Job ID = 2011758 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,055,224 reads read : 16,110,448 reads written : 16,110,448 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: 00:04:48 8055224 reads; of these: 8055224 (100.00%) were paired; of these: 2690955 (33.41%) aligned concordantly 0 times 3867169 (48.01%) aligned concordantly exactly 1 time 1497100 (18.59%) aligned concordantly >1 times ---- 2690955 pairs aligned concordantly 0 times; of these: 229722 (8.54%) aligned discordantly 1 time ---- 2461233 pairs aligned 0 times concordantly or discordantly; of these: 4922466 mates make up the pairs; of these: 4670360 (94.88%) aligned 0 times 141847 (2.88%) aligned exactly 1 time 110259 (2.24%) aligned >1 times 71.01% overall alignment rate Time searching: 00:04:48 Overall time: 00:04:48 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] 872611 / 5590880 = 0.1561 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 02:36:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.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 02:36:45: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:36:45: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:36:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.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 02:36:46: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:36:46: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:36:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.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 02:36:47: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:36:47: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:36:52: 1000000 INFO @ Sat, 06 Jul 2019 02:36:55: 1000000 INFO @ Sat, 06 Jul 2019 02:36:55: 1000000 INFO @ Sat, 06 Jul 2019 02:36:59: 2000000 INFO @ Sat, 06 Jul 2019 02:37:01: 2000000 INFO @ Sat, 06 Jul 2019 02:37:03: 2000000 INFO @ Sat, 06 Jul 2019 02:37:06: 3000000 INFO @ Sat, 06 Jul 2019 02:37:08: 3000000 INFO @ Sat, 06 Jul 2019 02:37:11: 3000000 INFO @ Sat, 06 Jul 2019 02:37:12: 4000000 INFO @ Sat, 06 Jul 2019 02:37:15: 4000000 INFO @ Sat, 06 Jul 2019 02:37:19: 4000000 INFO @ Sat, 06 Jul 2019 02:37:19: 5000000 INFO @ Sat, 06 Jul 2019 02:37:22: 5000000 INFO @ Sat, 06 Jul 2019 02:37:25: 6000000 INFO @ Sat, 06 Jul 2019 02:37:26: 5000000 INFO @ Sat, 06 Jul 2019 02:37:28: 6000000 INFO @ Sat, 06 Jul 2019 02:37:31: 7000000 INFO @ Sat, 06 Jul 2019 02:37:34: 6000000 INFO @ Sat, 06 Jul 2019 02:37:34: 7000000 INFO @ Sat, 06 Jul 2019 02:37:38: 8000000 INFO @ Sat, 06 Jul 2019 02:37:41: 8000000 INFO @ Sat, 06 Jul 2019 02:37:42: 7000000 INFO @ Sat, 06 Jul 2019 02:37:44: 9000000 INFO @ Sat, 06 Jul 2019 02:37:47: 9000000 INFO @ Sat, 06 Jul 2019 02:37:49: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:37:49: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:37:49: #1 total tags in treatment: 4503879 INFO @ Sat, 06 Jul 2019 02:37:49: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:37:49: #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 02:37:49: #1 tags after filtering in treatment: 3212301 INFO @ Sat, 06 Jul 2019 02:37:49: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 06 Jul 2019 02:37:49: #1 finished! INFO @ Sat, 06 Jul 2019 02:37:49: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:37:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:37:49: #2 number of paired peaks: 46 WARNING @ Sat, 06 Jul 2019 02:37:49: Too few paired peaks (46) 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 02:37:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.05_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/SRX497384/SRX497384.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:37:50: 8000000 INFO @ Sat, 06 Jul 2019 02:37:52: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:37:52: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:37:52: #1 total tags in treatment: 4503879 INFO @ Sat, 06 Jul 2019 02:37:52: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:37:52: #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 02:37:52: #1 tags after filtering in treatment: 3212301 INFO @ Sat, 06 Jul 2019 02:37:52: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 06 Jul 2019 02:37:52: #1 finished! INFO @ Sat, 06 Jul 2019 02:37:52: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:37:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:37:52: #2 number of paired peaks: 46 WARNING @ Sat, 06 Jul 2019 02:37:52: Too few paired peaks (46) 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 02:37:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.20_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/SRX497384/SRX497384.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:37:57: 9000000 INFO @ Sat, 06 Jul 2019 02:38:03: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:38:03: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:38:03: #1 total tags in treatment: 4503879 INFO @ Sat, 06 Jul 2019 02:38:03: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:38:03: #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 02:38:03: #1 tags after filtering in treatment: 3212301 INFO @ Sat, 06 Jul 2019 02:38:03: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 06 Jul 2019 02:38:03: #1 finished! INFO @ Sat, 06 Jul 2019 02:38:03: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:38:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:38:03: #2 number of paired peaks: 46 WARNING @ Sat, 06 Jul 2019 02:38:03: Too few paired peaks (46) 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 02:38:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.10_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/SRX497384/SRX497384.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX497384/SRX497384.10_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。