Job ID = 2008180 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,498,168 reads read : 20,996,336 reads written : 20,996,336 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629057.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: 00:12:48 10498168 reads; of these: 10498168 (100.00%) were paired; of these: 1392425 (13.26%) aligned concordantly 0 times 7770278 (74.02%) aligned concordantly exactly 1 time 1335465 (12.72%) aligned concordantly >1 times ---- 1392425 pairs aligned concordantly 0 times; of these: 676349 (48.57%) aligned discordantly 1 time ---- 716076 pairs aligned 0 times concordantly or discordantly; of these: 1432152 mates make up the pairs; of these: 1024826 (71.56%) aligned 0 times 176354 (12.31%) aligned exactly 1 time 230972 (16.13%) aligned >1 times 95.12% overall alignment rate Time searching: 00:12:48 Overall time: 00:12:48 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 12 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] 1699396 / 9706704 = 0.1751 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 18:07:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.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 18:07:04: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:07:04: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:07:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.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 18:07:05: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:07:05: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:07:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.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 18:07:06: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:07:06: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:07:13: 1000000 INFO @ Fri, 05 Jul 2019 18:07:16: 1000000 INFO @ Fri, 05 Jul 2019 18:07:17: 1000000 INFO @ Fri, 05 Jul 2019 18:07:23: 2000000 INFO @ Fri, 05 Jul 2019 18:07:26: 2000000 INFO @ Fri, 05 Jul 2019 18:07:28: 2000000 INFO @ Fri, 05 Jul 2019 18:07:32: 3000000 INFO @ Fri, 05 Jul 2019 18:07:35: 3000000 INFO @ Fri, 05 Jul 2019 18:07:40: 3000000 INFO @ Fri, 05 Jul 2019 18:07:42: 4000000 INFO @ Fri, 05 Jul 2019 18:07:45: 4000000 INFO @ Fri, 05 Jul 2019 18:07:51: 5000000 INFO @ Fri, 05 Jul 2019 18:07:52: 4000000 INFO @ Fri, 05 Jul 2019 18:07:54: 5000000 INFO @ Fri, 05 Jul 2019 18:08:01: 6000000 INFO @ Fri, 05 Jul 2019 18:08:04: 6000000 INFO @ Fri, 05 Jul 2019 18:08:04: 5000000 INFO @ Fri, 05 Jul 2019 18:08:10: 7000000 INFO @ Fri, 05 Jul 2019 18:08:13: 7000000 INFO @ Fri, 05 Jul 2019 18:08:17: 6000000 INFO @ Fri, 05 Jul 2019 18:08:20: 8000000 INFO @ Fri, 05 Jul 2019 18:08:23: 8000000 INFO @ Fri, 05 Jul 2019 18:08:30: 9000000 INFO @ Fri, 05 Jul 2019 18:08:30: 7000000 INFO @ Fri, 05 Jul 2019 18:08:33: 9000000 INFO @ Fri, 05 Jul 2019 18:08:39: 10000000 INFO @ Fri, 05 Jul 2019 18:08:42: 10000000 INFO @ Fri, 05 Jul 2019 18:08:43: 8000000 INFO @ Fri, 05 Jul 2019 18:08:49: 11000000 INFO @ Fri, 05 Jul 2019 18:08:52: 11000000 INFO @ Fri, 05 Jul 2019 18:08:55: 9000000 INFO @ Fri, 05 Jul 2019 18:08:58: 12000000 INFO @ Fri, 05 Jul 2019 18:09:01: 12000000 INFO @ Fri, 05 Jul 2019 18:09:08: 13000000 INFO @ Fri, 05 Jul 2019 18:09:08: 10000000 INFO @ Fri, 05 Jul 2019 18:09:11: 13000000 INFO @ Fri, 05 Jul 2019 18:09:17: 14000000 INFO @ Fri, 05 Jul 2019 18:09:20: 14000000 INFO @ Fri, 05 Jul 2019 18:09:22: 11000000 INFO @ Fri, 05 Jul 2019 18:09:26: 15000000 INFO @ Fri, 05 Jul 2019 18:09:29: 15000000 INFO @ Fri, 05 Jul 2019 18:09:35: 12000000 INFO @ Fri, 05 Jul 2019 18:09:36: 16000000 INFO @ Fri, 05 Jul 2019 18:09:39: 16000000 INFO @ Fri, 05 Jul 2019 18:09:41: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:09:41: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:09:41: #1 total tags in treatment: 7453537 INFO @ Fri, 05 Jul 2019 18:09:41: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:09:41: #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 18:09:42: #1 tags after filtering in treatment: 4226558 INFO @ Fri, 05 Jul 2019 18:09:42: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:09:42: #1 finished! INFO @ Fri, 05 Jul 2019 18:09:42: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:09:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:09:42: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:09:42: 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 18:09:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.05_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/ERX585715/ERX585715.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:09:44: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:09:44: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:09:44: #1 total tags in treatment: 7453537 INFO @ Fri, 05 Jul 2019 18:09:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:09:44: #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 18:09:44: #1 tags after filtering in treatment: 4226558 INFO @ Fri, 05 Jul 2019 18:09:44: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:09:44: #1 finished! INFO @ Fri, 05 Jul 2019 18:09:44: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:09:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:09:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:09:45: 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 18:09:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.20_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/ERX585715/ERX585715.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:09:46: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 18:09:57: 14000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 18:10:09: 15000000 INFO @ Fri, 05 Jul 2019 18:10:20: 16000000 INFO @ Fri, 05 Jul 2019 18:10:26: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:10:26: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:10:26: #1 total tags in treatment: 7453537 INFO @ Fri, 05 Jul 2019 18:10:26: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:10:26: #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 18:10:26: #1 tags after filtering in treatment: 4226558 INFO @ Fri, 05 Jul 2019 18:10:26: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:10:26: #1 finished! INFO @ Fri, 05 Jul 2019 18:10:26: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:10:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:10:26: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:10:26: 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 18:10:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.10_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/ERX585715/ERX585715.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585715/ERX585715.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling