Job ID = 2008241 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,040,786 reads read : 14,081,572 reads written : 14,081,572 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628937.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: 00:08:10 7040786 reads; of these: 7040786 (100.00%) were paired; of these: 504399 (7.16%) aligned concordantly 0 times 5889155 (83.64%) aligned concordantly exactly 1 time 647232 (9.19%) aligned concordantly >1 times ---- 504399 pairs aligned concordantly 0 times; of these: 271911 (53.91%) aligned discordantly 1 time ---- 232488 pairs aligned 0 times concordantly or discordantly; of these: 464976 mates make up the pairs; of these: 316001 (67.96%) aligned 0 times 86453 (18.59%) aligned exactly 1 time 62522 (13.45%) aligned >1 times 97.76% overall alignment rate Time searching: 00:08:10 Overall time: 00:08:10 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] 1152732 / 6772676 = 0.1702 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 @ Fri, 05 Jul 2019 18:21:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.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 @ Fri, 05 Jul 2019 18:21:12: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:21:12: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:21:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.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 @ Fri, 05 Jul 2019 18:21:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:21:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:21:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.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 @ Fri, 05 Jul 2019 18:21:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:21:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:21:23: 1000000 INFO @ Fri, 05 Jul 2019 18:21:23: 1000000 INFO @ Fri, 05 Jul 2019 18:21:26: 1000000 INFO @ Fri, 05 Jul 2019 18:21:32: 2000000 INFO @ Fri, 05 Jul 2019 18:21:33: 2000000 INFO @ Fri, 05 Jul 2019 18:21:38: 2000000 INFO @ Fri, 05 Jul 2019 18:21:41: 3000000 INFO @ Fri, 05 Jul 2019 18:21:43: 3000000 INFO @ Fri, 05 Jul 2019 18:21:49: 3000000 INFO @ Fri, 05 Jul 2019 18:21:50: 4000000 INFO @ Fri, 05 Jul 2019 18:21:53: 4000000 INFO @ Fri, 05 Jul 2019 18:21:59: 5000000 INFO @ Fri, 05 Jul 2019 18:22:01: 4000000 INFO @ Fri, 05 Jul 2019 18:22:04: 5000000 INFO @ Fri, 05 Jul 2019 18:22:08: 6000000 INFO @ Fri, 05 Jul 2019 18:22:13: 5000000 INFO @ Fri, 05 Jul 2019 18:22:15: 6000000 INFO @ Fri, 05 Jul 2019 18:22:16: 7000000 INFO @ Fri, 05 Jul 2019 18:22:23: 6000000 INFO @ Fri, 05 Jul 2019 18:22:25: 7000000 INFO @ Fri, 05 Jul 2019 18:22:26: 8000000 INFO @ Fri, 05 Jul 2019 18:22:33: 7000000 INFO @ Fri, 05 Jul 2019 18:22:34: 9000000 INFO @ Fri, 05 Jul 2019 18:22:35: 8000000 INFO @ Fri, 05 Jul 2019 18:22:43: 8000000 INFO @ Fri, 05 Jul 2019 18:22:43: 10000000 INFO @ Fri, 05 Jul 2019 18:22:45: 9000000 INFO @ Fri, 05 Jul 2019 18:22:53: 11000000 INFO @ Fri, 05 Jul 2019 18:22:54: 9000000 INFO @ Fri, 05 Jul 2019 18:22:57: 10000000 INFO @ Fri, 05 Jul 2019 18:22:57: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:22:57: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:22:57: #1 total tags in treatment: 5400905 INFO @ Fri, 05 Jul 2019 18:22:57: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:22:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:22:57: #1 tags after filtering in treatment: 3216879 INFO @ Fri, 05 Jul 2019 18:22:57: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 18:22:57: #1 finished! INFO @ Fri, 05 Jul 2019 18:22:57: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:22:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:22:57: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:22:57: 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 @ Fri, 05 Jul 2019 18:22:57: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:23:05: 10000000 INFO @ Fri, 05 Jul 2019 18:23:07: 11000000 INFO @ Fri, 05 Jul 2019 18:23:12: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:23:12: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:23:12: #1 total tags in treatment: 5400905 INFO @ Fri, 05 Jul 2019 18:23:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:23:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:23:12: #1 tags after filtering in treatment: 3216879 INFO @ Fri, 05 Jul 2019 18:23:12: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 18:23:12: #1 finished! INFO @ Fri, 05 Jul 2019 18:23:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:23:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:23:12: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:23:12: 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 @ Fri, 05 Jul 2019 18:23:12: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.05_peaks.narrowPeak: No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:23:15: 11000000 INFO @ Fri, 05 Jul 2019 18:23:20: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:23:20: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:23:20: #1 total tags in treatment: 5400905 INFO @ Fri, 05 Jul 2019 18:23:20: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:23:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:23:20: #1 tags after filtering in treatment: 3216879 INFO @ Fri, 05 Jul 2019 18:23:20: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 18:23:20: #1 finished! INFO @ Fri, 05 Jul 2019 18:23:20: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:23:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:23:20: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:23:20: 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 @ Fri, 05 Jul 2019 18:23:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 148 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585765/ERX585765.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。