Job ID = 2008329 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,019,237 reads read : 18,038,474 reads written : 18,038,474 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629038.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: 00:17:09 9019237 reads; of these: 9019237 (100.00%) were paired; of these: 563315 (6.25%) aligned concordantly 0 times 7654318 (84.87%) aligned concordantly exactly 1 time 801604 (8.89%) aligned concordantly >1 times ---- 563315 pairs aligned concordantly 0 times; of these: 309554 (54.95%) aligned discordantly 1 time ---- 253761 pairs aligned 0 times concordantly or discordantly; of these: 507522 mates make up the pairs; of these: 326252 (64.28%) aligned 0 times 113353 (22.33%) aligned exactly 1 time 67917 (13.38%) aligned >1 times 98.19% overall alignment rate Time searching: 00:17:09 Overall time: 00:17:15 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] 1893093 / 8724227 = 0.2170 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 19:05:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.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 19:05:41: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:05:41: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.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 19:05:41: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:05:41: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.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 19:05:42: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:05:42: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:05:50: 1000000 INFO @ Fri, 05 Jul 2019 19:05:51: 1000000 INFO @ Fri, 05 Jul 2019 19:05:51: 1000000 INFO @ Fri, 05 Jul 2019 19:06:00: 2000000 INFO @ Fri, 05 Jul 2019 19:06:00: 2000000 INFO @ Fri, 05 Jul 2019 19:06:01: 2000000 INFO @ Fri, 05 Jul 2019 19:06:08: 3000000 INFO @ Fri, 05 Jul 2019 19:06:10: 3000000 INFO @ Fri, 05 Jul 2019 19:06:10: 3000000 INFO @ Fri, 05 Jul 2019 19:06:16: 4000000 INFO @ Fri, 05 Jul 2019 19:06:19: 4000000 INFO @ Fri, 05 Jul 2019 19:06:20: 4000000 INFO @ Fri, 05 Jul 2019 19:06:24: 5000000 INFO @ Fri, 05 Jul 2019 19:06:28: 5000000 INFO @ Fri, 05 Jul 2019 19:06:29: 5000000 INFO @ Fri, 05 Jul 2019 19:06:33: 6000000 INFO @ Fri, 05 Jul 2019 19:06:37: 6000000 INFO @ Fri, 05 Jul 2019 19:06:38: 6000000 INFO @ Fri, 05 Jul 2019 19:06:42: 7000000 INFO @ Fri, 05 Jul 2019 19:06:46: 7000000 INFO @ Fri, 05 Jul 2019 19:06:47: 7000000 INFO @ Fri, 05 Jul 2019 19:06:50: 8000000 INFO @ Fri, 05 Jul 2019 19:06:55: 8000000 INFO @ Fri, 05 Jul 2019 19:06:57: 8000000 INFO @ Fri, 05 Jul 2019 19:06:59: 9000000 INFO @ Fri, 05 Jul 2019 19:07:04: 9000000 INFO @ Fri, 05 Jul 2019 19:07:05: 9000000 INFO @ Fri, 05 Jul 2019 19:07:08: 10000000 INFO @ Fri, 05 Jul 2019 19:07:13: 10000000 INFO @ Fri, 05 Jul 2019 19:07:14: 10000000 INFO @ Fri, 05 Jul 2019 19:07:18: 11000000 INFO @ Fri, 05 Jul 2019 19:07:20: 11000000 INFO @ Fri, 05 Jul 2019 19:07:22: 11000000 INFO @ Fri, 05 Jul 2019 19:07:28: 12000000 INFO @ Fri, 05 Jul 2019 19:07:29: 12000000 INFO @ Fri, 05 Jul 2019 19:07:30: 12000000 INFO @ Fri, 05 Jul 2019 19:07:39: 13000000 INFO @ Fri, 05 Jul 2019 19:07:40: 13000000 INFO @ Fri, 05 Jul 2019 19:07:41: 13000000 INFO @ Fri, 05 Jul 2019 19:07:47: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:07:47: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:07:47: #1 total tags in treatment: 6580431 INFO @ Fri, 05 Jul 2019 19:07:47: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:07:47: #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 19:07:47: #1 tags after filtering in treatment: 3422438 INFO @ Fri, 05 Jul 2019 19:07:47: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 19:07:47: #1 finished! INFO @ Fri, 05 Jul 2019 19:07:47: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:07:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:07:47: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:07:47: 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 19:07:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.10_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/ERX585837/ERX585837.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:07:50: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:07:50: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:07:50: #1 total tags in treatment: 6580431 INFO @ Fri, 05 Jul 2019 19:07:50: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:07:50: #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 19:07:51: #1 tags after filtering in treatment: 3422438 INFO @ Fri, 05 Jul 2019 19:07:51: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 19:07:51: #1 finished! INFO @ Fri, 05 Jul 2019 19:07:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:07:51: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:07:51: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:07:51: #1 total tags in treatment: 6580431 INFO @ Fri, 05 Jul 2019 19:07:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:07:51: #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 19:07:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:07:51: 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 19:07:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.20_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/ERX585837/ERX585837.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:07:51: #1 tags after filtering in treatment: 3422438 INFO @ Fri, 05 Jul 2019 19:07:51: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 19:07:51: #1 finished! INFO @ Fri, 05 Jul 2019 19:07:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:07:51: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:07:51: 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 19:07:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.05_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/ERX585837/ERX585837.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585837/ERX585837.05_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。