Job ID = 2010575 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 16,794,090 reads read : 33,588,180 reads written : 33,588,180 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: 00:14:43 16794090 reads; of these: 16794090 (100.00%) were paired; of these: 2679363 (15.95%) aligned concordantly 0 times 10946668 (65.18%) aligned concordantly exactly 1 time 3168059 (18.86%) aligned concordantly >1 times ---- 2679363 pairs aligned concordantly 0 times; of these: 392882 (14.66%) aligned discordantly 1 time ---- 2286481 pairs aligned 0 times concordantly or discordantly; of these: 4572962 mates make up the pairs; of these: 4210712 (92.08%) aligned 0 times 122795 (2.69%) aligned exactly 1 time 239455 (5.24%) aligned >1 times 87.46% overall alignment rate Time searching: 00:14:43 Overall time: 00:14:43 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] 1218822 / 14489872 = 0.0841 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 23:55:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.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 23:55:20: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:55:20: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:55:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.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 23:55:20: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:55:20: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:55:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.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 23:55:21: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:55:21: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:55:28: 1000000 INFO @ Fri, 05 Jul 2019 23:55:29: 1000000 INFO @ Fri, 05 Jul 2019 23:55:32: 1000000 INFO @ Fri, 05 Jul 2019 23:55:37: 2000000 INFO @ Fri, 05 Jul 2019 23:55:38: 2000000 INFO @ Fri, 05 Jul 2019 23:55:42: 2000000 INFO @ Fri, 05 Jul 2019 23:55:46: 3000000 INFO @ Fri, 05 Jul 2019 23:55:47: 3000000 INFO @ Fri, 05 Jul 2019 23:55:52: 3000000 INFO @ Fri, 05 Jul 2019 23:55:54: 4000000 INFO @ Fri, 05 Jul 2019 23:55:56: 4000000 INFO @ Fri, 05 Jul 2019 23:56:02: 4000000 INFO @ Fri, 05 Jul 2019 23:56:03: 5000000 INFO @ Fri, 05 Jul 2019 23:56:04: 5000000 INFO @ Fri, 05 Jul 2019 23:56:12: 6000000 INFO @ Fri, 05 Jul 2019 23:56:12: 5000000 INFO @ Fri, 05 Jul 2019 23:56:13: 6000000 INFO @ Fri, 05 Jul 2019 23:56:20: 7000000 INFO @ Fri, 05 Jul 2019 23:56:21: 7000000 INFO @ Fri, 05 Jul 2019 23:56:21: 6000000 INFO @ Fri, 05 Jul 2019 23:56:28: 8000000 INFO @ Fri, 05 Jul 2019 23:56:29: 8000000 INFO @ Fri, 05 Jul 2019 23:56:31: 7000000 INFO @ Fri, 05 Jul 2019 23:56:36: 9000000 INFO @ Fri, 05 Jul 2019 23:56:37: 9000000 INFO @ Fri, 05 Jul 2019 23:56:41: 8000000 INFO @ Fri, 05 Jul 2019 23:56:45: 10000000 INFO @ Fri, 05 Jul 2019 23:56:45: 10000000 INFO @ Fri, 05 Jul 2019 23:56:50: 9000000 INFO @ Fri, 05 Jul 2019 23:56:53: 11000000 INFO @ Fri, 05 Jul 2019 23:56:53: 11000000 INFO @ Fri, 05 Jul 2019 23:57:00: 10000000 INFO @ Fri, 05 Jul 2019 23:57:00: 12000000 INFO @ Fri, 05 Jul 2019 23:57:01: 12000000 INFO @ Fri, 05 Jul 2019 23:57:08: 13000000 INFO @ Fri, 05 Jul 2019 23:57:09: 13000000 INFO @ Fri, 05 Jul 2019 23:57:10: 11000000 INFO @ Fri, 05 Jul 2019 23:57:16: 14000000 INFO @ Fri, 05 Jul 2019 23:57:17: 14000000 INFO @ Fri, 05 Jul 2019 23:57:19: 12000000 INFO @ Fri, 05 Jul 2019 23:57:23: 15000000 INFO @ Fri, 05 Jul 2019 23:57:25: 15000000 INFO @ Fri, 05 Jul 2019 23:57:29: 13000000 INFO @ Fri, 05 Jul 2019 23:57:31: 16000000 INFO @ Fri, 05 Jul 2019 23:57:34: 16000000 INFO @ Fri, 05 Jul 2019 23:57:38: 14000000 INFO @ Fri, 05 Jul 2019 23:57:39: 17000000 INFO @ Fri, 05 Jul 2019 23:57:42: 17000000 INFO @ Fri, 05 Jul 2019 23:57:46: 18000000 INFO @ Fri, 05 Jul 2019 23:57:48: 15000000 INFO @ Fri, 05 Jul 2019 23:57:49: 18000000 INFO @ Fri, 05 Jul 2019 23:57:53: 19000000 INFO @ Fri, 05 Jul 2019 23:57:57: 19000000 INFO @ Fri, 05 Jul 2019 23:57:58: 16000000 INFO @ Fri, 05 Jul 2019 23:58:01: 20000000 