Job ID = 2008199 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,509,710 reads read : 13,019,420 reads written : 13,019,420 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629029.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: 00:07:53 6509710 reads; of these: 6509710 (100.00%) were paired; of these: 498034 (7.65%) aligned concordantly 0 times 5419189 (83.25%) aligned concordantly exactly 1 time 592487 (9.10%) aligned concordantly >1 times ---- 498034 pairs aligned concordantly 0 times; of these: 296851 (59.60%) aligned discordantly 1 time ---- 201183 pairs aligned 0 times concordantly or discordantly; of these: 402366 mates make up the pairs; of these: 261628 (65.02%) aligned 0 times 76122 (18.92%) aligned exactly 1 time 64616 (16.06%) aligned >1 times 97.99% overall alignment rate Time searching: 00:07:53 Overall time: 00:07:53 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] 1013262 / 6272271 = 0.1615 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 17:52:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.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 17:52:53: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:52:53: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:52:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.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 17:52:53: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:52:53: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:52:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.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 17:52:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 17:52:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 17:53:04: 1000000 INFO @ Fri, 05 Jul 2019 17:53:05: 1000000 INFO @ Fri, 05 Jul 2019 17:53:05: 1000000 INFO @ Fri, 05 Jul 2019 17:53:14: 2000000 INFO @ Fri, 05 Jul 2019 17:53:15: 2000000 INFO @ Fri, 05 Jul 2019 17:53:16: 2000000 INFO @ Fri, 05 Jul 2019 17:53:24: 3000000 INFO @ Fri, 05 Jul 2019 17:53:26: 3000000 INFO @ Fri, 05 Jul 2019 17:53:27: 3000000 INFO @ Fri, 05 Jul 2019 17:53:34: 4000000 INFO @ Fri, 05 Jul 2019 17:53:37: 4000000 INFO @ Fri, 05 Jul 2019 17:53:38: 4000000 INFO @ Fri, 05 Jul 2019 17:53:45: 5000000 INFO @ Fri, 05 Jul 2019 17:53:48: 5000000 INFO @ Fri, 05 Jul 2019 17:53:50: 5000000 INFO @ Fri, 05 Jul 2019 17:53:54: 6000000 INFO @ Fri, 05 Jul 2019 17:53:59: 6000000 INFO @ Fri, 05 Jul 2019 17:54:00: 6000000 INFO @ Fri, 05 Jul 2019 17:54:05: 7000000 INFO @ Fri, 05 Jul 2019 17:54:10: 7000000 INFO @ Fri, 05 Jul 2019 17:54:11: 7000000 INFO @ Fri, 05 Jul 2019 17:54:17: 8000000 INFO @ Fri, 05 Jul 2019 17:54:22: 8000000 INFO @ Fri, 05 Jul 2019 17:54:24: 8000000 INFO @ Fri, 05 Jul 2019 17:54:28: 9000000 INFO @ Fri, 05 Jul 2019 17:54:35: 9000000 INFO @ Fri, 05 Jul 2019 17:54:36: 9000000 INFO @ Fri, 05 Jul 2019 17:54:40: 10000000 INFO @ Fri, 05 Jul 2019 17:54:47: 10000000 INFO @ Fri, 05 Jul 2019 17:54:48: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 17:54:48: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 17:54:48: #1 total tags in treatment: 5014246 INFO @ Fri, 05 Jul 2019 17:54:48: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 17:54:48: #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 17:54:48: #1 tags after filtering in treatment: 2992435 INFO @ Fri, 05 Jul 2019 17:54:48: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 17:54:48: #1 finished! INFO @ Fri, 05 Jul 2019 17:54:48: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 17:54:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 17:54:49: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 17:54:49: 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 17:54:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.05_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 17:54:49: 10000000 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 17:54:56: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 17:54:56: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 17:54:56: #1 total tags in treatment: 5014246 INFO @ Fri, 05 Jul 2019 17:54:56: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 17:54:56: #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 17:54:56: #1 tags after filtering in treatment: 2992435 INFO @ Fri, 05 Jul 2019 17:54:56: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 17:54:56: #1 finished! INFO @ Fri, 05 Jul 2019 17:54:56: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 17:54:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 17:54:56: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 17:54:56: 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 17:54:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.10_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/ERX585734/ERX585734.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 17:54:58: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 17:54:58: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 17:54:58: #1 total tags in treatment: 5014246 INFO @ Fri, 05 Jul 2019 17:54:58: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 17:54:58: #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 17:54:58: #1 tags after filtering in treatment: 2992435 INFO @ Fri, 05 Jul 2019 17:54:58: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 05 Jul 2019 17:54:58: #1 finished! INFO @ Fri, 05 Jul 2019 17:54:58: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 17:54:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 17:54:58: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 17:54:58: 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 17:54:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.20_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/ERX585734/ERX585734.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585734/ERX585734.20_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。