Job ID = 2010922 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 24,718,095 reads read : 49,436,190 reads written : 49,436,190 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1105634.sra.cache’: 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: 00:33:13 24718095 reads; of these: 24718095 (100.00%) were paired; of these: 9742426 (39.41%) aligned concordantly 0 times 10759130 (43.53%) aligned concordantly exactly 1 time 4216539 (17.06%) aligned concordantly >1 times ---- 9742426 pairs aligned concordantly 0 times; of these: 186348 (1.91%) aligned discordantly 1 time ---- 9556078 pairs aligned 0 times concordantly or discordantly; of these: 19112156 mates make up the pairs; of these: 15737990 (82.35%) aligned 0 times 2092753 (10.95%) aligned exactly 1 time 1281413 (6.70%) aligned >1 times 68.17% overall alignment rate Time searching: 00:33:13 Overall time: 00:33:13 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] 3484407 / 15060110 = 0.2314 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 02:11:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.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 02:11:02: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:11:02: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:11:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.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 02:11:03: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:11:03: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:11:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.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 02:11:04: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:11:04: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:11:12: 1000000 INFO @ Sat, 06 Jul 2019 02:11:13: 1000000 INFO @ Sat, 06 Jul 2019 02:11:16: 1000000 INFO @ Sat, 06 Jul 2019 02:11:21: 2000000 INFO @ Sat, 06 Jul 2019 02:11:22: 2000000 INFO @ Sat, 06 Jul 2019 02:11:28: 2000000 INFO @ Sat, 06 Jul 2019 02:11:29: 3000000 INFO @ Sat, 06 Jul 2019 02:11:32: 3000000 INFO @ Sat, 06 Jul 2019 02:11:38: 4000000 INFO @ Sat, 06 Jul 2019 02:11:40: 3000000 INFO @ Sat, 06 Jul 2019 02:11:42: 4000000 INFO @ Sat, 06 Jul 2019 02:11:46: 5000000 INFO @ Sat, 06 Jul 2019 02:11:51: 5000000 INFO @ Sat, 06 Jul 2019 02:11:52: 4000000 INFO @ Sat, 06 Jul 2019 02:11:54: 6000000 INFO @ Sat, 06 Jul 2019 02:12:00: 6000000 INFO @ Sat, 06 Jul 2019 02:12:02: 7000000 INFO @ Sat, 06 Jul 2019 02:12:03: 5000000 INFO @ Sat, 06 Jul 2019 02:12:10: 7000000 INFO @ Sat, 06 Jul 2019 02:12:11: 8000000 INFO @ Sat, 06 Jul 2019 02:12:14: 6000000 INFO @ Sat, 06 Jul 2019 02:12:19: 9000000 INFO @ Sat, 06 Jul 2019 02:12:20: 8000000 INFO @ Sat, 06 Jul 2019 02:12:26: 7000000 INFO @ Sat, 06 Jul 2019 02:12:28: 10000000 INFO @ Sat, 06 Jul 2019 02:12:29: 9000000 INFO @ Sat, 06 Jul 2019 02:12:36: 11000000 INFO @ Sat, 06 Jul 2019 02:12:37: 8000000 INFO @ Sat, 06 Jul 2019 02:12:39: 10000000 INFO @ Sat, 06 Jul 2019 02:12:45: 12000000 INFO @ Sat, 06 Jul 2019 02:12:48: 11000000 INFO @ Sat, 06 Jul 2019 02:12:49: 9000000 INFO @ Sat, 06 Jul 2019 02:12:53: 13000000 INFO @ Sat, 06 Jul 2019 02:12:58: 12000000 INFO @ Sat, 06 Jul 2019 02:13:01: 10000000 INFO @ Sat, 06 Jul 2019 02:13:01: 14000000 INFO @ Sat, 06 Jul 2019 02:13:08: 13000000 INFO @ Sat, 06 Jul 2019 02:13:10: 15000000 INFO @ Sat, 06 Jul 2019 02:13:12: 11000000 INFO @ Sat, 06 Jul 2019 02:13:17: 14000000 INFO @ Sat, 06 Jul 2019 02:13:18: 16000000 INFO @ Sat, 06 Jul 2019 02:13:24: 12000000 INFO @ Sat, 06 Jul 2019 02:13:26: 17000000 INFO @ Sat, 06 Jul 2019 02:13:27: 15000000 INFO @ Sat, 06 Jul 2019 02:13:34: 18000000 INFO @ Sat, 06 Jul 2019 02:13:36: 16000000 INFO @ Sat, 06 Jul 2019 02:13:36: 13000000 INFO @ Sat, 06 Jul 2019 02:13:42: 19000000 INFO @ Sat, 06 Jul 2019 02:13:45: 17000000 INFO @ Sat, 06 Jul 2019 02:13:48: 14000000 INFO @ Sat, 06 Jul 2019 02:13:50: 20000000 INFO @ Sat, 06 Jul 2019 02:13:54: 18000000 INFO @ Sat, 06 Jul 2019 02:13:58: 21000000 INFO @ Sat, 06 Jul 2019 02:13:59: 15000000 INFO @ Sat, 06 Jul 2019 02:14:03: 