INFO @ Fri, 05 Jul 2019 23:58:05: 20000000 INFO @ Fri, 05 Jul 2019 23:58:07: 17000000 INFO @ Fri, 05 Jul 2019 23:58:09: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 23:58:13: 21000000 INFO @ Fri, 05 Jul 2019 23:58:17: 18000000 INFO @ Fri, 05 Jul 2019 23:58:17: 22000000 INFO @ Fri, 05 Jul 2019 23:58:21: 22000000 INFO @ Fri, 05 Jul 2019 23:58:25: 23000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 23:58:26: 19000000 INFO @ Fri, 05 Jul 2019 23:58:29: 23000000 INFO @ Fri, 05 Jul 2019 23:58:33: 24000000 INFO @ Fri, 05 Jul 2019 23:58:36: 20000000 INFO @ Fri, 05 Jul 2019 23:58:37: 24000000 INFO @ Fri, 05 Jul 2019 23:58:41: 25000000 INFO @ Fri, 05 Jul 2019 23:58:45: 25000000 INFO @ Fri, 05 Jul 2019 23:58:45: 21000000 INFO @ Fri, 05 Jul 2019 23:58:48: 26000000 INFO @ Fri, 05 Jul 2019 23:58:53: 26000000 INFO @ Fri, 05 Jul 2019 23:58:55: 22000000 INFO @ Fri, 05 Jul 2019 23:58:56: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:58:56: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:58:56: #1 total tags in treatment: 12908691 INFO @ Fri, 05 Jul 2019 23:58:56: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:58:56: #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 23:58:56: #1 tags after filtering in treatment: 6716314 INFO @ Fri, 05 Jul 2019 23:58:56: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 23:58:56: #1 finished! INFO @ Fri, 05 Jul 2019 23:58:56: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:58:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:58:57: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:58:57: 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 23:58:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.10_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/SRX381276/SRX381276.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:59:01: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:59:01: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:59:01: #1 total tags in treatment: 12908691 INFO @ Fri, 05 Jul 2019 23:59:01: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:59:01: #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 23:59:01: #1 tags after filtering in treatment: 6716314 INFO @ Fri, 05 Jul 2019 23:59:01: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 23:59:01: #1 finished! INFO @ Fri, 05 Jul 2019 23:59:01: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:59:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:59:02: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:59:02: 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 23:59:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.05_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/SRX381276/SRX381276.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:59:04: 23000000 INFO @ Fri, 05 Jul 2019 23:59:14: 24000000 INFO @ Fri, 05 Jul 2019 23:59:24: 25000000 INFO @ Fri, 05 Jul 2019 23:59:34: 26000000 INFO @ Fri, 05 Jul 2019 23:59:43: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 23:59:43: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 23:59:43: #1 total tags in treatment: 12908691 INFO @ Fri, 05 Jul 2019 23:59:43: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:59:43: #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 23:59:43: #1 tags after filtering in treatment: 6716314 INFO @ Fri, 05 Jul 2019 23:59:43: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 23:59:43: #1 finished! INFO @ Fri, 05 Jul 2019 23:59:43: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:59:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:59:44: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:59:44: 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 @ Fri, 05 Jul 2019 23:59:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.20_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/SRX381276/SRX381276.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX381276/SRX381276.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling