Job ID = 2008217 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,012,433 reads read : 16,024,866 reads written : 16,024,866 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:10:06 8012433 reads; of these: 8012433 (100.00%) were paired; of these: 1202485 (15.01%) aligned concordantly 0 times 6163373 (76.92%) aligned concordantly exactly 1 time 646575 (8.07%) aligned concordantly >1 times ---- 1202485 pairs aligned concordantly 0 times; of these: 239174 (19.89%) aligned discordantly 1 time ---- 963311 pairs aligned 0 times concordantly or discordantly; of these: 1926622 mates make up the pairs; of these: 1636093 (84.92%) aligned 0 times 200214 (10.39%) aligned exactly 1 time 90315 (4.69%) aligned >1 times 89.79% overall alignment rate Time searching: 00:10:07 Overall time: 00:10:07 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] 887650 / 7019604 = 0.1265 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 18:19:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.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 18:19:31: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:19:31: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:19:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.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 18:19:32: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:19:32: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:19:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.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 18:19:39: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:19:39: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:19:45: 1000000 INFO @ Fri, 05 Jul 2019 18:19:45: 1000000 INFO @ Fri, 05 Jul 2019 18:19:48: 1000000 INFO @ Fri, 05 Jul 2019 18:19:54: 2000000 INFO @ Fri, 05 Jul 2019 18:19:54: 2000000 INFO @ Fri, 05 Jul 2019 18:20:02: 2000000 INFO @ Fri, 05 Jul 2019 18:20:02: 3000000 INFO @ Fri, 05 Jul 2019 18:20:02: 3000000 INFO @ Fri, 05 Jul 2019 18:20:10: 4000000 INFO @ Fri, 05 Jul 2019 18:20:11: 4000000 INFO @ Fri, 05 Jul 2019 18:20:11: 3000000 INFO @ Fri, 05 Jul 2019 18:20:17: 5000000 INFO @ Fri, 05 Jul 2019 18:20:20: 5000000 INFO @ Fri, 05 Jul 2019 18:20:21: 4000000 INFO @ Fri, 05 Jul 2019 18:20:25: 6000000 INFO @ Fri, 05 Jul 2019 18:20:28: 6000000 INFO @ Fri, 05 Jul 2019 18:20:31: 5000000 INFO @ Fri, 05 Jul 2019 18:20:32: 7000000 INFO @ Fri, 05 Jul 2019 18:20:35: 7000000 INFO @ Fri, 05 Jul 2019 18:20:40: 8000000 INFO @ Fri, 05 Jul 2019 18:20:40: 6000000 INFO @ Fri, 05 Jul 2019 18:20:42: 8000000 INFO @ Fri, 05 Jul 2019 18:20:47: 9000000 INFO @ Fri, 05 Jul 2019 18:20:50: 7000000 INFO @ Fri, 05 Jul 2019 18:20:50: 9000000 INFO @ Fri, 05 Jul 2019 18:20:55: 10000000 INFO @ Fri, 05 Jul 2019 18:20:57: 10000000 INFO @ Fri, 05 Jul 2019 18:20:59: 8000000 INFO @ Fri, 05 Jul 2019 18:21:02: 11000000 INFO @ Fri, 05 Jul 2019 18:21:04: 11000000 INFO @ Fri, 05 Jul 2019 18:21:08: 9000000 INFO @ Fri, 05 Jul 2019 18:21:09: 12000000 INFO @ Fri, 05 Jul 2019 18:21:12: 12000000 INFO @ Fri, 05 Jul 2019 18:21:14: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:21:14: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:21:14: #1 total tags in treatment: 5929706 INFO @ Fri, 05 Jul 2019 18:21:14: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:21:14: #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 18:21:14: #1 tags after filtering in treatment: 3672157 INFO @ Fri, 05 Jul 2019 18:21:14: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 05 Jul 2019 18:21:14: #1 finished! INFO @ Fri, 05 Jul 2019 18:21:14: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:21:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:21:15: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:21:15: 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 18:21:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.05_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/ERX585745/ERX585745.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:21:16: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:21:16: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:21:16: #1 total tags in treatment: 5929706 INFO @ Fri, 05 Jul 2019 18:21:16: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:21:16: #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 18:21:16: #1 tags after filtering in treatment: 3672157 INFO @ Fri, 05 Jul 2019 18:21:16: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 05 Jul 2019 18:21:16: #1 finished! INFO @ Fri, 05 Jul 2019 18:21:16: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:21:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:21:17: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:21:17: 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 18:21:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.10_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/ERX585745/ERX585745.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:21:17: 10000000 INFO @ Fri, 05 Jul 2019 18:21:26: 11000000 INFO @ Fri, 05 Jul 2019 18:21:35: 12000000 INFO @ Fri, 05 Jul 2019 18:21:41: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:21:41: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:21:41: #1 total tags in treatment: 5929706 INFO @ Fri, 05 Jul 2019 18:21:41: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:21:41: #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 18:21:41: #1 tags after filtering in treatment: 3672157 INFO @ Fri, 05 Jul 2019 18:21:41: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 05 Jul 2019 18:21:41: #1 finished! INFO @ Fri, 05 Jul 2019 18:21:41: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:21:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:21:41: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:21:41: 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 18:21:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.20_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/ERX585745/ERX585745.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585745/ERX585745.20_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。