19000000 INFO @ Sat, 06 Jul 2019 02:14:06: 22000000 INFO @ Sat, 06 Jul 2019 02:14:10: 16000000 INFO @ Sat, 06 Jul 2019 02:14:12: 20000000 INFO @ Sat, 06 Jul 2019 02:14:15: 23000000 INFO @ Sat, 06 Jul 2019 02:14:21: 17000000 INFO @ Sat, 06 Jul 2019 02:14:21: 21000000 INFO @ Sat, 06 Jul 2019 02:14:23: 24000000 INFO @ Sat, 06 Jul 2019 02:14:30: 22000000 INFO @ Sat, 06 Jul 2019 02:14:31: 25000000 INFO @ Sat, 06 Jul 2019 02:14:32: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:14:39: 26000000 INFO @ Sat, 06 Jul 2019 02:14:40: 23000000 INFO @ Sat, 06 Jul 2019 02:14:43: 19000000 INFO @ Sat, 06 Jul 2019 02:14:45: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 02:14:45: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 02:14:45: #1 total tags in treatment: 11506136 INFO @ Sat, 06 Jul 2019 02:14:45: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:14:45: #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 02:14:45: #1 tags after filtering in treatment: 7486292 INFO @ Sat, 06 Jul 2019 02:14:45: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 06 Jul 2019 02:14:45: #1 finished! INFO @ Sat, 06 Jul 2019 02:14:45: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:14:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:14:46: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:14:46: 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 02:14:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.10_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/SRX424393/SRX424393.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:14:49: 24000000 INFO @ Sat, 06 Jul 2019 02:14:54: 20000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 02:14:58: 25000000 INFO @ Sat, 06 Jul 2019 02:15:05: 21000000 INFO @ Sat, 06 Jul 2019 02:15:06: 26000000 INFO @ Sat, 06 Jul 2019 02:15:13: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 02:15:13: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 02:15:13: #1 total tags in treatment: 11506136 INFO @ Sat, 06 Jul 2019 02:15:13: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:15:13: #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 02:15:13: #1 tags after filtering in treatment: 7486292 INFO @ Sat, 06 Jul 2019 02:15:13: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 06 Jul 2019 02:15:13: #1 finished! INFO @ Sat, 06 Jul 2019 02:15:13: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:15:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:15:14: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:15:14: 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 02:15:14: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 02:15:16: 22000000 INFO @ Sat, 06 Jul 2019 02:15:26: 23000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.05_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/SRX424393/SRX424393.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:15:37: 24000000 INFO @ Sat, 06 Jul 2019 02:15:48: 25000000 INFO @ Sat, 06 Jul 2019 02:15:58: 26000000 INFO @ Sat, 06 Jul 2019 02:16:06: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 02:16:06: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 02:16:06: #1 total tags in treatment: 11506136 INFO @ Sat, 06 Jul 2019 02:16:06: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:16:06: #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 02:16:06: #1 tags after filtering in treatment: 7486292 INFO @ Sat, 06 Jul 2019 02:16:06: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 06 Jul 2019 02:16:06: #1 finished! INFO @ Sat, 06 Jul 2019 02:16:06: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:16:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:16:07: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:16:07: 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 02:16:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.20_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/SRX424393/SRX424393.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424393/SRX424393.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling