @ Fri, 05 Jul 2019 19:37:33: 24000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 19:37:38: 28000000 INFO @ Fri, 05 Jul 2019 19:37:41: 21000000 INFO @ Fri, 05 Jul 2019 19:37:42: 25000000 INFO @ Fri, 05 Jul 2019 19:37:44: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:37:44: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:37:44: #1 total tags in treatment: 13751709 INFO @ Fri, 05 Jul 2019 19:37:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:37:44: #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 19:37:45: #1 tags after filtering in treatment: 5686218 INFO @ Fri, 05 Jul 2019 19:37:45: #1 Redundant rate of treatment: 0.59 INFO @ Fri, 05 Jul 2019 19:37:45: #1 finished! INFO @ Fri, 05 Jul 2019 19:37:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:37:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:37:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:37:45: 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 19:37:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.20_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/ERX585766/ERX585766.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:37:49: 22000000 INFO @ Fri, 05 Jul 2019 19:37:51: 26000000 INFO @ Fri, 05 Jul 2019 19:37:57: 23000000 INFO @ Fri, 05 Jul 2019 19:38:00: 27000000 INFO @ Fri, 05 Jul 2019 19:38:06: 24000000 INFO @ Fri, 05 Jul 2019 19:38:08: 28000000 INFO @ Fri, 05 Jul 2019 19:38:13: 25000000 INFO @ Fri, 05 Jul 2019 19:38:14: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:38:15: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:38:15: #1 total tags in treatment: 13751709 INFO @ Fri, 05 Jul 2019 19:38:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:38:15: #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 19:38:16: #1 tags after filtering in treatment: 5686218 INFO @ Fri, 05 Jul 2019 19:38:16: #1 Redundant rate of treatment: 0.59 INFO @ Fri, 05 Jul 2019 19:38:16: #1 finished! INFO @ Fri, 05 Jul 2019 19:38:16: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:38:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:38:16: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:38:16: 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 19:38:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.10_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/ERX585766/ERX585766.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:38:23: 26000000 INFO @ Fri, 05 Jul 2019 19:38:31: 27000000 INFO @ Fri, 05 Jul 2019 19:38:39: 28000000 INFO @ Fri, 05 Jul 2019 19:38:45: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:38:45: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:38:45: #1 total tags in treatment: 13751709 INFO @ Fri, 05 Jul 2019 19:38:45: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:38:45: #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 19:38:45: #1 tags after filtering in treatment: 5686218 INFO @ Fri, 05 Jul 2019 19:38:45: #1 Redundant rate of treatment: 0.59 INFO @ Fri, 05 Jul 2019 19:38:45: #1 finished! INFO @ Fri, 05 Jul 2019 19:38:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:38:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:38:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:38:45: 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 19:38:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.05_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/ERX585766/ERX585766.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585766/ERX585766.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling