Job ID = 2011216 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,220,164 reads read : 16,440,328 reads written : 16,440,328 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146721.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: 00:06:27 8220164 reads; of these: 8220164 (100.00%) were paired; of these: 617027 (7.51%) aligned concordantly 0 times 6390460 (77.74%) aligned concordantly exactly 1 time 1212677 (14.75%) aligned concordantly >1 times ---- 617027 pairs aligned concordantly 0 times; of these: 243309 (39.43%) aligned discordantly 1 time ---- 373718 pairs aligned 0 times concordantly or discordantly; of these: 747436 mates make up the pairs; of these: 497968 (66.62%) aligned 0 times 114834 (15.36%) aligned exactly 1 time 134634 (18.01%) aligned >1 times 96.97% overall alignment rate Time searching: 00:06:27 Overall time: 00:06:27 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 8 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] 902949 / 7728103 = 0.1168 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 02:02:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.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 02:02:27: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:02:27: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:02:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.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 02:02:28: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:02:28: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:02:33: 1000000 INFO @ Sat, 06 Jul 2019 02:02:35: 1000000 INFO @ Sat, 06 Jul 2019 02:02:39: 2000000 INFO @ Sat, 06 Jul 2019 02:02:41: 2000000 INFO @ Sat, 06 Jul 2019 02:02:45: 3000000 INFO @ Sat, 06 Jul 2019 02:02:48: 3000000 INFO @ Sat, 06 Jul 2019 02:02:51: 4000000 INFO @ Sat, 06 Jul 2019 02:02:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.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 02:02:51: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:02:51: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:02:54: 4000000 INFO @ Sat, 06 Jul 2019 02:02:57: 5000000 INFO @ Sat, 06 Jul 2019 02:02:57: 1000000 INFO @ Sat, 06 Jul 2019 02:03:01: 5000000 INFO @ Sat, 06 Jul 2019 02:03:03: 6000000 INFO @ Sat, 06 Jul 2019 02:03:04: 2000000 INFO @ Sat, 06 Jul 2019 02:03:07: 6000000 INFO @ Sat, 06 Jul 2019 02:03:09: 7000000 INFO @ Sat, 06 Jul 2019 02:03:11: 3000000 INFO @ Sat, 06 Jul 2019 02:03:14: 7000000 INFO @ Sat, 06 Jul 2019 02:03:15: 8000000 INFO @ Sat, 06 Jul 2019 02:03:17: 4000000 INFO @ Sat, 06 Jul 2019 02:03:20: 8000000 INFO @ Sat, 06 Jul 2019 02:03:21: 9000000 INFO @ Sat, 06 Jul 2019 02:03:24: 5000000 INFO @ Sat, 06 Jul 2019 02:03:26: 10000000 INFO @ Sat, 06 Jul 2019 02:03:27: 9000000 INFO @ Sat, 06 Jul 2019 02:03:30: 6000000 INFO @ Sat, 06 Jul 2019 02:03:32: 11000000 INFO @ Sat, 06 Jul 2019 02:03:34: 10000000 INFO @ Sat, 06 Jul 2019 02:03:37: 7000000 INFO @ Sat, 06 Jul 2019 02:03:38: 12000000 INFO @ Sat, 06 Jul 2019 02:03:40: 11000000 INFO @ Sat, 06 Jul 2019 02:03:43: 8000000 INFO @ Sat, 06 Jul 2019 02:03:44: 13000000 INFO @ Sat, 06 Jul 2019 02:03:47: 12000000 INFO @ Sat, 06 Jul 2019 02:03:50: 9000000 INFO @ Sat, 06 Jul 2019 02:03:50: 14000000 INFO @ Sat, 06 Jul 2019 02:03:51: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:03:51: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:03:51: #1 total tags in treatment: 6717494 INFO @ Sat, 06 Jul 2019 02:03:51: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:03:51: #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 02:03:51: #1 tags after filtering in treatment: 5178060 INFO @ Sat, 06 Jul 2019 02:03:51: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:03:51: #1 finished! INFO @ Sat, 06 Jul 2019 02:03:51: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:03:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:03:52: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:03:52: 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 02:03:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.05_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/SRX455431/SRX455431.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:03:53: 13000000 INFO @ Sat, 06 Jul 2019 02:03:57: 10000000 INFO @ Sat, 06 Jul 2019 02:04:00: 14000000 INFO @ Sat, 06 Jul 2019 02:04:01: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:04:01: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:04:01: #1 total tags in treatment: 6717494 INFO @ Sat, 06 Jul 2019 02:04:01: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:04:01: #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 02:04:01: #1 tags after filtering in treatment: 5178060 INFO @ Sat, 06 Jul 2019 02:04:01: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:04:01: #1 finished! INFO @ Sat, 06 Jul 2019 02:04:01: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:04:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:04:01: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:04:01: 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 02:04:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.10_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/SRX455431/SRX455431.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:04:03: 11000000 INFO @ Sat, 06 Jul 2019 02:04:10: 12000000 INFO @ Sat, 06 Jul 2019 02:04:16: 13000000 INFO @ Sat, 06 Jul 2019 02:04:22: 14000000 INFO @ Sat, 06 Jul 2019 02:04:23: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:04:23: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:04:23: #1 total tags in treatment: 6717494 INFO @ Sat, 06 Jul 2019 02:04:23: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:04:23: #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 02:04:24: #1 tags after filtering in treatment: 5178060 INFO @ Sat, 06 Jul 2019 02:04:24: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 06 Jul 2019 02:04:24: #1 finished! INFO @ Sat, 06 Jul 2019 02:04:24: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:04:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:04:24: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:04:24: 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 02:04:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.20_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/SRX455431/SRX455431.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455431/SRX455431.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。