Job ID = 2011759 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,645,162 reads read : 13,290,324 reads written : 13,290,324 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: 00:05:10 6645162 reads; of these: 6645162 (100.00%) were paired; of these: 322259 (4.85%) aligned concordantly 0 times 4664188 (70.19%) aligned concordantly exactly 1 time 1658715 (24.96%) aligned concordantly >1 times ---- 322259 pairs aligned concordantly 0 times; of these: 75756 (23.51%) aligned discordantly 1 time ---- 246503 pairs aligned 0 times concordantly or discordantly; of these: 493006 mates make up the pairs; of these: 364339 (73.90%) aligned 0 times 77937 (15.81%) aligned exactly 1 time 50730 (10.29%) aligned >1 times 97.26% overall alignment rate Time searching: 00:05:10 Overall time: 00:05:10 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] 1080466 / 6393701 = 0.1690 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 02:38:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.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 02:38:13: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:38:13: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:38:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.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 02:38:14: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:38:14: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:38:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.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 02:38:15: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:38:15: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:38:22: 1000000 INFO @ Sat, 06 Jul 2019 02:38:23: 1000000 INFO @ Sat, 06 Jul 2019 02:38:24: 1000000 INFO @ Sat, 06 Jul 2019 02:38:30: 2000000 INFO @ Sat, 06 Jul 2019 02:38:33: 2000000 INFO @ Sat, 06 Jul 2019 02:38:33: 2000000 INFO @ Sat, 06 Jul 2019 02:38:37: 3000000 INFO @ Sat, 06 Jul 2019 02:38:42: 3000000 INFO @ Sat, 06 Jul 2019 02:38:43: 3000000 INFO @ Sat, 06 Jul 2019 02:38:44: 4000000 INFO @ Sat, 06 Jul 2019 02:38:51: 4000000 INFO @ Sat, 06 Jul 2019 02:38:52: 5000000 INFO @ Sat, 06 Jul 2019 02:38:52: 4000000 INFO @ Sat, 06 Jul 2019 02:38:59: 6000000 INFO @ Sat, 06 Jul 2019 02:38:59: 5000000 INFO @ Sat, 06 Jul 2019 02:39:02: 5000000 INFO @ Sat, 06 Jul 2019 02:39:06: 7000000 INFO @ Sat, 06 Jul 2019 02:39:08: 6000000 INFO @ Sat, 06 Jul 2019 02:39:11: 6000000 INFO @ Sat, 06 Jul 2019 02:39:14: 8000000 INFO @ Sat, 06 Jul 2019 02:39:17: 7000000 INFO @ Sat, 06 Jul 2019 02:39:20: 7000000 INFO @ Sat, 06 Jul 2019 02:39:22: 9000000 INFO @ Sat, 06 Jul 2019 02:39:25: 8000000 INFO @ Sat, 06 Jul 2019 02:39:28: 8000000 INFO @ Sat, 06 Jul 2019 02:39:29: 10000000 INFO @ Sat, 06 Jul 2019 02:39:34: 9000000 INFO @ Sat, 06 Jul 2019 02:39:35: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:39:35: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:39:35: #1 total tags in treatment: 5243853 INFO @ Sat, 06 Jul 2019 02:39:35: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:39:35: #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 02:39:35: #1 tags after filtering in treatment: 3752924 INFO @ Sat, 06 Jul 2019 02:39:35: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 06 Jul 2019 02:39:35: #1 finished! INFO @ Sat, 06 Jul 2019 02:39:35: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:39:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:39:36: #2 number of paired peaks: 41 WARNING @ Sat, 06 Jul 2019 02:39:36: Too few paired peaks (41) 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 02:39:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.10_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/SRX497385/SRX497385.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:39:37: 9000000 INFO @ Sat, 06 Jul 2019 02:39:42: 10000000 INFO @ Sat, 06 Jul 2019 02:39:45: 10000000 INFO @ Sat, 06 Jul 2019 02:39:49: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:39:49: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:39:49: #1 total tags in treatment: 5243853 INFO @ Sat, 06 Jul 2019 02:39:49: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:39:49: #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 02:39:49: #1 tags after filtering in treatment: 3752924 INFO @ Sat, 06 Jul 2019 02:39:49: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 06 Jul 2019 02:39:49: #1 finished! INFO @ Sat, 06 Jul 2019 02:39:49: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:39:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:39:49: #2 number of paired peaks: 41 WARNING @ Sat, 06 Jul 2019 02:39:49: Too few paired peaks (41) 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 02:39:49: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 02:39:52: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:39:52: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:39:52: #1 total tags in treatment: 5243853 INFO @ Sat, 06 Jul 2019 02:39:52: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:39:52: #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 02:39:52: #1 tags after filtering in treatment: 3752924 INFO @ Sat, 06 Jul 2019 02:39:52: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 06 Jul 2019 02:39:52: #1 finished! INFO @ Sat, 06 Jul 2019 02:39:52: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:39:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:39:52: #2 number of paired peaks: 41 WARNING @ Sat, 06 Jul 2019 02:39:52: Too few paired peaks (41) 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 02:39:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.20_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/SRX497385/SRX497385.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling cut: /home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.05_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/SRX497385/SRX497385.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497385/SRX497385.05_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。