Job ID = 2010531 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 26,567,637 reads read : 53,135,274 reads written : 53,135,274 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: 00:23:47 26567637 reads; of these: 26567637 (100.00%) were paired; of these: 2321873 (8.74%) aligned concordantly 0 times 15717751 (59.16%) aligned concordantly exactly 1 time 8528013 (32.10%) aligned concordantly >1 times ---- 2321873 pairs aligned concordantly 0 times; of these: 488109 (21.02%) aligned discordantly 1 time ---- 1833764 pairs aligned 0 times concordantly or discordantly; of these: 3667528 mates make up the pairs; of these: 2787765 (76.01%) aligned 0 times 270824 (7.38%) aligned exactly 1 time 608939 (16.60%) aligned >1 times 94.75% overall alignment rate Time searching: 00:23:47 Overall time: 00:23:47 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 24 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] 6012222 / 24711911 = 0.2433 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 00:02:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.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 00:02:45: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:02:45: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:02:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.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 00:02:46: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:02:46: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:02:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.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 00:02:47: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:02:47: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:02:53: 1000000 INFO @ Sat, 06 Jul 2019 00:02:54: 1000000 INFO @ Sat, 06 Jul 2019 00:02:55: 1000000 INFO @ Sat, 06 Jul 2019 00:03:00: 2000000 INFO @ Sat, 06 Jul 2019 00:03:00: 2000000 INFO @ Sat, 06 Jul 2019 00:03:04: 2000000 INFO @ Sat, 06 Jul 2019 00:03:06: 3000000 INFO @ Sat, 06 Jul 2019 00:03:07: 3000000 INFO @ Sat, 06 Jul 2019 00:03:13: 4000000 INFO @ Sat, 06 Jul 2019 00:03:13: 3000000 INFO @ Sat, 06 Jul 2019 00:03:15: 4000000 INFO @ Sat, 06 Jul 2019 00:03:19: 5000000 INFO @ Sat, 06 Jul 2019 00:03:22: 4000000 INFO @ Sat, 06 Jul 2019 00:03:22: 5000000 INFO @ Sat, 06 Jul 2019 00:03:25: 6000000 INFO @ Sat, 06 Jul 2019 00:03:29: 6000000 INFO @ Sat, 06 Jul 2019 00:03:30: 5000000 INFO @ Sat, 06 Jul 2019 00:03:31: 7000000 INFO @ Sat, 06 Jul 2019 00:03:37: 7000000 INFO @ Sat, 06 Jul 2019 00:03:37: 8000000 INFO @ Sat, 06 Jul 2019 00:03:38: 6000000 INFO @ Sat, 06 Jul 2019 00:03:43: 9000000 INFO @ Sat, 06 Jul 2019 00:03:44: 8000000 INFO @ Sat, 06 Jul 2019 00:03:46: 7000000 INFO @ Sat, 06 Jul 2019 00:03:49: 10000000 INFO @ Sat, 06 Jul 2019 00:03:51: 9000000 INFO @ Sat, 06 Jul 2019 00:03:54: 8000000 INFO @ Sat, 06 Jul 2019 00:03:56: 11000000 INFO @ Sat, 06 Jul 2019 00:03:58: 10000000 INFO @ Sat, 06 Jul 2019 00:04:02: 12000000 INFO @ Sat, 06 Jul 2019 00:04:02: 9000000 INFO @ Sat, 06 Jul 2019 00:04:06: 11000000 INFO @ Sat, 06 Jul 2019 00:04:08: 13000000 INFO @ Sat, 06 Jul 2019 00:04:10: 10000000 INFO @ Sat, 06 Jul 2019 00:04:13: 12000000 INFO @ Sat, 06 Jul 2019 00:04:15: 14000000 INFO @ Sat, 06 Jul 2019 00:04:18: 11000000 INFO @ Sat, 06 Jul 2019 00:04:20: 13000000 INFO @ Sat, 06 Jul 2019 00:04:21: 15000000 INFO @ Sat, 06 Jul 2019 00:04:26: 12000000 INFO @ Sat, 06 Jul 2019 00:04:27: 16000000 INFO @ Sat, 06 Jul 2019 00:04:27: 14000000 INFO @ Sat, 06 Jul 2019 00:04:33: 17000000 INFO @ Sat, 06 Jul 2019 00:04:34: 13000000 INFO @ Sat, 06 Jul 2019 00:04:34: 15000000 INFO @ Sat, 06 Jul 2019 00:04:39: 18000000 INFO @ Sat, 06 Jul 2019 00:04:42: 16000000 INFO @ Sat, 06 Jul 2019 00:04:42: 14000000 INFO @ Sat, 06 Jul 2019 00:04:45: 19000000 INFO @ Sat, 06 Jul 2019 00:04:49: 17000000 INFO @ Sat, 06 Jul 2019 00:04:50: 15000000 INFO @ Sat, 06 Jul 2019 00:04:51: 20000000 INFO @ Sat, 06 Jul 2019 00:04:56: 18000000 INFO @ Sat, 06 Jul 2019 00:04:57: 21000000 INFO @ Sat, 06 Jul 2019 00:04:58: 16000000 INFO @ Sat, 06 Jul 2019 00:05:03: 19000000 INFO @ Sat, 06 Jul 2019 00:05:03: 22000000 INFO @ Sat, 06 Jul 2019 00:05:05: 17000000 INFO @ Sat, 06 Jul 2019 00:05:09: 23000000 INFO @ Sat, 06 Jul 2019 00:05:10: 20000000 INFO @ Sat, 06 Jul 2019 00:05:13: 18000000 INFO @ Sat, 06 Jul 2019 00:05:15: 24000000 INFO @ Sat, 06 Jul 2019 00:05:17: 21000000 INFO @ Sat, 06 Jul 2019 00:05:21: 25000000 INFO @ Sat, 06 Jul 2019 00:05:21: 19000000 INFO @ Sat, 06 Jul 2019 00:05:24: 22000000 INFO @ Sat, 06 Jul 2019 00:05:27: 26000000 INFO @ Sat, 06 Jul 2019 00:05:29: 20000000 INFO @ Sat, 06 Jul 2019 00:05:32: 23000000 INFO @ Sat, 06 Jul 2019 00:05:32: 27000000 INFO @ Sat, 06 Jul 2019 00:05:37: 21000000 INFO @ Sat, 06 Jul 2019 00:05:38: 28000000 INFO @ Sat, 06 Jul 2019 00:05:38: 24000000 INFO @ Sat, 06 Jul 2019 00:05:44: 29000000 INFO @ Sat, 06 Jul 2019 00:05:45: 22000000 INFO @ Sat, 06 Jul 2019 00:05:45: 25000000 INFO @ Sat, 06 Jul 2019 00:05:50: 30000000 INFO @ Sat, 06 Jul 2019 00:05:51: 26000000 INFO @ Sat, 06 Jul 2019 00:05:52: 23000000 INFO @ Sat, 06 Jul 2019 00:05:56: 31000000 INFO @ Sat, 06 Jul 2019 00:05:58: 27000000 INFO @ Sat, 06 Jul 2019 00:06:00: 24000000 INFO @ Sat, 06 Jul 2019 00:06:02: 32000000 INFO @ Sat, 06 Jul 2019 00:06:04: 28000000 INFO @ Sat, 06 Jul 2019 00:06:07: 25000000 INFO @ Sat, 06 Jul 2019 00:06:08: 33000000 INFO @ Sat, 06 Jul 2019 00:06:11: 29000000 INFO @ Sat, 06 Jul 2019 00:06:14: 26000000 INFO @ Sat, 06 Jul 2019 00:06:14: 34000000 INFO @ Sat, 06 Jul 2019 00:06:18: 30000000 INFO @ Sat, 06 Jul 2019 00:06:20: 35000000 INFO @ Sat, 06 Jul 2019 00:06:21: 27000000 INFO @ Sat, 06 Jul 2019 00:06:25: 31000000 INFO @ Sat, 06 Jul 2019 00:06:26: 36000000 INFO @ Sat, 06 Jul 2019 00:06:28: 28000000 INFO @ Sat, 06 Jul 2019 00:06:31: 32000000 INFO @ Sat, 06 Jul 2019 00:06:32: 37000000 INFO @ Sat, 06 Jul 2019 00:06:36: 29000000 INFO @ Sat, 06 Jul 2019 00:06:38: 38000000 INFO @ Sat, 06 Jul 2019 00:06:38: 33000000 INFO @ Sat, 06 Jul 2019 00:06:40: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 00:06:40: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 00:06:40: #1 total tags in treatment: 18250949 INFO @ Sat, 06 Jul 2019 00:06:40: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:06:40: #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 00:06:40: #1 tags after filtering in treatment: 8611703 INFO @ Sat, 06 Jul 2019 00:06:40: #1 Redundant rate of treatment: 0.53 INFO @ Sat, 06 Jul 2019 00:06:40: #1 finished! INFO @ Sat, 06 Jul 2019 00:06:40: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:06:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:06:41: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:06:41: 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 @ Sat, 06 Jul 2019 00:06:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.20_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/SRX381234/SRX381234.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:06:43: 30000000 INFO @ Sat, 06 Jul 2019 00:06:45: 34000000 INFO @ Sat, 06 Jul 2019 00:06:50: 31000000 INFO @ Sat, 06 Jul 2019 00:06:51: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 00:06:58: 36000000 INFO @ Sat, 06 Jul 2019 00:06:58: 32000000 INFO @ Sat, 06 Jul 2019 00:07:04: 37000000 INFO @ Sat, 06 Jul 2019 00:07:05: 33000000 INFO @ Sat, 06 Jul 2019 00:07:11: 38000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 00:07:12: 34000000 INFO @ Sat, 06 Jul 2019 00:07:13: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 00:07:13: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 00:07:13: #1 total tags in treatment: 18250949 INFO @ Sat, 06 Jul 2019 00:07:13: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:07:13: #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 00:07:14: #1 tags after filtering in treatment: 8611703 INFO @ Sat, 06 Jul 2019 00:07:14: #1 Redundant rate of treatment: 0.53 INFO @ Sat, 06 Jul 2019 00:07:14: #1 finished! INFO @ Sat, 06 Jul 2019 00:07:14: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:07:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:07:14: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:07:14: 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 @ Sat, 06 Jul 2019 00:07:14: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 00:07:19: 35000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.05_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/SRX381234/SRX381234.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:07:27: 36000000 INFO @ Sat, 06 Jul 2019 00:07:34: 37000000 INFO @ Sat, 06 Jul 2019 00:07:41: 38000000 INFO @ Sat, 06 Jul 2019 00:07:43: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 00:07:43: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 00:07:43: #1 total tags in treatment: 18250949 INFO @ Sat, 06 Jul 2019 00:07:43: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:07:43: #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 00:07:44: #1 tags after filtering in treatment: 8611703 INFO @ Sat, 06 Jul 2019 00:07:44: #1 Redundant rate of treatment: 0.53 INFO @ Sat, 06 Jul 2019 00:07:44: #1 finished! INFO @ Sat, 06 Jul 2019 00:07:44: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:07:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:07:44: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:07:44: 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 @ Sat, 06 Jul 2019 00:07:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.10_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/SRX381234/SRX381234.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381234/SRX381234.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling