Job ID = 2010891 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 28,837,258 reads read : 57,674,516 reads written : 57,674,516 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: 00:18:59 28837258 reads; of these: 28837258 (100.00%) were paired; of these: 2958831 (10.26%) aligned concordantly 0 times 19037193 (66.02%) aligned concordantly exactly 1 time 6841234 (23.72%) aligned concordantly >1 times ---- 2958831 pairs aligned concordantly 0 times; of these: 18324 (0.62%) aligned discordantly 1 time ---- 2940507 pairs aligned 0 times concordantly or discordantly; of these: 5881014 mates make up the pairs; of these: 5407812 (91.95%) aligned 0 times 316032 (5.37%) aligned exactly 1 time 157170 (2.67%) aligned >1 times 90.62% overall alignment rate Time searching: 00:18:59 Overall time: 00:18:59 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] 12639929 / 25888336 = 0.4882 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 01:57:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.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 01:57:12: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:57:12: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:57:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.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 01:57:13: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:57:13: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:57:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.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 01:57:14: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:57:14: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:57:19: 1000000 INFO @ Sat, 06 Jul 2019 01:57:21: 1000000 INFO @ Sat, 06 Jul 2019 01:57:21: 1000000 INFO @ Sat, 06 Jul 2019 01:57:27: 2000000 INFO @ Sat, 06 Jul 2019 01:57:29: 2000000 INFO @ Sat, 06 Jul 2019 01:57:30: 2000000 INFO @ Sat, 06 Jul 2019 01:57:34: 3000000 INFO @ Sat, 06 Jul 2019 01:57:37: 3000000 INFO @ Sat, 06 Jul 2019 01:57:39: 3000000 INFO @ Sat, 06 Jul 2019 01:57:42: 4000000 INFO @ Sat, 06 Jul 2019 01:57:45: 4000000 INFO @ Sat, 06 Jul 2019 01:57:48: 4000000 INFO @ Sat, 06 Jul 2019 01:57:49: 5000000 INFO @ Sat, 06 Jul 2019 01:57:53: 5000000 INFO @ Sat, 06 Jul 2019 01:57:57: 6000000 INFO @ Sat, 06 Jul 2019 01:57:58: 5000000 INFO @ Sat, 06 Jul 2019 01:58:02: 6000000 INFO @ Sat, 06 Jul 2019 01:58:04: 7000000 INFO @ Sat, 06 Jul 2019 01:58:07: 6000000 INFO @ Sat, 06 Jul 2019 01:58:10: 7000000 INFO @ Sat, 06 Jul 2019 01:58:12: 8000000 INFO @ Sat, 06 Jul 2019 01:58:16: 7000000 INFO @ Sat, 06 Jul 2019 01:58:18: 8000000 INFO @ Sat, 06 Jul 2019 01:58:19: 9000000 INFO @ Sat, 06 Jul 2019 01:58:25: 9000000 INFO @ Sat, 06 Jul 2019 01:58:25: 8000000 INFO @ Sat, 06 Jul 2019 01:58:26: 10000000 INFO @ Sat, 06 Jul 2019 01:58:32: 10000000 INFO @ Sat, 06 Jul 2019 01:58:33: 11000000 INFO @ Sat, 06 Jul 2019 01:58:34: 9000000 INFO @ Sat, 06 Jul 2019 01:58:39: 11000000 INFO @ Sat, 06 Jul 2019 01:58:41: 12000000 INFO @ Sat, 06 Jul 2019 01:58:43: 10000000 INFO @ Sat, 06 Jul 2019 01:58:47: 12000000 INFO @ Sat, 06 Jul 2019 01:58:48: 13000000 INFO @ Sat, 06 Jul 2019 01:58:52: 11000000 INFO @ Sat, 06 Jul 2019 01:58:54: 13000000 INFO @ Sat, 06 Jul 2019 01:58:55: 14000000 INFO @ Sat, 06 Jul 2019 01:59:01: 12000000 INFO @ Sat, 06 Jul 2019 01:59:01: 14000000 INFO @ Sat, 06 Jul 2019 01:59:02: 15000000 INFO @ Sat, 06 Jul 2019 01:59:08: 15000000 INFO @ Sat, 06 Jul 2019 01:59:09: 16000000 INFO @ Sat, 06 Jul 2019 01:59:10: 13000000 INFO @ Sat, 06 Jul 2019 01:59:15: 16000000 INFO @ Sat, 06 Jul 2019 01:59:16: 17000000 INFO @ Sat, 06 Jul 2019 01:59:19: 14000000 INFO @ Sat, 06 Jul 2019 01:59:22: 17000000 INFO @ Sat, 06 Jul 2019 01:59:23: 18000000 INFO @ Sat, 06 Jul 2019 01:59:28: 15000000 INFO @ Sat, 06 Jul 2019 01:59:29: 18000000 INFO @ Sat, 06 Jul 2019 01:59:30: 19000000 INFO @ Sat, 06 Jul 2019 01:59:36: 19000000 INFO @ Sat, 06 Jul 2019 01:59:37: 20000000 INFO @ Sat, 06 Jul 2019 01:59:38: 16000000 INFO @ Sat, 06 Jul 2019 01:59:43: 20000000 INFO @ Sat, 06 Jul 2019 01:59:44: 21000000 INFO @ Sat, 06 Jul 2019 01:59:47: 17000000 INFO @ Sat, 06 Jul 2019 01:59:50: 21000000 INFO @ Sat, 06 Jul 2019 01:59:52: 22000000 INFO @ Sat, 06 Jul 2019 01:59:56: 18000000 INFO @ Sat, 06 Jul 2019 01:59:58: 22000000 INFO @ Sat, 06 Jul 2019 01:59:59: 23000000 INFO @ Sat, 06 Jul 2019 02:00:05: 23000000 INFO @ Sat, 06 Jul 2019 02:00:06: 19000000 INFO @ Sat, 06 Jul 2019 02:00:06: 24000000 INFO @ Sat, 06 Jul 2019 02:00:12: 24000000 INFO @ Sat, 06 Jul 2019 02:00:13: 25000000 INFO @ Sat, 06 Jul 2019 02:00:15: 20000000 INFO @ Sat, 06 Jul 2019 02:00:19: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:00:20: 26000000 INFO @ Sat, 06 Jul 2019 02:00:24: 21000000 INFO @ Sat, 06 Jul 2019 02:00:26: 26000000 INFO @ Sat, 06 Jul 2019 02:00:27: #1 tag size is determined as 36 bps INFO @ Sat, 06 Jul 2019 02:00:27: #1 tag size = 36 INFO @ Sat, 06 Jul 2019 02:00:27: #1 total tags in treatment: 13243097 INFO @ Sat, 06 Jul 2019 02:00:27: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:00:27: #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 02:00:27: #1 tags after filtering in treatment: 8211221 INFO @ Sat, 06 Jul 2019 02:00:27: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 02:00:27: #1 finished! INFO @ Sat, 06 Jul 2019 02:00:27: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:00:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:00:28: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:00:28: 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 02:00:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.05_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/SRX421765/SRX421765.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:00:33: #1 tag size is determined as 36 bps INFO @ Sat, 06 Jul 2019 02:00:33: #1 tag size = 36 INFO @ Sat, 06 Jul 2019 02:00:33: #1 total tags in treatment: 13243097 INFO @ Sat, 06 Jul 2019 02:00:33: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:00:33: #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 02:00:33: #1 tags after filtering in treatment: 8211221 INFO @ Sat, 06 Jul 2019 02:00:33: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 02:00:33: #1 finished! INFO @ Sat, 06 Jul 2019 02:00:33: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:00:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:00:33: 22000000 INFO @ Sat, 06 Jul 2019 02:00:34: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:00:34: 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 02:00:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.20_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/SRX421765/SRX421765.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 02:00:42: 23000000 INFO @ Sat, 06 Jul 2019 02:00:51: 24000000 INFO @ Sat, 06 Jul 2019 02:01:01: 25000000 INFO @ Sat, 06 Jul 2019 02:01:10: 26000000 INFO @ Sat, 06 Jul 2019 02:01:19: #1 tag size is determined as 36 bps INFO @ Sat, 06 Jul 2019 02:01:19: #1 tag size = 36 INFO @ Sat, 06 Jul 2019 02:01:19: #1 total tags in treatment: 13243097 INFO @ Sat, 06 Jul 2019 02:01:19: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:01:19: #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 02:01:19: #1 tags after filtering in treatment: 8211221 INFO @ Sat, 06 Jul 2019 02:01:19: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 06 Jul 2019 02:01:19: #1 finished! INFO @ Sat, 06 Jul 2019 02:01:19: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:01:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:01:19: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:01:19: 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 02:01:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.10_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/SRX421765/SRX421765.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX421765/SRX421765.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling